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Biology, Forestry; similarity relation neighborhoods, similarity relation decomposition, statistical analysis of within-set variability
Online: 23 October 2018 (18:12:37 CEST)
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Maximally similar sets (MSS) are sets of elements that share a neighborhood in a high-dimensional space defined by symmetric, reflexive similarity relation. Each element of the universe is employed as the kernel of a neighborhood of a given size (number of members), and elements are added to the neighborhood in order of similarity to the current members of the set until the desired neighborhood size is achieved. The set of neighborhoods is then reduced to the set of unique maximally similar sets by eliminating all sets that are permutations of an existing set. Subsequently, the within-MSS variability of attributes associated with the elements is compared to random sets of the same size to estimate the probability of obtaining variability as low as observed. Individual attributes can be compared for effect size by the ratio of within-MSS variability to random set variability, correcting for statistical power as necessary. The analyses performed identify constraints, as opposed to determinants, in the triangular distribution of pair-wise element similarity. In the example given here, the variability in spring temperature, summer temperature, and growing degree days of forest vegetation samples shows the greatest constraint on forest composition of a large set of candidate environmental variables
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Biology, Other; poor blood circulation; Ecklonia cava; phlorotannins; pyrogallol-phloroglucinol-6,6-bieckol; functional ingredients; endothelial cell death; vascular smooth muscle cell proliferation and migration; inflammation
Online: 23 October 2018 (11:39:50 CEST)
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Ecklonia cava (E.cava) can alleviate vascular dysfunction in diseases associated with poor circulation. E. cava contains various polyphenols with different functions, but few studies have compared the effects of these polyphenols. Here, we comparatively investigated four major compounds present in an ethanoic extract of E. cava. These four major compounds were isolated and their effects were examined on monocyte-associated vascular inflammation and dysfunctions. Pyrogallol-phloroglucinol-6,6-bieckol (PPB) significantly inhibited monocyte migration in vitro by reducing levels of inflammatory macrophage differentiation and of its related molecular factors. In addition, PPB protected against monocyte-associated endothelial cell death by increasing the phosphorylations of PI3K-AKT and AMPK, decreasing caspase levels, and reducing monocyte-associated vascular smooth muscle cell proliferation and migration by decreasing the phosphorylations of ERK and AKT. The results of this study show that four compounds were effective for reduction of monocyte-associated vascular inflammation and dysfunctions, but PPB might be more useful for the treatment of vascular dysfunction in diseases associated with poor circulation.
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Biology, Agricultural Sciences & Agronomy; object detection; tomato organ; K-means clustering; Soft-NMS; migration learning; convolutional neural network; deep learning
Online: 23 October 2018 (09:57:44 CEST)
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In the current natural environment, due to the complexity of the background and the high similarity of the color between immature green tomato and plant, the occlusion of the key organs (flower and fruit) by the leaves and stems will lead to low recognition rate and poor generalization of the detection model. Therefore, an improved tomato organ detection method based on convolutional neural network has been proposed in this paper. Based on the original Faster R-CNN algorithm, Resnet-50 with residual blocks was used to replace the traditional vgg16 feature extraction network, and K-means clustering method was used to adjust more appropriate anchor size than manual setting to improve detection accuracy. A variety of data augmentation techniques were used to train the network. The test results showed that compared with the traditional Faster R-CNN model, the mean average precision (mAP) of the optimal model was improved from 85.2% to 90.7%, the memory requirement decreased from 546.9MB to 115.9 MB, and the average detection time was shortened to 0.073S/sheet. As the performance greatly improved, the training model can be transplanted to the embedded system, which lays a theoretical foundation for the development of precise targeting pesticide application system and automatic picking device.
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Biology, Other; spatiotemporal neural dynamics; vision; dorsal and ventral streams; multivariate pattern analysis; representational similarity analysis; fMRI; MEG
Online: 23 October 2018 (08:41:16 CEST)
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To build a representation of what we see, the human brain recruits regions throughout the visual cortex in cascading sequence. Recently, an approach was proposed to evaluate the dynamics of visual perception in high spatiotemporal resolution at the scale of the whole brain. This method combined functional magnetic resonance imaging (fMRI) data with magnetoencephalography (MEG) data using representational similarity analysis and revealed a hierarchical progression from primary visual cortex through the dorsal and ventral streams. To assess the replicability of this method, here we present results of a visual recognition neuro-imaging fusion experiment, and compare them within and across experimental settings. We evaluated the reliability of this method by assessing the consistency of the results under similar test conditions, showing high agreement within participants. We then generalized these results to a separate group of individuals and visual input by comparing them to the fMRI-MEG fusion data of Cichy et al. (2016), revealing a highly similar temporal progression recruiting both the dorsal and ventral streams. Together these results are a testament to the reproducibility of the fMRI-MEG fusion approach and allows for the interpretation of these spatiotemporal dynamic in a broader context.
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Biology, Forestry; acacia species; allometric equation; above ground biomass; carbon stock
Online: 18 October 2018 (17:58:15 CEST)
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Allometric equations are used to estimate accurate biomass and carbon stock of forests. However, in Ethiopia only few allometric equations as compared to its floral diversity and species-specific allometric equations for Acacia species are still not developed in Ethiopia. The numbers of tree marked for sampling are Fifty-four (54) using preferential sampling. Diameter at breast height, wood density and tree height were collected as independent variables to predict species specific dry biomass of Acacia species. The new species-specific allometric models have been performed using linear regression analysis in the R software. The Above ground biomass (AGB) have been validated using quantitative statically using the pantropic model. Six candidate models have been developed for each species and four best models for each species of dry biomass was selected based on goodness-of-fit statistics and equation performance analysis of the candidate models. The best model for predicting above ground biomass for Acacia seyal is 0.20636*((DBH2)Hρ) 0.53167, for Acacia polyacantha is 7.26982((DBH)2Hρ)0.21750, for Acacia ethibcia is 29.01898*((DBH)2Hρ)0.21518 and for Acacia toritolis is 3.82427*((DBH)2Hρ)0.16748. The selected models are the best performing (P> 0.01) and higher adjusted R2 (>80%) and has lower Akaike’s Information Criteria (AIC) and residual standard error (RSE) values as comparing the rest of the model. The validation of new developed biomass model using Tukey test indicated that significant variation of mean biomass (P<0.05) between the new developed model and the generalized model. The statistics model performance analysis of Nash-Sutcliffe efficiency (NSE) value is approaching to one, indicating that the new developed model has better performance model as compared with generalized model. Moreover, the percent bias of the new developed models is close to zero which indicates that the site-specific biomass models have more accurate estimator and the generalized biomass models have overestimated biomass for the four Acacia species.
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Biology, Animal Sciences & Zoology; milk protein; amino acids; milk protein synthesis; omics; mammary gland
Online: 18 October 2018 (12:15:44 CEST)
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With deep knowledge and numerous researches about DNA in addition to recent advances in molecular biology and omics analysis methodology, manipulation of DNA transcription becomes possible that may eventually affect protein expression. Possible posttranscriptional modifications such as phosphorylation of proteins could also greatly affect protein expression. There are vast evidences showing that synthesis of milk protein is strongly regulated by several factors such as insulin, amino acids and their specific amino acid transporters as well as various energy sources through transcriptional and posttranscriptional pathways with insulin-mTOR pathway serving as the central point. Available latest data suggest the possibility of nutrigenomic interventions to manipulate milk protein synthesis by supplying amino acids and different energy sources. This could greatly contribute to major progress in understanding milk protein synthesis. With improvement of ‘omics’ tools, utilization of these tools in our future studies would help us fully understand the mechanism behind. This could lead to possible control and manipulation of milk protein synthesis in mammary gland.
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Biology, Plant Sciences; Dendrobium officinale; ITS; loop-mediated isothermal amplification; identification; rapid
Online: 18 October 2018 (08:15:37 CEST)
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Background: Dendrobium officinale is not only an ornamental plant, but also a valuable medicinal herb that is both effective and widely used in traditional Chinese medicine. However, distinguishing D. officinale from other Dendrobium species is usually a difficult task that need much time and complex technologies due to their very similar external morphologies. The aim of this study is to develop a fast, even on-spot approach to identify D. officinale. Methods: We used DNA barcode-based loop-mediated isothermal amplification (LAMP) method with species-specific LAMP primers targeting the internal transcribed spacer (ITS) region of the rDNA of D. officinale. LAMP reaction time and temperature were optimized and the specificity and sensitivity of LAMP species-specific primers were assessed. Results: This technique showed a high specificity and sensitivity to amplify the genomic DNA of D. officinale and allowed for rapid amplification (within 40 min) of the ITS region under a constant and mild temperature range of 65 °C without using thermocyclers. Besides, by using SYBR® Green I dye as the color developing agent, the color change was easily observed with naked eye. Reaction mixture containing DNA of D. officinale changed from orange to green, while the other Dendrobium species and the negative control retained original orange color. The specificity of this LAMP-based method was confirmed by testing 17 samples of D. officinale and 32 adulterant samples from other Dendrobium species. Conclusions: This LAMP-based rapid identification method does not require expensive equipment or specialized techniques and can be used in field surveys for accurate and fast on site identification.
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Biology, Agricultural Sciences & Agronomy; intercropping; microbial community; high throughput sequencing; nifH gene; sugarcane
Online: 17 October 2018 (12:20:19 CEST)
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Intercropping significantly improves land use efficiency and soil fertility. This study examines the impact of three cultivation systems (monoculture sugarcane, peanut-sugarcane and soybean-sugarcane intercropping) on soil properties and diazotrophs. Sugarcane rhizosphere soil was sampled from the farmers’ field. Soil properties and nifH gene abundance were analyzed by high throughput sequencing. Moreover, a total of 436,458 nifH gene sequences were obtained and classified into the 3201 unique operational taxonomic units (OTUs). Maximum unique OTUs resulted with soybean-sugarcane intercropping (<375). The dominant groups across all cultivation were Alpha-proteobacteria and Beta-proteobacteria. On the basis of microbial community structure, intercropping systems were more diverse than monoculture sugarcane. In the genus level, Bradyrhizobium, Burkholderia, Pelomonas, and Sphingomonas were predominant in the intercropping systems. Moreover, diazotrophic bacterial communities of these cultivation systems were positively correlated to the soil pH and soil enzyme protease. Moreover, low available P recovered from intercropping system showed a strong correlation with higher nutrient uptake activity of soil microbes. Based on the results, our investigation concluded that intercropping system caused a positive effect on the growth of diazotrophic bacterial communities and it might boost the soil fertility and this kind of study helps to develop an eco-friendly technology for sustainable sugarcane production.
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Biology, Plant Sciences; Juniperion lagunae; cross-border cooperation; landscape evolution; cluster analysis; conservation; sustainable development; territorial cohesion; Ombroedaphoxeric Index; phytosociology; SCI areas
Online: 16 October 2018 (14:33:03 CEST)
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We have studied Juniperus oxycedrus subsp. badia in the central and southern Iberian Peninsula. Here, the macrobioclimate ranges from Mediterranean-pluviseasonal-oceanic and Mediterranean-pluviseasonal-continental, thermotype from thermomediterranean and supramediterranean. The relevés were taken following the Braun-Blanquet phytosociological methodology. A statistical treatment was applied to establish a separation among Juniperus communities. To understand the presence of Juniperus communities in territories dominated by species of the genus Quercus, we applied the formula of Thornthwaite to calculate potential evapotranspiration. The general cluster analysis clearly separates two groups of plant communities and separates the different associations in each group. All plant communities growing on rocky crests and in steeply extreme sloping areas are significantly influenced by the soil. The Ombroclimatic Index does not explain the presence of plant communities influenced by substrate: so, we propose a new Ombroedaphoxeric Index which explains the presence of the Juniperus communities in territories with a thermotype ranging from the thermo to the supramediterranean belt. The areas of distribution of Juniperus species are expanding due to the spread of rocky areas: this phenomenon causes a rise in edaphoxerophilous areas and a decrease in climatophilous one. We propose four new plant associations and with this update on their structures and floristic compositions, it is possible to make an efficient form of conservation in both territories studied (Spain and Portugal) with specific cross-border-cooperation projects.
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Biology, Physiology; 4-octylphenol; male sertoli cells; reproductive toxicity; apoptosis; mitochondria
Online: 16 October 2018 (10:35:47 CEST)
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The toxic effects of 4-octylphenol (4-OP) have been studied in species such as mouse and fish; however, the toxic effects of 4-OP in male specific niche cells has not been researched. In this study, we investigated the molecular mechanism of toxicity of 4-OP in mouse TM4 Sertoli cells. TM4 cells were treated with four concentrations (0, 10, 30, and 50 µM/mL) of 4-OP at time points 24, 48, and 72 h. Cell viability and apoptosis assay was conducted following exposure. 4-OP significantly decreased cell viability in a concentration- and time-dependent manner, and increased apoptosis. Quantitative PCR analysis showed that Bad, Bax, and Bak mRNA expression levels were higher in exposed cells than in the control, but Bcl-2 expression was decreased. Western blotting revealed that 4-OP induced activities of caspase-3 and phosphorylation of Bad in a concentration- and time-dependent manner. Additionally, cytochrome C protein did not colocalize with mitochondria marker dye by 24 h. Cytochrome c protein expression increased in a time-dependent manner with 50 µM/mL. These results suggest that 4-OP induces mitochondria-mediated apoptosis by regulation of Bcl-2 family proteins and caspase-3 activation in male Sertoli cells.
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Biology, Forestry; Insects, Forest, Fungi, ITS1, metagenomics, NGS, Oomycete, Phytopathogens, Phytophthora, vectors
Online: 15 October 2018 (20:52:27 CEST)
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Understanding ecological interactions is a key in managing phytopathology. Although entomologists rely mostly on both traditional molecular methods and morphological characteristics to identify pests, next-generation sequencing is becoming the go-to avenue for scientists studying fungal and oomycete phytopathogens. These organisms sometimes infect plants together with insects. There are many relationships yet to be discovered and much to learn about how these organisms interact with one another. Considering the growing number of exotic insect introductions in Canada, a high-throughput strategy for screening those insects is already implemented by the Canadian Food Inspection Agency (CFIA). However, no plan is deployed to investigate the phytopathogenic fungal and oomycete species interacting with insects. Metagenomics analysis was performed on the preservation fluids from CFIA’s insect traps across Canada. Using the Ion Torrent PGM technology and fusion primers for multiplexing and indexing, community profiling was conducted on the different semiochemicals used in the insect traps and the various areas where these traps were placed. Internal transcribed spacer 1 (fungi and oomycetes) and adenosine triphosphate synthase subunit 9-nicotinamide adenine dinucleotide dehydrogenase subunit 9 spacer amplicons were generated. Although direct links between organisms could not be established, moderately phytopathogenic fungi (e.g., Leptographium spp. and Meria laricis) and oomycetes (mainly Peronospora spp. and Pythium spp.) unique to every type of semiochemical were discovered. The entomopathogenic yeast Candida michaelii was also detected. This project demonstrated our ability to screen for unwanted species faster and at a higher scale and throughput than traditional pathogen diagnostic techniques. Additionally, minimal modifications to this approach would allow it to be used in other phytopathology fields.
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Biology, Other; Cancer; cancer therapies; cancer recurrence; stem cells; porphine-related macrocycles, enhanced targeting; nanomedicine
Online: 12 October 2018 (16:31:03 CEST)
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Deregulation of cell growth and development lead to cancer, a severe condition that claims millions of lives worldwide. Targeted or selective approaches used during cancer treatment determine the efficacy and outcome of the therapy. In order to enhance specificity and targeting and better treatment options for cancer, novel and alternative modalities are currently under development. Photodynamic therapy has the potential to eradicate cancer and combination therapy would yield even greater outcomes. Nanomedicine-aided cancer therapy shows enhanced specificity for cancer cells and minimal side-effects coupled with effective cancer destruction both in vitro and in vivo. Nanocarriers used in drug-delivery systems are well able to penetrate cancer stem cell niche, simultaneously killing cancer cells and eradicate drug-resistant cancer stem cells, yielding therapeutic efficiency up to 100 fold against drug-resistant cancer in comparison with free drugs. Safety precautions should be considered when using Nano-mediated therapy as the effects of extended exposure to biological environments are still to be determined.
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Biology, Other; essential oils; drug resistant microorganisms; antimicrobial activity; antifungal activity; medicinal plants
Online: 11 October 2018 (13:51:16 CEST)
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Antimicrobial resistance (AMR) is a recurring global problem, which constantly demands new antimicrobial compounds to challenge the resistance. It is well known that essential oils (EOs) have been known for biological activities including antimicrobial properties. In this study, EOs from seven aromatic plants of Asir region of southwestern Saudi Arabia were tested for their antimicrobial efficacy against four drug resistant pathogenic bacterial isolates (Staphylococcus aureus, Streptococcus pyogenes, Escherichia coli and Streptococcus typhimurium) and one fungal isolate (Candida albicans). Chemical compositions of EOs were determined by Gas chromatography-Mass Spectrometry (GC-MS). The results revealed that EOs from Mentha cervina, Ocimum basilicum and Origanum vulgare proved most active against all isolates with inhibitory zone range between17 to 45 mm. The lowest minimum inhibitory concentration (MIC) of 0.025mg/ml was observed for Staph. aureus and Streptococcus pyogenes with EO of Origanum vulgare. All the three EOs showed significant anti candida activity. Together form the results the EOs from Mentha cervina, Ocimum basilicum and Origanum vulgare demonstrated a significant antimicrobial efficacy against drug resistant microorganisms.
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Biology, Agricultural Sciences & Agronomy; biochar; surface area; enzyme activity; immobilization; protein assay
Online: 11 October 2018 (09:49:15 CEST)
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Extracellular enzymes catalyze biogeochemical reactions in soil, cycling carbon and nutrients in agricultural systems. Enzymes respond quickly to soil management, including organic amendment inputs, such as biochar, a charcoal-like solid byproduct of bioenergy production. In a previous agricultural field trial, a pine biochar amendment caused an approximately 40% decrease in the enzyme activities of β-glucosidase (BG) and phosphatase (PHOS). The large surface area of the pine biochar has the potential to sorb nutrients and other organic molecules. To test if sorption caused decreased enzyme activity, we used a laboratory assay to quantify the activity of two sorbed enzymes: BG and acid PHOS, involved in the cycling of carbon and phosphorous. The enzymes were incubated with three solid phases: (1) the high surface area pine biochar, (2) the agricultural soil, and (3) a low surface area grass biochar, for an additional comparison. We quantified the sorbed enzymes at pH 6, 7, and 8, using a Bradford protein assay, and measured the immobilized enzyme activities via high-throughput fluorometric analysis. After sorption onto pine biochar, detectable BG and PHOS activity levels dropped by over 95% relative to the soil, supporting direct sorption as one mechanism that reduces enzyme activity in biochar amended soil. This laboratory assay demonstrated that sorption could account for the lack of priming of native soil organic matter and changes in soil phosphorous cycling after pine biochar addition.
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Biology, Other; Influenza virus; within-host viral dynamics; spatial spread; within-host evolution
Online: 11 October 2018 (09:36:15 CEST)
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The spread of viral pathogens both between and within hosts is inherently a spatial process. While the spatial aspects of viral spread at the epidemiological level have been increasingly well characterized, the spatial aspects of viral spread within infected hosts are still understudied. Recent experimental studies, however, have started to shed more light on the mechanisms and spatial dynamics of viral spread within hosts. Here, we review these experimental studies as well as the limited number of computational modeling efforts that have begun to integrate spatial considerations for understanding within-host viral spread. We limit our review to influenza virus to highlight key mechanisms affecting spatial aspects of viral spread for pathogens of the respiratory tract. There is considerable empirical evidence for highly spatial within-host spread of influenza virus, yet few computational modeling studies that shed light on possible factors that structure the dynamics of this spatial spread. In existing modeling studies, there is also a striking absence of theoretical expectations of how spatial dynamics may impact the dynamics of viral populations. To mitigate this, we turn to the extensive ecological and evolutionary literature to provide informed theoretical expectations for what viral and host factors may impact the spatial patterns of within-host viral dynamics and for how spatial spread will affect the genetic composition of within-host viral populations. We end by discussing current knowledge gaps related to the spatial component of within-host influenza virus spread and the potential for within-host spatial considerations to inform the development of disease control strategies.
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Biology, Entomology; dengue; Aedes mosquitoes; environmental factor
Online: 10 October 2018 (11:49:35 CEST)
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Background: Dengue incidence has grown dramatically around the world in recent years. It transmitted by Aedes mosquitoes. Many factors contributed to the vector densities such as environmental and sociological factors. Objective: This study is aimed at determining the environmental and sociological factors contributing to dengue cases. Methods: The study used questionnaire survey involving 379 respondent with dengue history. Result: The study showed that there is significant association between the time departs to work and mobility of respondents (95%CI = 2.779 and 5.594, p < 0.0001). Similarly, there is significant association between the time of arrival to work and mobility of respondents (95%CI = 1.617 and 2.155, p < 0.0001). Moreover, the type of housing and the surrounding vegetation were the environmental factors that showed significant values; p = 0.023, and p = 0.017. Conclusion: The study indicated the factors contributed are patient who lived in independent houses and the time of mobility patient.
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Biology, Anatomy & Morphology; heparanase; extracellular matrix (ECM)
Online: 10 October 2018 (06:09:40 CEST)
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Heparanase (HPSE) has been defined as a multitasking protein that exhibits a peculiar enzymatic activity towards HS chains but which simultaneously performs other non-enzymatic functions. Through its enzymatic activity, HPSE catalyzes the cutting of the side chains of heparan sulfate (HS) proteoglycans, thus contributing to the remodeling of the extracellular matrix and of the basal membranes. Furthermore, thanks to this activity, HPSE also promotes the release and diffusion of various HS-linked molecules as growth factors, cytokines and enzymes. In addition to being an enzyme HPSE has been shown to possess the ability to trigger different signaling pathways by interacting with transmembrane proteins. In normal tissue and in physiological conditions, HPSE exhibits only low levels of expression restricted only to keratinocytes, trophoblast, platelets and mast cells and leukocytes. On the contrary, in pathological conditions, such as in tumor progression and metastasis, inflammation and fibrosis, it is overexpressed. With this brief review, we intend to provide an update on current knowledge about the different role of HPSE protein exerted by its enzymatic and not-enzymatic activity.
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Biology, Forestry; drought, oak, nitrogen, phosphorus, remote sensing, machine learning
Online: 9 October 2018 (17:53:56 CEST)
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Oak is a European tree species highly sensitive to drought. If declining symptoms appear they are often detectable at the crown (such as dieback) enabling monitoring using aerial images and remote sensing methods. Here, we analyzed the impact of short and long-term drought on oaks located in central Poland, between the years of 2014 and 2017. We used leaf nitrogen (N) and phosphorus (P) concentrations measured in the laboratory, aerial images collected in the range of 460-880 nm and machine learning techniques to estimate nutrient concentrations on the > 4000 oaks growing on gleysoil in the study area. We determined a negative impact on N and P concentrations during both types of drought stress (-23% and 19% for N concentration in leaves; -27% and -10% for P concentration in leaves) and an inconsiderable impact on N:P values (3% increase of N:P ration during short and 7% decrease of N:P ration during long-term drought stress). We found that the long-term drought impact was spatially diverse, possibly depending on the presence of drainage ditches and competing species.
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Biology, Animal Sciences & Zoology; long non-coding RNA; bovine mammary gland; linseed/safflower oil; lipid metabolism; fatty acid synthesis; cis-regulation
Online: 9 October 2018 (12:53:39 CEST)
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This study aimed to characterize the long non-coding RNA (lncRNA) expression in the bovine mammary gland and to infer their functions in dietary response to 5% linseed oil (LSO) or 5% safflower oil (SFO). Twelve cows (six per treatment) in mid lactation were fed a control diet for 28 days followed by a treatment period (control diet supplemented with 5% LSO or 5% SFO) of 28 days. Mammary gland biopsies were collected from each animal on day-14 (D-14, control period), D+7 (early treatment period) and D+28 (late treatment period) and were subjected to RNA-Sequencing and subsequent bioinformatics analyses. Functional enrichment of lncRNA was performed via potential cis regulated target genes located within 50 Kb flanking regions of lncRNAs and having expression correlation of >0.7 with mRNAs. A total of 4955 lncRNAs (325 known and 4630 novel) were identified which potentially cis targeted 59 and 494 genes in LSO and SFO treatments, respectively. Enrichments of cis target genes of lncRNAs indicated potential roles of lncRNAs in immune function, nucleic acid metabolism and cell membrane organization processes as well as involvement in Notch, cAMP and TGF-β signaling pathways. Thirty-two and 21 lncRNAs were differentially expressed (DE) in LSO and SFO treatments, respectively. Six genes (KCNF1, STARD13, BCL6, NXPE2, HHIPL2 and MMD) were identified as potential cis target genes of six DE lncRNAs. In conclusion, this study indicated potential roles for lncRNAs in mammary gland immune functions and development and provided potential candidate genes and pathways via which lncRNAs can function in diet responses.
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Biology, Plant Sciences; ornamental flowering plants; constructed wetlands; wastewater; pollutants
Online: 9 October 2018 (08:22:39 CEST)
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The vegetation in constructed wetlands (CWs) plays an important role in wastewater treatment. Popularly, the common emergent plants in CWs have been vegetation of natural wetlands. However, there are ornamental flowering plants that have some physiological characteristics similar to the plants of natural wetlands that can stimulate the removal of pollutants in wastewater treatments; such importance in CWs is described here. A literature survey of 87 CWs from 21 countries showed that the four most commonly used flowering ornamental vegetation genera were Canna, Iris, Heliconia and Zantedeschia. In terms of geographical location, Canna spp. is commonly found in Asia, Zantedeschia spp. is frequent in Mexico (a country in North America), Iris is most commonly used in Asia, Europe and North America, and species of the Heliconia genus are commonly used in Asia and parts of the Americas (Mexico, Central and South America). This review also compares the use of ornamental plants versus natural wetland plants and systems without plants for removing pollutants (COD, BOD, nitrogen and phosphorous compounds). The removal efficiency was similar between flowering ornamental and natural wetland plants. However, pollutant removal was better when using ornamental plants than in unplanted CWs. The use of ornamental flowering plants in CWs is an excellent option, and efforts should be made to increase the adoption of these system types and use them in domiciliary, rural and urban areas.
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Biology, Agricultural Sciences & Agronomy; agricultural stakeholders; extension; multivariate analysis; socio-ecological systems; mental models; sustainable agriculture
Online: 9 October 2018 (08:03:38 CEST)
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The sustainability of agriculture depends as much on the natural resources required for production as it does on the stakeholders that manage those resources. It is thus essential to understand the variables that influence the decision-making process of agricultural stakeholders to design educational programs, interventions, and policies geared towards their specific needs, a required step to enhance agricultural sustainability. We examined the perceptions, experiences, and priorities that influence management decisions of five major groups of agricultural stakeholders (conventional small grain producers, organic small grain producers, organic vegetable producers, extension agents and agro-industry crop consultants, and researchers) across the Montana, United States. Results revealed that while stakeholder groups have distinct perceptions, experiences, and priorities, there were similarities across groups. Specifically, organic vegetable and organic small grain producers showed similar responses that were, in turn, divergent of conventional producers, researchers, and crop consultants. Conventional small grain producers and researchers showed overlapping response patterns while crop consultants formed an isolated group. Our results reinforce the need for agricultural education and programs that address unique and shared experiences, priorities, and concerns of multiple stakeholder groups. This study endorses the call for a paradigm shift from the traditional top-down agricultural extension model to one that accounts for participants’ socio-ecological contexts to facilitate the adoption of sustainable agricultural systems that support environmental and human wellbeing.
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Biology, Other; Saccharomyces cerevisiae; [PSI+] prion toxicity; translation termination factors; Sup35; Sup45; Pub1; Upf1
Online: 9 October 2018 (07:36:30 CEST)
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The [PSI+] nonsense-suppressor determinant of Saccharomyces cerevisiae is related to formation of heritable amyloids of the Sup35 (eRF3) translation termination factor. [PSI+] amyloids have variants in amyloid structure and in the strength of suppressor phenotype. Appearance of [PSI+], its propagation and manifestation depend primarily on chaperones. Besides chaperones, the Upf1/2/3, Siw14 and Arg82 proteins restrict [PSI+] formation, while Sla2 can prevent the [PSI+] toxicity. Here, we identify two more non-chaperone proteins involved in [PSI+] detoxification. We show that simultaneous lack of the Pub1 and Upf1 proteins causes lethality of [PSI+] cells with a strong, but not with weak suppressor phenotype. This lethality results from excessive depletion of the Sup45 (eRF1) termination factor due to its sequestration into Sup35 polymers. We also show that Pub1 acts to restrict excessive Sup35 prion polymerization, while Upf1 interferes with Sup45 binding to Sup35 polymers. These data allow considering the Pub1 and Upf1 proteins as a novel [PSI+] detoxification system.
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Biology, Animal Sciences & Zoology; ecology - extinction and speciation - ‘light’ v. ‘heavy’ order - Linnaean system - thermodynamics - trophic levels - tropical continental lowland communities
Online: 8 October 2018 (18:15:55 CEST)
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The origination of most free-living animal species is predictable. ‘Light’ order production in the trophic levels below is the key. Absent from the abiotic environment (pre-primary level) and prokaryotes, ‘light’ order consists of differences in species composition between highly-developed, species-packed communities in which extinction may be the precursor to speciation, particularly ecologically comparable tropical continental lowland ones of Africa, Australia, India, and South America. Based on but not itself of matter and non-burnable, its nil waste heat content ‘compensates’ for burned-up food energy. Where the amounts of it on infra-apical trophic levels form an inverted pyramid like waste heat’s, occupancy of trophic levels from primary to apical is predictable (variation and selection assumed). Terminal non-inversion predicts post-apical vacancy. Examined communities were from grasslands (grasses, large grazing mammals, large carnivores), and woodlands (woody plants, butterflies, insect-eating birds, raptorial birds). Linnaeus’s binomial classificational system turned out to be unexpectedly rich in new content. A new object of study, the neoLinnaean, is recognised and a new process, the neoLyellian, advanced to explain it. Relations to Darwin’s and Lyell’s non-predictive theories of change, to ecology and evolution, to thermodynamics, statistical mechanics and quantum mechanics, and to neurology are discussed.
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Biology, Plant Sciences; Montiaceae, taxonomy, phylogeny, biogeography, evolution, Calandrinia, Cistanthe, Lewisiopsis, Philippiamra, Rumicastrum
Online: 8 October 2018 (16:02:59 CEST)
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Montiaceae (Portulacineae) comprise a clade of at least 270 species primarily of western America and Australia. This work uses existing phylogenetic metadata to elaborate a new cladistic taxonomic synthesis, and clarifies morphological circumscriptions of several poorly known species. A total of 21 taxa are validated, seven new and 14 necessary nomenclatural recombinations). Hypotheses of Montiaceae historical biogeography and phenotypic evolution are evaluated in light of recent metadata.
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Biology, Anatomy & Morphology; fear; anxiety; aversive brain system; comparative neuroanatomy; teleost fish
Online: 8 October 2018 (11:40:20 CEST)
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Defensive behavior is a function of specific survival circuits, the “aversive brain system”, that are thought to be conserved across vertebrates, and involve threat detection and the organization of defensive responses to reduce or eliminate threat. In mammals, these circuits involve amygdalar and hypothalamic subnuclei and midbrain circuits. The increased interest in teleost fishes as model organisms in neuroscience created a demand to understand which brain circuits are involved in defensive behavior. Telencephalic and habenular circuits represent a “forebrain circuit” for threat processing and organization of responses, being important to mounting appropriate coping responses. Specific hypothalamic circuits organize neuroendocrine and neurovegetative outputs, but are the less well-studied in fish. A “midbrain circuit” is represented by projections to interneurons in the optic tectum which mediate fast escape responses via projections to the central gray and/or the brainstem escape network. Threatening stimuli (especially visual stimuli) can bypass the “high road” and directly activate this system, initiating escape responses. Increased attention to these circuits in an evolutionary framework is still needed.
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Karis A. Ederer,
Kelly Jin,
Sarah Bouslog,
Lu Wang,
Gregory S. Gorman,
Glenn C. Rowe,
Peter Abadir,
Daniel Raftery,
Douglas Moellering,
Daniel Promislow,
Patricia Jumbo-Lucioni,
Maria De Luca
Biology, Other; aging; angiotensin-converting enzyme inhibitors; nutrient metabolism; genetic background; nutritional stress
Online: 8 October 2018 (10:04:32 CEST)
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The angiotensin-converting enzyme (ACE) is a peptidase that is involved in the synthesis of Angiotensin II, the bioactive component of the renin-angiotensin system. A growing body of literature argues for a beneficial impact of ACE inhibitors (ACEi) on age-associated metabolic disorders, mediated by cellular changes in reactive oxygen species (ROS) that improve mitochondrial function. Yet, our understanding of the relationship between ACEi therapy and metabolic parameters is limited. Here, we used three genetically diverse strains of Drosophila melanogaster to show that Lisinopril treatment reduces thoracic ROS levels and mitochondrial respiration in young flies, and increases mitochondrial content in middle-aged flies. Using untargeted metabolomics analysis, we also showed that Lisinopril perturbs the thoracic metabolic network structure by affecting metabolic pathways involved in glycogen degradation, glycolysis, and mevalonate metabolism. The Lisinopril-induced effects on mitochondrial and metabolic parameters, however, are genotype-specific and likely reflect the drug’s impact on nutrient-dependent fitness traits. Accordingly, we found that Lisinopril negatively affects survival under nutrient starvation, an effect that can be rescued by genotype and age in a manner that partially mirrors the drug-induced changes in mitochondrial respiration. In conclusion, our results provide novel and important insights into the role of ACEi in cellular metabolism.
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Biology, Other; Knufia petricola A95, HPLC analysis, carotenoids, black yeasts, didehydrolycopene
Online: 3 October 2018 (00:39:22 CEST)
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Black yeasts are a highly specified group of fungi, which are characterized by a high resistance against stress factors. There are several factors enabling the cells to survive harsh environmental conditions. One aspect is the pigmentation, besides the melanin black yeasts often display a highly diverse carotenoid spectrum. Determination and characterization of carotenoids depend on an efficient extraction and separation, therefore especially for black yeast, characterized by thick cell walls specific protocols are needed to ensure analyses regarding stress responses in these fungi. Here we present both, a method to extract and analyze carotenoids and the unusual carotenoid composition of the black yeast Knufia petriola A95. Mechanical treatment combined with an acetonitrile extraction gave us very good extraction rates with a high reproducibility. The presented extraction and elution protocol allows the separation of the main carotenoids (7) in K. petricola A95 and should be suitable for the detection of additional carotenoids in other species. K. petricola A95 displays an unusual carotenoid composition, with mainly didehydrolycopene, torulene and lycopene. The pigment composition varied in dependency to oxidative stress but remained relatively constant if the cells were cultivated under low temperature. Black yeasts are a promising source for carotenoid production and other substances. To unravel the potential of these fungi new methods and studies are needed. The established protocol allows the determination carotenoid composition in black yeasts. Oxidative stress results in an adaptation in pigment composition in K. petricola A95. Future experiments have to be carried out to determine if didehydrolycopene functions as a protective agent itself or if it serves as a precursor for antioxidative pigments like torulene and torularhodin, which could be produced after induction under stress conditions.
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Biology, Plant Sciences; Montiaceae; life history; climate niche; polyploidy; phylogenetic comparative analysis (PhCA); natural selection (NS); natural drift (ND); chaos; stochasticity; determinism; principle of evolutionary idiosyncraticity (PEI)
Online: 2 October 2018 (14:06:57 CEST)
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The present paper reviews evidence for ecological evolution of Montiaceae. Montiaceae (Portulacineae) comprise a family of ca. 275 species and ca. 25 subspecific taxa of flowering plants distributed mainly in extreme western America, with additional endemism elsewhere, including other continents and islands. They have diversified repeatedly across steep ecological gradients. Based on narrative analysis, I argue that phylogenetic transitions from annual to perennial life history have been more frequent than suggested by computational phylogenetic reconstructions. I suggest that a reported phylogenetic correlation between the evolution of life history and temperature niche is coincidental and not causal. I demonstrate how statistical phylogenetic comparative analysis (PhCA) missed evidence for marked moisture niche diversification among Montiaceae. I discount PhCA evidence for the relation between Montiaceae genome duplication and ecological diversification. Based on the present analysis of Montiaceae evolution, I criticize the premise of the prevalent statistical approach to PhCA, which tests Darwinian deterministic hypotheses against stochastic evolutionary null models. I discuss theoretical/empirical evidence that evolution is neither stochastic, nor Darwinistically-determined, but idiosyncratic. Idiosyncraticity describes the outcome of a stochastically perturbed nonlinear chaos-like process. The Principle of Evolutionary Idiosyncraticity (PEI) is based on the evolutionary theory of Natural Drift, which maintains that determinism in evolution is a property of the organism and not, as maintained by the theory of Natural Selection, its traits or its milieu. This determinism is characteristic of chaotic functions, which are absolutely determinate, generate self-similarity, but remain absolutely unpredictable. PEI explains precisely observations that evolution proceeds not linearly, but chaotically, producing both quasi-linear fractal-like patterns and non-linear jumps. PEI has ramifications for all areas of macroevolutionary research. In particular, it demonstrates both the fallacy and futility of the statistical PhCA approach that interprets evolutionary causes in terms of evolutionary correlations. However, statistical methods of PhCA can be applied heuristically and fruitfully to reveal idiosyncraticity and discover evolutionary novelty. This, in turn, is demonstrated by the emergence of statistical anomalies in evolutionary analyses of Montiaceae.
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Biology, Plant Sciences; LRR-RLK family; Gossypium; expansion; phylogenetic analysis; gene expression profile; stress defense
Online: 30 September 2018 (18:18:37 CEST)
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Leucine-rich repeat receptor-like kinases (LRR-RLKs) have been reported to play important roles in plant growth, development and stress responses. However, no comprehensive analysis of this family has been performed in Gossypium, which are important economic crop and suffer various stresses in growth and development. Here we conducted a comprehensive analysis of LRR-RLK family in four Gossypium species (G. arboreum, G. barbadense, G. hirsutum and G. raimondii). A total of 1641 LRR-RLK genes were identified in the four Gossypium species involved in our study. Maximum-likelihood phylogenetic tree revealed that all the LRR-RLK genes were divided into 21 subgroups. Exon-intron organization structure of LRR-RLK genes kept relative conserved in subfamilies and between Arabidopsis and Gossypium. Subfamilies XI and XII were found dramatically expanded in Gossypium. Tandem duplication acted as an important mechanism in expansion of Gossypium LRR-RLK gene family. Function analysis suggested that plant hormone signaling and plant-pathogen interaction pathway were enriched in Gossypium LRR-RLK genes. Promoters analysis and expression profiles analysis revealed that Gossypium LRR-RLK genes were extensively regulated by TFs, phytohormone and various environmental stimuli, and play key roles in stress defense and diverse development processes. Our study provided valuable information for further function study of Gossypium LRR-RLK genes.
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Biology, Physiology; electromagnetic radiations; mobile phone; saliva; electrolytes; flow rate; resting/unstimulated; stimulated saliva; radio-frequency
Online: 30 September 2018 (07:58:54 CEST)
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During the recent years, there has been a tremendous increase in use of mobile phones which resulted in an increase of the exposure to electromagnetic radiations in our life. Human saliva is considered as a potential source of biomarkers to monitor changes that occur under pathological conditions. The main objective of the current experiment was to determine the effect of mobile phone radiation on general health, electrolytes and salivary function among Islamic University students who use mobile phones. A questionnaire was designed and applied to 167 healthy and 36 deaf female students to select cases whose meeting the inclusion criteria. A total of 103 students who met the inclusion criteria were included to investigate the influence of mobile phone radiations on their general health. For assessment of salivary parameters, a total of 55 students were chosen and classified into three groups. Group I was the control group, which included 17 deaf students who did not use the mobile phone at all. Group II was healthy students who have mobile phone for less than 5 years. Group III was healthy students who have mobile phone for 5 years or more. Descriptive data that included mean, standard deviation, and percentages was calculated for each group. Multiple group comparisons were made by one-way analysis of variance (ANOVA) followed by Tukey test for pairwise comparisons. Categorical data were analyzed by Chi square (χ2) test. For all the tests, a P value of 0.05 or less was considered for statistical significance. The results showed that the participants who use mobile phone had several problems in their health including dry mouth, bad odor from mouth, drooling of saliva, as well as ear and eye pain. The majority of the participants who use mobile phone complained of headache, anxiety, insomnia and forgetfulness as compared to deaf participants. Also, the study showed that there was no significant difference between salivary pH in all tested groups. Regarding to salivary flow rate, the differences were no significant in all tested groups. In addition, this study has also shown that there was significant difference between the salivary Na+ and K+ levels of the three groups. Salivary level of Na+ and K+ were significantly lower in mobile phone users when compared to non users of mobile phone.
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Biology, Agricultural Sciences & Agronomy; irrigation scheduling; Solanum lycopersicum; El Niño; water stress; decision support system; climate variability
Online: 30 September 2018 (07:48:20 CEST)
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Irrigation scheduling is used by growers to determine the right amount and timing of water application. In most parts of Mozambique, 90% of the total yearly precipitation occurs from November to March. The El Niño Southern Oscillation (ENSO) phenomenon influences the climate in Mozambique and affects the water demand for crop production. The objectives of this work were to quantify the effects of ENSO phenomenon on tomato crop water requirements, and to create the AgroClimate irrigation tool (http://mz.agroclimate.org/) to assist farmers in improving irrigation management. This study was based on daily grid-based climate information from 1983 to 2016 from the Climate Forecast System Reanalysis. Daily crop evapotranspiration was calculated by Hargreaves equation and crop coefficients. This tool is available online and considers different planting dates, ENSO phases, and crop growing season lengths. Irrigation needs varied from less than 250 mm per growing cycle during winter to 550 mm during spring. Both El Niño and La Niña influenced the irrigation scheduling, especially from November to March. El Niño periods were related with increased water demand due to drier and warmer conditions while the opposite was observed for La Niña. The ENSO information might be used to understand climate variability and improve tomato irrigation scheduling in Mozambique.
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Biology, Entomology; Frankliniella occidentalis; Lygus hesperus; Trialeurodes vaporariorum; Tetranychus urticae; entomopathogenic fungi; integrated pest management
Online: 29 September 2018 (07:33:45 CEST)
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The twospotted spider mite, Tetranychus urticae and the western tarnished plant bug, Lygus hesperus are major arthropod pests of strawberries in California. Other important insect pests include the greenhouse whitefly, Trialeurodes vaporariorum and the western flower thrips, Frankliella occidentalis. Chemical pesticides play a major role in managing these pests, but not without the associated risk of pesticide resistance and environmental safety. Two field studies were conducted in Santa Maria to evaluate the potential of botanical and microbial pesticides in the integrated pest management (IPM) of strawberry. Chemical, botanical, and microbial pesticides were evaluated against T. urticae in a small plot study in 2013 and against L. hesperus and other insect pests in a large plot study in 2015 in commercial strawberry fields. Bug vacuums were also used in the 2015 study. Results demonstrated that non-chemical alternatives can play an important role in strawberry IPM.
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Biology, Other; Einstein; manifold; Hilbert space; Abelian; living cell; Borsuk-Ulam theorem; topology
Online: 28 September 2018 (15:32:05 CEST)
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The unexploited unification of quantum physics, general relativity and biology is a keystone that paves the way towards a better understanding of the whole of Nature. Here we propose a mathematical approach that introduces the problem in terms of group theory. We build a cyclic groupoid (a nonempty set with a binary operation defined on it) that encompasses the three frameworks as subsets, representing two of their most dissimilar experimental results, i.e., 1) the commutativity detectable both in our macroscopic relativistic world and in biology; 2) and the noncommutativity detectable both in the microscopic quantum world and in biology. This approach leads to a mathematical framework useful in the investigation of the three apparently irreconcilable realms. Also, we show how cyclic groupoids encompassing quantum mechanics, relativity theory and biology might be equipped with dynamics that can be described by paths on the twisted cylinder of a Möbius strip.
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Biology, Agricultural Sciences & Agronomy; water footprint, crop water usage, oil palm (Eleasis guenensis), crop ages, soil type, environmental sustainability
Online: 28 September 2018 (12:21:52 CEST)
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Various environmental challenges, related to oil palm commodity has became a major environmental challenge to oil palm production. The aim and objective of this study is to analyze the actual water footprint of oil palm based on root water uptake under varying crop age and soil type. The research was conducted in Pundu Village, Central Kalimantan. The methodology adopted in carrying out this study consists of various stages which includes observing soil moisture, rainfall, and water table, ETo, root water uptake and oil palm water footprint. The highest rate of water consumption was the 13 years oil palm on spodosol soil type with an average daily rate of 3.73 mm/day. The lowest evapotranspiration was represented by the 7th year oil palm on spodosol with an average rate of 3.07 mm/day. The total water footprint value obtained was between 0.56 – 1.14 m3/kg for a variety of plants with various age and soil types. It can be deduced that the water footprint value of oil palm vary for different crop age and soil types on temporal scale. The study also presented that the source of green water from the first root zone of oil palm deliver the highest contribution for oil palm root water uptake.
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Biology, Plant Sciences; soybean; nodulation; in vitro nodule development; phytohormones; ABA; JA; auxins; cytokinins; GA; BR
Online: 27 September 2018 (05:59:07 CEST)
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Legumes develop root nodules that harbour endosymbiotic bacteria, rhizobia. These rhizobia convert nitrogen to ammonia by biological nitrogen fixation. A thorough understanding of the biological nitrogen fixation in legumes and its regulation is key to develop sustainable agriculture. It is well known that plant hormones affect nodule formation; however, most studies are limited to model legumes due to their suitability for in vitro, plate-based assays. Specifically, it is almost impossible to measure the effects of exogenous hormones or other additives during nodule development in crop legumes such as soybean as they have huge root system in soil. To circumvent this issue, the present research develops suitable media and growth conditions for efficient nodule development under in vitro, soil free conditions in an important legume crop, soybean. Moreover, we also evaluate the effects of all major phytohormones during soybean nodulation under identical conditions. This versatile, inexpensive, scalable and simple protocol provides several advantages over previously established methods. It is extremely time-and resource-efficient, does not require special training or equipment, and produces highly reproducible results. The approach is expandable to other large legumes as well as for other exogenous additives.
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Biology, Agricultural Sciences & Agronomy; Zea may L.; bioactive compound; floral corn; by-products; bee pollen
Online: 26 September 2018 (16:31:15 CEST)
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Corn tassel is a by-product from hybrid corn seed production and a new source of phytochemicals including compounds with antioxidant activity. Four tassel development stages were evaluated in eight commercial corn varieties. Corn varieties and tassel developmental stages showed significant variations (P0.01) for all parameters. Total phenolic content and antioxidant activity were highest in field corn. KGW1, a purple waxy variety, had the highest anthocyanin content and carotenoid content at tassel development stages at 50% and 75% of pollen shed, whereas the tassel developmental stages at the 1st day of pollen shed and 50% of pollen shed had the highest of anthocyanin yield and carotenoid yield. The most suitable time for tassel harvest should be between the 1st day of pollen shed to 50% of pollen shed. Phytochemicals and antioxidants that are extracted from corn tassel can be used as a functional food supplement, natural pharmaceuticals and cosmetic products.
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Biology, Other; Water, Wave, DNA, Chick embryo
Online: 26 September 2018 (16:18:14 CEST)
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Recently, some authors have presented a short review of theoretical and experimental evidences of the formation of dissipative structures as the matrix of life in liquid water and shown their spontaneous quantum origin. We generalize this consideration and show that DNA can produce some hexagonal and pentagonal super-molecules in liquid water. We examine the model in shell less culture system and show that DNAs of stem cells of chick embryo produce some special structures in liquid water. We obtain the entropy for producing these DNA-like structures in water around a chick embryo in terms of temperature, rotating velocity and intensity of waves. Comparing this entropy with experimental data, we observe that our model con rms observations.
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Biology, Other; BioSearch Engine Designm, ETC-1922159, Ranking, Combinatorial forest space, Sensitivity analysis, Support Vector Machine, Colorectal Cancer
Online: 26 September 2018 (12:59:30 CEST)
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Often, in biology, we are faced with the problem of exploring relevant unknown biological hypotheses in the form of myriads of combination of factors that might be affecting the pathway under certain conditions. Currently, a major persisting problem is to cherry pick the combinations based on expert advice, literature survey or guesses for investigation. This entails investment in time, energy and expenses at various levels of research. To address these issues, a search engine design was recently been developed, which showed promise by revealing existing confirmatory published wet lab results. Additionally and of import, the engine mined up a range of unexplored/untested/unknown combinations of genetic factors in the Wnt pathway that were affected by ETC-1922159 enantiomer, a PORCN-WNT inhibitor, after the colorectal cancer cells were treated with the inhibitor drug. As an example, MYC is known to upregulate PRC2 complex. PRC2 complex contains EZH2, which suppresses tumor suppressor genes via epigenetic modifications. MYC and HOXB8 are up regulated in colorectal cancer, however, the dual working mechanism of the same is not known. The in silico engine showed positioning which correctly approximates and assigns to this 3rd order combination of MYC-HOXB8-EZH2, pointing to the in vitro/in vivo down regulation by ETC-1922159. If the protein interaction of MYC-HOXB8 can be established and a study be done apropos EZH2, it will establish at in vitro/in vivo level, the in silico ranking also. The potential of this engine is immense given the problem faced in biology and other fields. Here we elucidate the R code to understand the mechanics of the search engine in a fluid manner for systems biologists. Though the search engine is in the developmental stage, we share the detailed mechanism of the working principles of the same as it can be generalized
to problems in other fields.
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Biology, Ecology; aquatics; modeling; boosted regression trees; appalachians
Online: 26 September 2018 (07:23:02 CEST)
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Understanding influences of multiple stressors across the landscape on aquatic biota is important for conservation, as it allows for an understanding of spatial patterns and informs stakeholders of significant conservation value. Data exists for land use/landcover (LULC) and other physicochemical components of the landscape throughout the Appalachian region yet biological data is sparse. This dearth of biological data relative to LULC and physicochemical data creates difficulties in making informed management and conservation decisions across large landscapes. At the HUC12 watershed scale we sought to create a single score for both abiotic and biotic values throughout the central and southern Appalachian region. We used boosted regression trees (BRT) to model biological responses (fish and aquatic macroinvertebrate variables) to abiotic variables. Variance explained by BRT models ranged from 62-94%. We categorized both predictor and response variables into themes and targets respectively to better understand large scale patterns on the landscape that influence biological condition of streams. We combined predicted values for a suite of response variables from BRT models to create a single watershed score for aquatic macroinvertebrates and fish. Regional models were developed for fish but we were unable to develop regional models for aquatic macroinvertebrates due to the low number of sample sites. There was strong correlation between regional and global watershed scores for fish models but not between fish and aquatic macroinvertebrate models. Use of such multimetric scores can inform managers, NGOs, and private land owners regarding land use practices; thereby contributing to largescale landscape scale conservation efforts.
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Biology, Plant Sciences; Histone deacetylase, metabolism, peanut, hairy roots, RNA-seq
Online: 25 September 2018 (14:40:05 CEST)
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Peanut (Arachis hypogaea) is a crop plant with high economic value, but the epigenetic regulation of its growth and development has only rarely been studied. The peanut histone deacetylase 1 gene (AhHDA1) has been isolated and is known to be ABA- and drought-responsive. In this paper, we investigate the role of AhHDA1 in more detail, focussing on the effect of altered AhHDA1 expression in hairy roots at both the phenotypic and transcriptional levels. Agrobacterium rhizogenes-mediated transformation of A. hypogaea hairy roots was used to analyse how overexpression or RNA interference of AhHDA1 affects this tissue. In both types of transgenic hairy root, RNA sequencing was adopted to identify genes that were differentially expressed, and these genes were assigned to specific metabolic pathways. AhHDA1-overexpressing hairy roots were growth-retarded after 20 d in vitro cultivation, and superoxide anions and hydrogen peroxide accumulated to a greater extent than in control or RNAi groups. Overexpression of AhHDA1 is likely to accelerate flux through various secondary synthetic metabolic pathways in hairy roots, as well as reduce photosynthesis and oxidative phosphorylation. Genes encoding the critical enzymes caffeoyl-CoA O-methyltransferase (Araip.XGB85) and caffeic acid 3-O-methyltransferase (Araip.Z3XZX) in the phenylpropanoid biosynthesis pathway, chalcone synthase (Araip.B8TJ0) and polyketide reductase (Araip.MKZ27) in the flavonoid biosynthesis pathway, and hydroxyisoflavanone synthase (Araip.0P3RJ) and isoflavone 2'-hydroxylase (Araip.S5EJ7) in the isoflavonoid biosynthesis pathway were significantly upregulated by AhHDA1 overexpression, while their expression in AhHDA1-RNAi and control hairy roots remained at a lower level or was unchanged. Our results suggest that alteration of secondary metabolism activities is related to overexpression of AhHDA1, which is mainly reflected in phenylpropanoid, flavonoid and flavonoid biosynthesis. Future studies will focus on the function of AhHDA1 interacting proteins and their action on cell growth and stress responses.
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Biology, Plant Sciences; B chromosome; satellite DNA; mobile element; organelle DNA; chromosome evolution
Online: 24 September 2018 (19:18:03 CEST)
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B chromosomes are supernumerary chromosomes which are found in addition to the normal standard chromosomes (A chromosomes). B chromosomes are well known to accumulate several types of repeats. Although the evolution of B chromosomes has been subject of numerous studies, the mechanisms of accumulation and evolution of repetitive sequences is not fully understood. Recently, new genomic approaches have shed light on the origin and accumulation of different classes of repetitive sequences in the process of B chromosome formation and evolution. Here we discuss the impact of repetitive sequences accumulation on the evolution of plant B chromosomes.
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Biology, Animal Sciences & Zoology; Flying-fox, disaster management, heat events, heat stress, roost management, physiology, veterinary management.
Online: 24 September 2018 (14:28:19 CEST)
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Flying-fox populations are increasingly threatened by heat events, starvation events and other stressors due to habitat clearing and human/flying-fox conflict.These factors are unlikely to resolve, meaning that a well-coordinated and timely approach to flying-fox disasters is imperative for the mitigation of further flying-fox population impacts.
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Biology, Other; inter- and intra-host nucleotide variations; Hepatitis A virus; next-generation sequencing; pyrosequencing
Online: 21 September 2018 (06:59:34 CEST)
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The accurate virus detection, strain discrimination, and source attribution of contaminated food items remains a persistent challenge because of the high mutation rates anticipated to occur in foodborne RNA viruses, such as Hepatitis A virus (HAV). This has led to predictions of the existence of more than one sequence variant between the hosts (inter-host) or within an individual host (intra-host). However, there have been no reports of intra-host variants from an infected single individual, and little is known about the accuracy of the single nucleotide variations (SNVs) calling with various methods. In this study, the presence and identity of viral SNVs, either between HAV clinical specimens or among a series of samples derived from HAV clone1-infected FRhK4 cells, were determined following analyses of nucleotide sequences generated using next-generation sequencing (NGS) and pyrosequencing methods. The results demonstrate the co-existence of inter- and intra-host variants both in the clinical specimens and the cultured samples. The discovery and confirmation of multi-viral RNAs in an infected individual is dependent on the strain discrimination at the SNV level, and critical for successful outbreak traceback and source attribution investigations. The detection of SNVs in a time series of HAV infected FRhK4 cells improved our understanding on the mutation dynamics determined probably by different selective pressures. Additionally, it demonstrated that NGS could potentially provide a valuable investigative approach toward SNV detection and identification for other RNA viruses.
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Biology, Other; Glaucoma, Genetics, Ethnicity
Online: 20 September 2018 (18:11:29 CEST)
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Glaucoma is undoubtedly a major worldwide disease and cause of blindness. The term glaucoma however encompasses a group of disorders with differing age of incidence, intraocular pressures and varying degrees of hereditability in which vision loss occurs through a characteristic mode of retinal ganglion cell death. There are also significant differences in frequencies of incidence and gene associations for this group of disorders amongst different groups of populations. The current literature often states definitive trends in incidence for ethnic groups that fail to take into account an overall genetic fine structure for these groups. The present review intends to present an overview of some of the background necessary to discuss the genetic basis of glaucoma before describing some of the literature concerning the illness in Gypsy, Japanese, Scandinavian, Latino (Mexican and Brazilian) and Sub-Saharan African populations. It is intended that this review will give the reader a clearer picture of the diversity of worldwide glaucoma presentation which perhaps prove to question the current Ethnic view.
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Biology, Forestry; scots pine; plus-trees; xylem; lignification; physiological condition; hereditary conditionality; factor analysis; cluster analysis
Online: 20 September 2018 (07:34:23 CEST)
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An important moment in the establishment of forestry seed orchards is the formation of their optimal composition, avoiding inbreeding depression in the outgoing seed material which occurs due to crossbreeding between closely related plus trees, the clones of which comprise the orchards. It is possible to minimize the negative effect of inbreeding by considering the hereditary aspect of the heterogeneous seed orchard material. The purpose of our work is to provide a comparative assessment of the formation and lignification of xylem in annual shoots of the plus trees of Scots pine. We investigated the formation and lignification of xylem in the annual shoots of the plus trees of Scots pine (Pinus sylvestris L.), found in natural forests in the Nizhny Novgorod region of the Russian Federation. Their vegetative progeny were cultivated in the clone archive stationed in the same region. Analyzing the one-type of the 1-year shoots, the time that the shoots were cut from the branches corresponded to the presence of plants in the characteristic phenological phases of seasonal development. A histochemical study of xylem was conducted, using the qualitative reactions of phloroglucinol to lignin. The power of xylem development was estimated by counting, in the radial direction, the cell rows from the core to the cambium in the microscope’s field of view. A significant differentiation of plus trees was revealed in a complex of signs characterizing the level of xylem development and the degree of xylem cell lignification in the tissues of annual shoots. Phenotypic differences in the physiological state of plus trees appeared given a leveled ecological background, indicating their genotypic determinism. This was confirmed by an analysis of variance. The share of the influence of differences between the proper plus trees was between 25.16% ± 8.91% and 53.98% ± 5.48% of the total phenotypic variance of the signs of the seasonal state of xylem. Factor analysis was used to reduce the number of considered indicators of xylem physiological state. The results allowed a cluster analysis to be carried out on the basis of the normalized values of the initial xylem features as well as the principal components derived from them. The association of plus trees was done on the basis of the similarity of the multidimensional estimates of xylem seasonal condition. The objects that were the most remote from the others were identified. This information provides a reasonable approach to the formation of an assortment of Scots pine seed orchards.
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Biology, Animal Sciences & Zoology; behaviour/sociality; cleaner fish; gut-brain axis; poecilids; sticklebacks; zebrafish
Online: 19 September 2018 (16:46:57 CEST)
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Recent research has revealed surprisingly important connections between animals’ microbiome and social behaviour. Social interactions can affect the composition and function of the microbiome; conversely, the microbiome affects social communication by influencing the hosts’ central nervous system and peripheral chemical communication. These discoveries set the stage for novel research venues focusing on the evolution and physiology of animal social behaviour in relation to microbial transmission strategies. Here, we discuss the emerging roles of teleost fish model candidates and their key potential for advancing research fields linked to sociality and microbial regulation. We argue that fish models, such as the zebrafish, sticklebacks, guppies and cleaner-client dyads, will provide valuable insights into the roles of microbiome in shaping social behaviour and vice versa, while also being of direct relevance to the food and ornamental fish trades.
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Biology, Ecology; One Health, fermented foods, microbiota, nutrition
Online: 19 September 2018 (15:50:00 CEST)
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The microbioma is presently one of the hottest areas of scientific and medical research and exerts a marked influence on the host during homeostasis and disease. Fermented foods arise in the human relationship to the microbial environment. Further to the traditionally recognized effects of fermented foods and beverages on the digestive health and well-being there is now strong evidence on their general health benefits, namely the significance on the gut microbiota and brain functionality. We highlight the possibilities in this field, how little is still known, and call for a convergence of interdisciplinary research fields of One Health microbe-nutrition with fermented foods and gut-brain research. A consequence of civilisation, changes in present-day society in diets with more sugar, fat and salt, habits and lifestyle, contributes to the likelihood of an inflammatory microbiome, particularly the global epidemics of obesity and mental health. Although two recent papers claim that probiotics perturb rather than aid in microbiota recovery back to baseline after antibiotic administration in humans, consuming fermented foods has shown to reduce inflammation so improve gut health and the proper function of the body’s immune system.
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Biology, Forestry; forest road surface; forest road damage; vibration measurements; vibration software
Online: 19 September 2018 (12:43:25 CEST)
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Regarding number of vehicles, forest roads are characterized by low traffic intensity, but on the other hand great values of ground pressure between wheels of timber truck units and forest road surface occur, often with pressures values above 80 kN which additionally causes damage of the upper and lower forest road layer. There are currently several methods for assessing condition of a forest road surface which are mainly used for assessing state of public roads, but can be used in forestry as well. Assessing condition of forest road surface was done by measuring vibrations with a specially developed software for Android OS installed on a Huawei MediaPad 7 Lite. Software measured vibrations in all three axes, coordinates of device, speed of the vehicle and time. Aim of this research was to determine accuracy of collected data so that this method can be used for scientific and practical purposes. Research was carried out on the segment of a forest road during driving a vehicle equipped with a measuring device. Tests were performed in both driving direction of the forest road segment with different measuring frequencies, tyre inflation pressures and driving speeds. Values of vibrations were classified and translated on a map of forest road together with devices’ measured coordinates. Vibration values were compared with places of recorded forest road surface damages. Research results show no significant difference in vibration values between 1 Hz and 10 Hz of measurement frequencies. Based on the analysis of collected data and obtained results, it is clear that it is possible to assess the condition of a forest road surface by measuring vibrations. The greatest values of vibrations were recorded on the most damaged parts of the forest road. Vibrations do not depend on tyre inflation pressure, but ranges of vibrations are decreasing with decreasing driving speed. Accuracy of collected data depends on GPS signal quality, so it is recommended that each segment of forest road is recorded twice so that location of damages on forest road can be confirmed with certainty.
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Biology, Other; enterobacteriaceae; antibiotics; beta-lactamases; beta-lactam resistome; whole genome sequencing
Online: 19 September 2018 (11:47:42 CEST)
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Beta-lactam resistant bacteria, commonly resident in tertiary hospitals, have emerged as a worldwide health problem because of ready-to-eat vegetable intake. We aimed to characterize the genes providing resistance to beta-lactam antibiotics in Enterobacteriaceae, isolated from five commercial salad brands for human consumption in Mexico City. 25 samples were collected, grow in blood agar plates, the bacteria were biochemistry identified and antimicrobial susceptibility testing was done, the carried family genes were identified by endpoint PCR and the specific genes were confirmed with WGS by NGS. 12 positive cultures were identified and their microbiological distribution was as follows, 8.3% for Enterobacter aerogene (n=1), 8.3% for Serratia fonricola (n=1), 16.7% for Serratia marcesens (n=2), 16.7% for Klebsiella pneumoniae (n=2), and 50% (n=6) for Enterobacter cloacae. The endpoint PCR results showed 11 colonies positive for blaBIL (91.7%), 11 for blaSHV (91.7%), 11 for blaCTX (97.7%), 12 for blaDHA (100%),4 for blaVIM (33.3%), 2 for blaOXA (16.7%), 2 for blaIMP (16.7%), 1 for blaKPC (8.3%) and 1 for blaTEM (8.3%) gene, all samples were negative blaROB, blaCMY, blaP, blaCFX and blaLAP gene. The sequencing analysis revels a specific genotypes for Enterobacter cloacae (blaSHV-12, blaCTX-M-15, blaDHA-1, blaKPC-2); Serratia marcescens (blaSHV-1, blaCTX-M-3, blaDHA-1, blaVIM-2); Klebsiella pneumoniae (blaSHV-12, blaCTX-M-15, blaDHA-1); Serratia fonticola (blaSHV-12, blaVIM-1, blaDHA-1) and Enterobacter aerogene (blaSHV-1, blaCTX-M-1, blaDHA-1, blaVIM-2, blaOXA-9). Our results indicate that beta-lactam resistant bacteria have acquired integrons with a different number of genes that providing panresistance to beta-lactam antibiotics, including penicillins, oxacillins, cefalosporins, monobactams, carbapenems and imipenems.
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Biology, Other; keratinophilic fungi, non-dermatophytes, fungal flora, hair, nails
Online: 18 September 2018 (17:13:05 CEST)
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Background: The presence of fungal species on the surface skin and hair is a known finding in many mammalian species and humans are no exception. Superficial fungal infections are sometimes a chronic and recurring condition that affects approximately 10-20% of the world’s population. However, most species that are isolated from humans tend to occur as co-existing flora. This study was conducted to determine the diversity of fungal species isolated from the hair and nails of workers in the central region of Saudi Arabia where there are not many observational studies on the mycological species. Materials and Methods: Male workers from Riyadh, Saudi Arabia were recruited for this study and samples were obtained from their nails and hair for mycological analysis which was done using Saboraud’s agar and sterile wet soil. Fungal isolates were examined microscopically. Results: Twenty four hair samples yielded a total of 26 species from 19 fungal genera. Chaetomiumglobosum was the most commonly isolated fungal species followed by Emericellanidulans, Cochliobolusneergaardii, and Penicilliumoxalicum. Three fungal species were isolated from nail samples, namely, Alternariaalternata, Aureobasidiumpullulans, and Penicilliumchrysogenum. Most of the isolated fungal species (17 of the 26 or 65.38% of the isolated fungal species) have not been thoroughly characterised nor morphologically classified. Conclusion: This study demonstrates the presence of previously undescribed fungal species that contribute to the normal flora of the skin and its appendages and may have a role in their pathogenies.
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Biology, Physiology; Aeluropus lagopoides; HepG2; HCT-116; MCF-7; apoptosis; chemical composition
Online: 18 September 2018 (13:40:12 CEST)
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Natural product especially secondary metabolites that produced by plants under the stressed condition shown to have a different pharmacological impact. Aeluropus lagopoides is one of the typical halophyte plants survivals under stressed conditions. It has been used for wound healing and as a painkiller. The bioactivity and the chemical composition of this plant have poorly investigated. Consequently, chemical components of A. lagopoides leaves were extracted using hexane (nonpolar), ethyl acetate (semi-polar), n-butanol (polar) to extract the most extensive variety of metabolites. The cytotoxicity and anticancer impact of extracted secondary metabolites evaluated against breast (MCF-7), colon (HCT-116), and liver (HepG2) cancer cell lines using SRB test. The mechanism of action verified by observing the appearance of apoptotic bodies using the fluorescent microscope while their antiproliferative impact had been evaluated using flow cytometer. Results revealed that secondary metabolites extracted using hexane and ethyl acetate were having the highest cytotoxicity and thus anticancer activity effect on HepG2 with IC50 (24.29 ± 0.85, 11.22 ± 0.679 µg/mL) respectively. Where apoptotic bodies observed, flow cytometer results exhibited that secondary metabolites can inhibit cell cycle in G0/G1 phase. Accordingly, A. lagopoides hexane and ethyl acetate extracts may consider as a candidate anti-cancer drug.
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Biology, Plant Sciences; Polar Auxin Transport; PIN transporters; Secretion; 3D-SIM microscopy; Mathematical modeling
Online: 18 September 2018 (12:09:24 CEST)
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Intercellular transport of auxin is driven by PIN-formed (PIN) proteins. PINs are localized at the plasma membrane (PM) and on constitutively recycling endomembrane vesicles. Therefore, PINs can mediate auxin transport either by direct translocation across the PM or by pumping it into secretory vesicles (SVs), leading to its secretory release upon fusion with the PM. Which of these two mechanisms dominates is a matter of debate. Here we addressed the issue with a mathematical modeling approach. We demonstrate that the efficiency of secretory transport depends on SV size, half-life of PINs on the PM, pH, exocytosis frequency and PIN density. 3D-SIM microscopy was used to determine PIN density on the PM. Combing this data with published values of the other parameters, we show that the transport activity of PINs in SVs would have to be at least 1000x greater than on the PM in order to produce a comparable macroscopic auxin transport. If both transport mechanisms operated simultaneously and PINs were equally active on SVs and PM, the contribution of secretion to the total auxin flux would be negligible. In conclusion, while secretory vesicle-mediated transport of auxin is intriguing and theoretically possible model, it unlikely to be a major mechanism of auxin transport in planta.
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Biology, Horticulture; inorganic fertilizer; vermicompost; Net; growth; yield; Indian spinach
Online: 18 September 2018 (08:32:53 CEST)
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Best horticulture management has been practiced to reduce the amount of inorganic fertilizer in connection with net (mosquito net) for higher production of Indian spinach. Excessive use of chemical fertilizers in agriculture promoted negative effect on the environment and human health in Bangladesh. The experiment was conducted at the Horticulture Farm of Bangladesh Agricultural University (BAU), Mymensingh during the period February to May 2016. Two factor experiments were conducted on nettings: control (N0), Netting (N1) and different fertilizers: control (F0), Vermicompost 10 t/ha (F1), Vermicompost 15 t/ha (F2), 2/3rdof F2+ 1/3rdof F4 (F3), Inorganic fertilizer (F4). Combination of mosquito net and combined of organic and inorganic fertilizers (N1F3) gave the significantly higher growth and yield of Indian spinach compared to other treatment combination. The maximum vine length (77.71 cm), after 45 days after sowing was found from N1F3 which was 72% higher compared to control. The highest yield of Indian spinach was 38.67 t/ha from N1F3 which was 80% higher compared to control. The treatment combination of N1F3 provided maximum leaf numbers per plant, leaf length.
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Biology, Other; p21-activated kinase (PAK); Pancreatic ductal adenocarcinoma (PDA); PF-3758309; gemcitabine
Online: 17 September 2018 (17:28:54 CEST)
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Pancreatic ductal adenocarcinoma (PDA) remains the most lethal malignancy due to lack of an effective treatment. P21-activated kinases (PAKs) play key roles in PDA growth, and the PAK inhibitor PF-3758309 synergistically reduced PDA growth with gemcitabine. The aim of this study was to determine the effect of PF-3758309 with multiple chemotherapeutic reagents on a panel of patient-derived PDA cell lines. Cells were treated with PF-3758309 plus or minus gemcitabine, 5-fluorouracil (5-FU) or abraxane, and cell proliferation was determined. Protein expression profiles were measured by Western blot. PDA cells were subcutaneously injected into the flanks of SCID mice which were then treated with PF-3758309, gemcitabine, PF-3758309 plus gemcitabine, or gemcitabine plus abraxane. Tumour growth was measured by volume and weight. PF-3758309 enhanced the inhibitory effects of 5-FU, gemcitabine and abraxane on a panel of patient-derived PDA cells, inhibited HIF-1 protein expression and reduced the protein levels of palladin and -SMA in these cells. The combination of PF-3758309 with gemcitabine maximally inhibited PDA growth in vivo, which was comparable to the combination of gemcitabine with abraxane. PF-3758309 enhanced the suppressive effects of multiple chemotherapeutic reagents on the growth of a panel of patient-derived PDA cell lines. The combination of PF-3758309 with gemcitabine provides a potential treatment option with less toxicity than gemcitabine plus abraxane.
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Biology, Ecology; annual linear extension; calcification; coral reefs; environmental gradients; growth; turbidity
Online: 17 September 2018 (13:13:20 CEST)
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Pronounced differences exist in the biodiversity and structure of coral reef assemblages with increasing distance from shore, which may be expected given marked cross-shelf gradients in environmental conditions. Cross-shelf variation in the abundance of coral reef organisms is likely to be caused, at least in part, by differences in demography (e.g., growth and survival), though this has rarely been tested. This study quantified growth of three distinct coral taxa (Acropora nasuta, Pocillopora spp., and Stylophora pistillata) at 6 sites on Australia’s Great Barrier Reef (GBR), encompassing inshore, mid-shelf and outer-shelf reefs. Replicate colonies (up to 15 colonies per species, per reef) were stained using Alizarin red in December 2015 and retrieved 1-year later to quantify linear extension on replicate branches for each colony. Annual linear extension varied within and among coral taxa, with pronounced differences among reefs. For A. nausta. and S. pistillata, growth rates were highest at Orpheus Island, which is an inner shelf reef. However, inter-reef differences in coral growth were not explained by shelf position. Based on differences in skeletal density, which did vary according to shelf position, branching corals at the inshore sites may actually have higher rates of calcification compared to conspecifics on mid- and outer-shelf reefs. This study shows that growth of branching corals is not lower at inshore sites (and perhaps even higher) compared to sites at mid-shelf and outer reefs, despite generally higher levels of sedimentation and turbidity.
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Biology, Ecology; barcoding; biodiversity; genetics; mollusc; phylogeny; snails; taxonomy
Online: 17 September 2018 (12:30:16 CEST)
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We aimed to apply DNA barcoding tool for the molecular identification of horn snails T. telescopium using mitochondrial cytochrome oxidase I gene (mt-COI) and to investigate their evolutionary relationship along with location-specific bio-geographical variations. The molecular data sets of this study indicate that strong probability of T. telescopium species taxonomic confirmation using mt-COI sequences. Results of the phylogenetic analysis suggest that Telescopium sp. was monophyletic with disseminated nodes and the evolution of group II originated from group I. The substantial genetic distance among the mt-COI sequences (0.005 to 0.184) were noticed. Large divergence between the south-west coast of India and Australia region population indicates limited gene flow between the two continents. Our study suggests that the genera Telescopium is globally ubiquitous but genetically showing inter-region differentiation. We conclude that mt-COI gene can be used to identify gastropod T. telescopium species.
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Biology, Other; silver nanoparticles; green synthesis; anti diabetic; cytotoxic
Online: 16 September 2018 (12:02:14 CEST)
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Background. Nanotechnology is promising field for generating new applications. A green synthesis of nanoparticles through biological methods using plant extract have a reliable and ecofriendly approach to improve our global environment. Methods. Silver nanoparticles (AgNPs) were synthesized using aqueous extract of Anagalis arvensis L and silver nitrate and were physicochemically characterized. Results. The stability of AgNPs toward acidity, alkalinity, salinity and temperature showed that they remained stable at room temperature for more than two months. The SEM and TEM analysis of the AgNPs showed that they have a uniform spherical shape with an average size in the range of 40–78 nm. Further 1-Dibhenyl-2-Picrylhydrazl radical in Anagalis arvensis L.mediated AgNPs showed a maximum activity of 98% at concentration of 200μg/mL. Hydrogen peroxide scavenging assay in Anagalis arvensis L. mediated AgNPs showed a maximum activity of 85% at concentration of 200μg/mL. Reducing power of Anagalis arvensis L.Ag NPs exhibited a higher activity of 330 μg/mL at concentration of 200 μg/mL. These NPs have cytotoxic effects against brine shrimp (Artemia salina) nauplii with a value of 53% LD 178.04μg/mL. Conclusion. The AgNPs synthesized using Anagalis arvensis L. extract demonstrate a broad range of applications.
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Biology, Agricultural Sciences & Agronomy; Fusarium graminearum, mold growth, linear model, Gompertz, Baranyi.
Online: 14 September 2018 (16:05:54 CEST)
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Fusarium graminearum causes head blight in wheat and corn, and produces chemicals harmful for humans and other animals. It is important to understand how it grows in order to prevent outbreaks. There are 3 well-known growth models for microorganisms and they seem applicable to molds: linear, Gompertz and Baranyi. This study aimed to see which could better represent F. graminearum growth. Three replicates were grown in yeast extract agar (YEA) for 20 days. The Feret’s radius was measured in ImageJ software, and then related to the models. Linear model was the most closely correlated to the actual growth. Thus, considering that it was the most representative of the reality and it is easier to use, it seems to be the best logical choice for F. graminearum growth studies.
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Biology, Agricultural Sciences & Agronomy; Fusarium graminearum; color; pigments; polyketides; carotenoids
Online: 14 September 2018 (13:20:34 CEST)
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Several studies explore in depth the biochemistry and genetics of the pigments present in Fusarium graminearum but there is a need to discuss about their relationship with the mold’s observable surface color pattern variation throughout its lifecycle. Furthermore, they require basic cataloguing and description of their major features known so far. Colors are a viable alternative to size measurement in growth studies. When grown on yeast extract agar (YEA) at 25 °C, F. graminearum initially exhibits a whitish mycelium, developing into a yellow-orange mold by the sixth day and then turning into wine-red. The colors are likely due to accumulation of the golden yellow polyketide aurofusarin and the red rubrofusarin, but the carotenoid neurosporaxanthin possibly play also a major role in the yellow or orange coloration. Torulene might contribute for red tones but it perhaps ends up being converted into neurosporaxanthin. Culmorin is also present but it does not contribute for the color, though it was initially isolated in pigment studies, and there is the 5-deoxybostrycoidin-based melanin, but it occurs mostly in the teleomorph’s perithecium. There is still a need to chemically quantify the pigments throughout the lifecycle, analyze their relationships and how much each impacts F. graminearum surface color.
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Biology, Animal Sciences & Zoology; diabetes mellitus; ROS; carbohydrate metabolism; antioxidants; chronic unpredictable environmental stress
Online: 14 September 2018 (07:20:37 CEST)
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Chronic unpredictable environmental stress (CUES) may induce predisposition to diabetes mellitus. This study investigates the role of CUES on impaired homeostasis. Stressed group mice (n = 20) were exposed to CUES for 16 weeks. Weekly body weight, feed consumption, feed efficiency ratio, fasting blood glucose were monitored. Plasma HbA1c, plasma cortisol, plasma epinephrine and plasma insulin, serum lipids, antioxidants and carbohydrate metabolizing enzymes activity were assessed along with DNA damage and histopathological examination of liver, kidney, pancreas, spleen and skeletal muscles. Fasting blood glucose levels & HbA1c in the stressed were significantly higher compared to control (p < 0.001). Serum lipids were found insignificantly higher in stressed mice compared to control. Body weights of the stressed mice and feed efficiency ratio were found significant (p < 0.001). Plasma corticosterone, plasma epinephrine, HOMA-IR was found to be significantly higher in the stressed group (p < 0.001). Plasma insulin level was found to be significantly lower in the stressed group (p < 0.001). Significant changes were observed in antioxidants level, carbohydrate metabolizing enzymes activity, peripheral tissues and DNA integrity. CUES initiates pathogenesis of diabetes.
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Biology, Agricultural Sciences & Agronomy; Agroforestry; ecosystem services; measurable criteria; certification standard; biodiversity; agroecosystem; regenerative agriculture
Online: 12 September 2018 (15:56:22 CEST)
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Agroforestry is increasingly being recognized as a holistic food production system that can have numerous significant environmental, economic, and social benefits. This growing recognition is paralleled in the U.S. by the budding interest in regenerative agriculture and motivation to certify regenerative practices. Current efforts to develop a regenerative agriculture certification offer an opportunity to consider agroforestry’s role in furthering regenerative goals. To understand this opportunity, we first examine how agroforestry practices can advance regenerative agriculture’s five core environmental concerns: soil fertility and health, water quality, biodiversity, ecosystem health, and carbon sequestration. Next, we review a subset of certification programs, standards, guidelines, and associated scientific literature to understand existing efforts to standardize agroforestry. We determine that development of an agroforestry standard alongside current efforts to certify regenerative agriculture offers an opportunity to leverage common goals and strengths of each. Additionally, we determine that there is a lack of standards with measurable criteria available for agroforestry, particularly in temperate locations. Lastly, we propose a framework and general, measurable criteria for an agroforestry standard that could potentially be implemented as a standalone standard or built into existing agriculture, forestry, or resource conservation certification programs.
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Biology, Forestry; sequential chemical extraction; 31P-nuclear magnetic resonance spectroscopy (31P-NMR); phosphorus; coastal sand dune; Casuarina forests
Online: 12 September 2018 (14:35:31 CEST)
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Continuous research into the availability of phosphorus (P) in forest soil is critical for sustainable management of forest ecosystems. In this study, we used sequential chemical extraction and 31P-nuclear magnetic resonance spectroscopy (31P-NMR) to evaluate the form and distribution of inorganic P (Pi) and organic P (Po) in Casuarina forest soils of a subtropical coastal sand dune at Houlong in Taiwan. The soil samples were collected from humic (+2-0 cm) and mineral layers (mineral-I: 0-10, mineral-II: 10-20 cm) at two topographic locations (upland and lowland) by elevation. Sequential chemical extraction revealed that the NaOH-Po fraction, as moderately recalcitrant P, was the dominant form in humic and mineral-I layers in both upland and lowland soils, whereas the cHCl-Pi fraction was the dominant form in the mineral-II layer. Resistant P content, including NaOH-Pi, HCl-Pi, cHCl-Pi, and cHCl-Po fractions, was higher in the upland than lowland in the corresponding layers; however, labile P content, NaHCO3-Po, showed the opposite pattern. Content of resistant Pi (NaOH-Pi, HCl-Pi, and cHCl-Pi) increased significantly with depth, but that of labile Pi (resin-Pi and NaHCO3-Pi) and recalcitrant Po (NaHCO3-Po, NaOH-Po, and cHCl-Po) decreased significantly with depth at both locations. 31P-NMR spectroscopy revealed inorganic orthophosphate and monoesters-P as the major forms in this area. The proportions of Pi and Po evaluated by sequential chemical extraction and 31P-NMR spectroscopy were basically consistent. The results indicated that the soils were in weathered conditions. Furthermore, the P distribution and forms significantly differed between the upland and lowland by variation in elevation and eolian aggradation effects in this coastal sand dune landscape.
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Mariel C Isidra-Arellano,
María del Rocio Reyero-Saavedra,
María del Socorro Sánchez-Correa,
Lise Pingault,
Sidharth Sen,
Trupti Joshi,
Lourdes Girard,
Norma A Castro-Guerrero,
David G Mendoza-Cozatl,
Marc Libault,
Oswaldo Valdés-López
Biology, Plant Sciences; Phosphorus deficiency, common bean, rhizobia, molecular dialog, symbiosis, gene transcription
Online: 12 September 2018 (03:29:38 CEST)
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Phosphate (Pi) deficiency reduces nodule formation and development in different legume species including common bean. Despite the significant progress in the understanding of the genetic responses underlying the adaptation of nodules to Pi deficiency, it is still unclear whether this nutritional deficiency interferes with the molecular dialog between legumes and rhizobia, if so, what part of the molecular dialog is impaired? In this study, we provide evidence demonstrating that Pi deficiency negatively affects critical early molecular and physiological responses required for a successful symbiosis between common bean and rhizobia. We demonstrated that the infection thread formation and the expression of PvNSP2, PvNIN, and PvFLOT2, genes controlling the nodulation process, were significantly reduced in Pi-deficient common bean seedlings. Further transcriptional analysis revealed that the expression of hormones-related genes is compromised in Pi-deficient seedlings inoculated with rhizobia. Additionally, we showed that regardless of the presence or absence of rhizobia, the expression of PvRIC1 and PvRIC2, two genes participating in the autoregulation of nodule number, was higher in Pi-deficient seedlings than in control seedlings. The data presented in this study shed light on the understanding of how Pi deficiency impacts the early steps of the symbiosis between common bean and rhizobia.
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Biology, Agricultural Sciences & Agronomy; groundwater salinization; soil salinization; salinization risk assessment; climate analysis; water balance; salinity balance; salt leaching; processing tomato; crop yield decrease.
Online: 11 September 2018 (17:29:31 CEST)
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Mediterranean climate is marked by arid climate conditions in summer, therefore, crop irrigation is crucial to sustain plant growth and productivity in this season. If groundwater is utilized for irrigation, an impressive water pumping is needed to satisfy crop water requirements at catchment scale. Consequently, irrigation water quality gets worse, specifically considering groundwater salinization near the coastal areas due to seawater intrusion, also triggering soil salinization.
With reference to an agricultural coastal area in the Mediterranean basin (Southern Italy), close to the Adriatic sea, an assessment of soil salinization risk due to processing tomato cultivation was carried out. A simulation model was arranged to perform, on daily basis, a water and salt balance along the soil profile. Long-term weather data and soil physical parameters representative of the considered area were utilized in applying the model, also considering three salinity levels of irrigation water.
Based on the climatic analysis performed and the model outputs, the probability of soil salinity came out very high, such as to seriously threaten tomato yield. Autumn-winter rainfall resulted frequently insufficient to leach excess salts away from the soil profile and reach sustainable conditions of tomato cultivation. Therefore, alternative cropping strategies were prospected.
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Biology, Other; evolutionary innovation, cell type evolution, cellular stress response, evolution of gene regulation, gene regulatory network evolution, decidual cell, evolution of pregnancy
Online: 11 September 2018 (13:41:34 CEST)
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Understanding the evolutionary role of environmentally-induced phenotypic variation (i.e., environmental plasticity) is an important issue in developmental evolution. One of the major physiological responses to environmental changes is cellular stress, which is counteracted by a generic stress reaction that detoxifies the cell, refolds proteins, and repairs DNA damage. In this paper, we elaborate on a previous finding suggesting that the cell differentiation cascade of human decidual stromal cells, a cell type critical for embryo implantation and the maintenance of pregnancy, evolved from a cellular stress reaction. We hypothesize that the stress reaction in these cells was elicited ancestrally through the inflammation caused by embryo attachment and invasion. We describe a model, Stress-Induced Evolutionary Innovation (SIEI), whereby ancestral stress reactions and their corresponding pathways can be transformed into novel structural components of body plans, such as new cell types. After reviewing similarities and differences between SIEI and the “plasticity first hypothesis” (PFH) of evolution, we argue that SIEI is a distinct form of plasticity-based evolutionary change because it leads to the origin of novel structures rather than the adaptive transformation of a pre-existing character.
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Biology, Physiology; NOX, sulfenylation, Nrf2, SKN-1, centenarians, extracellular matrix, longevity
Online: 10 September 2018 (14:59:22 CEST)
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An accumulating body of evidence suggests that physiological reactive oxygen species (ROS) generated by NADPH oxidases act as a redox signal to re-establish homeostasis, a capacity that progressively declines during aging, but is maintained in long-lived animals to promote healthy aging. In the model organism Caenorhabditis elegans, ROS generated by dual oxidases (Duox) are important for extracellular matrix integrity, pathogen defense, oxidative stress resistance, and longevity. The Duox enzymatic activity is tightly regulated and under cellular control. Developmental molting cycles, pathogen infections, toxins, mitochondrial-derived ROS, drugs, and small GTPases (RHO-1) can activate Duox (BLI-3) to generate ROS, whereas NADPH oxidase inhibitors and negative regulators, such as MEMO-1, can inhibit Duox to generate ROS. Three mechanisms-of-action have been discovered for the Duox/BLI-3-generated ROS: 1) enzymatic activity to catalyze cross-linking of free tyrosine ethyl ester in collagen bundles to stabilize extracellular matrices, 2) high ROS bursts/levels to kill pathogens, and 3) Redox signaling activating downstream kinase cascades to transcription factors orchestrating oxidative stress- and immunity responses to re-establish homeostasis. Although Duox function at the cell surface is well established, recent genetic and biochemical data also suggests a novel role for Duoxs at the endoplasmic reticulum membrane to control redox signaling. Evidence underlying these mechanisms initiated by ROS from NADPH oxidases and their relevance for human aging are discussed in this review. Appropriately controlling NADPH oxidase activity for local and physiological redox signaling to maintain cellular homeostasis might be a therapeutic strategy to promote healthy aging.
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André M. Machado,
Ole K. Tørresen,
Naoki Kabeya,
Alvarina Couto,
Bent Petersen,
Mónica Felício,
Paula F. Campos,
Elza Fonseca,
Narcisa Bandarra,
Mónica Lopes-Marques,
Renato Ferraz,
Raquel Ruivo,
Miguel M. Fonseca,
Sissel Jentoft,
Óscar Monroig,
Rute Da Fonseca,
L. Filipe C. Castro
Biology, Animal Sciences & Zoology; European sardine; draft genome; teleosts; comparative genomics; long chain polyunsaturated fatty acids
Online: 10 September 2018 (14:37:23 CEST)
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Clupeiformes, such as sardines and herrings, represent an important share of worldwide fisheries. Among those, the European sardine (Sardina pilchardus, Walbaum 1792) exhibits significant commercial relevance. While the last decade showed a steady and sharp decline in capture levels, recent advances in culture husbandry represent promising research avenues. Yet, the complete absence of genomic resources from sardine imposes a severe bottleneck to understand its physiological and ecological requirements. We generated 69 Gbp of paired-end reads using Illumina HiSeq X Ten and assembled a draft genome assembly with an N50 scaffold length of 25579 bp and BUSCO completeness of 82.1% (Actinopterygii). The estimated size of the genome ranges between 655 and 850 Mb. Additionally, we generated a relatively high-level liver transcriptome. To deliver a proof of principle of the value of this dataset, we established the presence and function of enzymes (elovl2, elovl5 and fads2) that have pivotal roles in the biosynthesis of long chain polyunsaturated fatty acids, essential nutrients particularly abundant in oily fish such as sardines. Our study provides the first omics dataset from a valuable economic marine teleost species, the European sardine, an essential resource for their effective conservation, management and sustainable exploitation.
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Biology, Other; Temperature, Culture, Cell, Chick, Embryo, Rotation
Online: 10 September 2018 (14:02:12 CEST)
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Recently, some authors have developed a shell-less culture system for chick embryos by using a
plastic lm as culture vessels. We will show that velocity of rotation of vessels in incubator and
temperature have direct relations with growth of chick embryos. We also obtain a mathematical
relation between velocity, temperature and rate of growth of chick embryo.
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Biology, Entomology; nucleic acid extraction, bees, genetics, genomics
Online: 10 September 2018 (12:13:30 CEST)
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Honeybees as important managed pollinators are critical for sustainable agriculture and ecosystem. Nucleic acid based analysis including DNA and RNA enabled broader scope of research in functional genomics, disease diagnostics, mutant screening, and genetic breeding of honeybees. Next Generation Sequencing technologies have served as great tools to provide insights into genome biology, behavioral ecology, social evolution, and pollinator disease. Epigenetic marks such as CpG DNA methylation may regulate gene activities in the invertebrate genome. However, transcriptomic analysis via RNA-seq is also needed to study the role of DNA methylation in gene expression and regulation. Multiple levels of “omics” studies will be able to integrate genomic variation, transcriptomic profiles, and epigenomic information to elaborate mechanistic characteristics underlying phenotypic variation. One limitation may due to the sample preparation procedures to obtain high quality of DNA and RNA material. We demonstrated an undescribed method for dual extractions of the DNA and RNA from a single individual, and compared the column-based kit to the precipitation kit for the quality and quantity of the DNA and RNA molecules. Our study showed the precipitation based method yield high quantity of RNA but not for DNA. The column-based method may obtain high quality of DNA. Our findings provided the first standard method of dual extraction of nucleic acids for improving sequencing experiments and genomic studies in honeybees.
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Nesrine Ebrahim,
Inas A. Ahmed,
Noha I. Hussien,
Arigue A. Dessouky,
Ayman Samir Farid,
Amal M. Elshazly,
Ola Mostafa,
Walaa Bayoumie El Gazzar,
Safwa M. Sorour,
Yasmin Seleem,
Ahmed M. Hussein,
Dina Sabry
Biology, Other; diabetic nephropathy; exosomes; autophagy; mTOR
Online: 10 September 2018 (08:26:55 CEST)
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Background: diabetic nephropathy (DN) is a serious complication of diabetes mellitus and a common cause for end stage renal disease. Autophagy has a defensive role against kidney damage caused by hyperglycemia. The mesenchymal stem cells (MSCs) derived exosomes are currently considered as a new promising therapy in chronic renal injury. However, the renal protective mechanism of exosomes on DN has not been completely understood. We examined the potential role of MSCs derived exosomes in enhancement of autophagy activity and its effect on DN. In our study we used five groups of rats; control, DN, DN treated with exosomes, DN treated with 3-methyladenine (3-MA) and chloroquine (inhibitors of autophagy) and DN treated with 3-methyladenine (3-MA) and chloroquine and exosomes groups. We assessed renal functions, morphology and fibrosis. Moreover, autophagy markers; mTOR, Beclin-1, light chain-3 (LC3-II), and LC3-II/LC3-I ratio were detected. Additionally, electron microscopy was used for detection of autophagosomes. Results: Exosomes markedly improved the renal functions and showed histological restoration of renal tissues with significant increase in LC3 and Beclin-1 besides the significant decrease in mTOR and fibrotic markers expression in renal tissue. All previous effects were partially abolished by the autophagy inhibitor, chloroquine and 3-MA. Conclusions: we conclude that autophagy induction by exosomes could attenuate DN in a rat model of streptozotocin-induced diabetes mellitus.
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Biology, Agricultural Sciences & Agronomy; crop modelling; DSSAT; climate variability; survey; maize; crop guidelines/cropping calendar
Online: 10 September 2018 (08:13:47 CEST)
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Rain-fed maize production has significantly declined in Zimbabwe especially in semi-arid and arid areas causing food insecurity. Erratic rainfall received associated with mid-season dry spells largely contribute to low and variable maize yields. This study involved a survey of current farmers’ cropping practices, analyses of climatic data (daily rainfall and daily minimum and maximum temperature) of Hwedza station and simulation of maize yield response to climate change using DSSAT CERES crop growth simulation model. The climatic and maize yield data was analysed using mean correlation and regression analyses to establish relationships between rainfall characteristics and maize yield in the study area. Survey results showed that maize was the staple food grown by 100% of the farming households while 8.7% also grew sorghum. The survey concludes that 56.2% of the farmers grew short season varieties, 40.2% medium season varieties and 3.6% long season varieties. The result of the correlation analysis of climatic data and maize yield showed that number of rain days had strong positive relationship (r = 0.7) with maize yield. Non-significant yield differences (p > 0.05) between maize cultivar and planting date criteria were obtained. Highest yields were obtained under the combination of medium season maize cultivar and the DEPTH criterion in all simulations. The range of simulated district average yields of 0.4 t/ha to 1.8 t/ha formed the basis for the development of an operational decision support tool (cropping calendar).
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Biology, Physiology; retinoic acid; microRNA; RNA sequencing; neuronal regeneration; growth cone; Lymnaea
Online: 7 September 2018 (05:13:31 CEST)
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Retinoic acid (RA) is the biologically active metabolite of vitamin A and has become a well-established factor that induces neurite outgrowth and regeneration in both vertebrates and invertebrates. However, the underlying regulatory mechanisms that may mediate RA-induced neurite sprouting remain unclear. In the past decade, microRNAs have emerged as important regulators of nervous system development and regeneration, and have been shown to contribute to processes such as neurite sprouting. However, few studies have demonstrated the role of miRNAs in RA-induced neurite sprouting. By miRNA-Sequencing analysis, we identify 482 miRNAs in the regenerating CNS of the mollusc Lymnaea stagnalis, 219 of which represent potentially novel miRNAs. Of the remaining conserved miRNAs, 38 show a statistically significant up or downregulation in regenerating CNS as a result of RA treatment. We further characterized the expression of one neuronally-enriched miRNA upregulated by RA, miR-124. We demonstrate for the first time that miR-124 is expressed within the cell bodies and neurites of regenerating motorneurons. Moreover, we identify miR-124 expression within the growth cones of cultured ciliary motorneurons (Pedal A), whereas expression in the growth cones of another class of respiratory motorneurons (RPA) was absent in vitro. These findings support our hypothesis that miRNAs are important regulators of retinoic acid-induced neuronal outgrowth and regeneration in regeneration-competent species.
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Biology, Horticulture; aeroponics; soilless culture; root growth; root/shoot ratio
Online: 6 September 2018 (06:20:00 CEST)
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Aeroponics is a relatively new soilless culture technology, which may produce food in space limited cities or non-arable land with high water use efficiency. The shoot and root growth, root characteristics, mineral contents of two lettuce cultivars were measured in aeroponics, as compared with hydroponics and substrate culture. The results showed that aeroponics remarkably improved the root growth with a significant greater root biomass, root/shoot ratio, and several times higher total root length, root area and root volume. However, the greater root growth did not lead to a better shoot growth compared with hydroponics, due to the limited availability of nutrients and water. It can be concluded that aeroponics systems may be better for high value true root crops production. Further research is necessary to figure out the suitable pressure, droplet size, and misting interval in order to improve the continuously availability of nutrients and water in aeroponics, if it is used to grow crops like lettuce for harvesting above-ground parts.
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Biology, Plant Sciences; Montiaceae; phylogeny; phylogeography; long-distance dispersal; idiosyncrasy; Principal of Evolutionary Idiosyncraticity
Online: 5 September 2018 (14:02:42 CEST)
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Montiaceae comprise a clade of at least 270 species plus about 20 accepted subspecific taxa, primarily of western America and Australia. The present paper is the first of a two-part work that seeks to evaluate evolutionary theory via metadata analysis of Montiaceae. In particular, it uses metadata analysis to evaluate the theory in theory-laden methods that have been applied in evolutionary analyses of Montiaceae. This part focuses on phylogeny and phylogeography. The second part focuses on phenotypic and ecological diversification. An emergent theme in this paper is the degree to which historical idiosyncrasy during Montiaceae evolution misleads quantitative methods of evolutionary reconstruction and phylogeographic interpretation. This suggests that idiosyncraticity itself is a fundamental property of evolution. The second part of this work elaborates this notion as the Principle of Evolutionary Idiosyncraticity. The present part describes idiosyncraticity in molecular phylogenetic and phylogeographic data and uses this notion to refine ideas on Montiaceae evolution. Phylogenetic metadata conflicts and conflicting phylogeographic interpretations are discussed. I conclude that, owing to PEI, quantitative methods of evolutionary analysis cannot be globally accurate, though they are useful heuristically. In contrast, classical narrative analysis is robust in the face of PEI.
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Said Moselhy,
Ehab Mostafa,
Abdulrahman Almalki,
Taha Kumosani,
Youssri Soliman,
Ibrahim Aboseda,
Wesam Abduaal,
Rwaa Abdulaal,
Numan Salah,
Walid Alshawafi,
Afnan Kunosani
Biology, Physiology; Troponin I- Myocardial infarction- Ischemic heart diseases- Biosensors- golden plate.
Online: 5 September 2018 (12:09:33 CEST)
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Rapid diagnosis of acute myocardial infarction is critical for intervention and treatment to decrease morbidity and mortality. For this reasons, this study aimed to design a sensitive biosensor for cardiac troponin I (cTnI) for early prediction and intervention. The sensor was designed from golden plate immobilized with anti- cTnI antibody conjugated with horseradish peroxidase (HRP) enzyme. The rate of degradation of H2O2 is directly related to serum cTnI level. Serum cTnI level was quantified from 3 studied groups including; healthy subjects and patients with ischemic heart (IHD) diseases and myocardial infarction (MI) by ELISA and biosensor techniques to achieve the improved sensitivity of the biosensor. It was found that cTnI levels in healthy subjects ranged from 8-13 ng/dl and in patients with IHD ranged from 20 - 41 ng/dl and MI range from 57- 180 ng/dl. The sensitivity of biosensor was ranged from 85-95% compared with ELISA technique. The developed biosensor is promising in ICU hospitals for early diagnosis and prevent complications of the stroke. It is recommended to apply this biosensor in the large scale of patients with different stages of the cardiac disease.
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Biology, Other; A; aggregation; amyloid; APP; misfolding; prion protein; prion-like; PrP; seeds; tau
Online: 4 September 2018 (18:51:56 CEST)
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The misfolding and aggregation of proteins is the neuropathological hallmark of numerous diseases including Alzheimer’s disease, Parkinson’s disease, and prion diseases. It is believed that misfolded and abnormal -sheets forms of wild-type proteins are the vectors of these diseases by acting as seeds for the aggregation of endogenous proteins. Cellular prion protein (PrPC) is a glycosyl-phosphatidyl-inositol (GPI) anchored glycoprotein which is able to misfold to a pathogenic isoform PrPSc, the causative agent of prion diseases which present as sporadic, dominantly inherited and transmissible infectious disorders. Increasing evidence highlight the importance of prion-like seeding as a mechanism for pathological spread in Alzheimer’s disease and tauophaty, as well as other neurodegenerative disorders. Here, we report the latest findings on the mechanisms controlling protein folding, focusing on the ER quality control of GPI-anchored proteins and describe the “prion-like” properties of amyloid- and tau assemblies. Furthermore, we highlight the importance of pathogenic assemblies interactions with protein and lipid membrane components and their implications in both prion and Alzheimer’s diseases.
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Hui Lu,
Shuai Zhang,
Junyu Luo,
Chunyi Wang,
Limin Lv,
Lijuan Zhang,
Xiangzhen Zhu,
Li Wang,
Xueke Gao,
Hongxia Hua,
Jinjie Cui
Biology, Plant Sciences; Gossypium hirsutum L.; Adelphocoris suturalis (Jakovlev); alpha-linolenic acid pathway; tryptophan metabolism; plant defence
Online: 4 September 2018 (08:29:16 CEST)
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Cotton (Gossypium hirsutum Linn.) is widely cultivated in China. The polyphagous insect Adelphocoris suturalis (Jakovlev) is a serious insect pest in cotton growing regions. Plants have evolved sophisticated systems to cope with herbivore attacks. However, the cotton defense mechanisms induced by A. suturalis feeding have lagged behind. We carried out untargeted proteomic analysis using the iTARQ technique and metabolomics based on LC-MS/MS analysis of cotton leaves fed upon by A. suturalis. Proteomic analysis identified 775 upregulated proteins and 477 downregulated proteins in plants that were infested by A. sututralis compared to the controls. Metabolomic analysis identified 50 differentially expressed metabolites in the positive ion mode and 14 in the negative ion mode compared to the controls. The tryptophan metabolism pathway was significantly changed in both the positive and negative ion mode in the metabolomics analysis. The alpha-linolenic acid pathway was significantly changed in both the proteomic and metabolomics analyses. Furthermore, the result was validated by RT-qPCR analysis of 5 related genes involved in alpha-linolenic acid pathway. These results indicate that tryptophan metabolism and the alpha-linolenic acid pathway may be important in cotton defense against herbivores and would enhance our understanding of plant defenses induced by A. sututrali feeding.
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Biology, Agricultural Sciences & Agronomy; rice; OsCDPK1; grain size; amylose content; endosperm appearance
Online: 3 September 2018 (17:00:14 CEST)
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Overexpression of a constitutively active truncated form of OsCDPK1 (OEtr) in rice produced smaller seeds, but a double-stranded RNA gene-silenced form of OsCDPK1 (Ri) yielded large seeds, suggesting that OsCDPK1 plays a functional role in rice seed development. In the study presented here, we propose a model in which OsCDPK1 plays key roles in negatively controlling the grain size, amylose content, and endosperm appearance, and also affects the physicochemical properties of the starch. The dehulled transgenic OEtr grains were smaller than the dehulled wild-type grains, and the OEtr endosperm was opaque and had a low amylose content and numerous small loosely packed polyhedral starch granules. However, the OEtr grain sizes and endosperm appearances were not affected by the temperature being either optimal (25 °C ) or low (22 °C) or high (31 °C) during the grain-filling phase. In contrast, the transgenic Ri grains were larger, had higher amylose contents, and had more transparent endosperms filled with tightly packed polyhedral starch granules. This demonstrates that OsCDPK1 plays a novel functional role in starch biosynthesis during seed development and affects the transparent appearance of the endosperm. These results improve our understanding of the molecular mechanisms through which the grain filling process occurs in rice.
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Biology, Agricultural Sciences & Agronomy; GRAMI model; remote sensing; rice yield; satellite imagery; vegetation index
Online: 3 September 2018 (11:33:37 CEST)
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The Geostationary Ocean Color Imager (GOCI) of the Communication, Ocean, and Meteorological Satellite (COMS) increases the chance of acquiring images with greater clarity at eight times a day and is equipped with spectral bands suitable for monitoring crop yield with a moderate spatial resolution. The objectives of this study were to classify nationwide paddy fields and to project rice (Oryza sativa) yield and production using the grid-based GRAMI-rice model and GOCI satellite products over South Korea from 2011 to 2014. Solar insolation and temperatures were obtained from COMS and the Korea local analysis and prediction system for model inputs, respectively. The paddy fields and transplanting dates were estimated using Moderate Resolution Imaging Spectroradiometer (MODIS) reflectance and land cover products. The crop model was calibrated using observed yield data in 11 counties and was applied to 62 counties in South Korea. The overall accuracies of the detected paddy fields ranged from 89.5 to 90.2%. The simulated rice yields statistically agreed with observed yields, with root-mean-square errors of 0.219 to 0.451 ton ha-1 and Nash–Sutcliffe efficiencies of 0.241 to 0.733 in four years, respectively. According to paired t-tests (α = 0.05), the simulated and observed rice yields were not significantly different. These results demonstrate the possible development of a crop information delivery system that can classify land cover, simulate crop yield, and monitor regional crop production on a national scale.
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Biology, Plant Sciences; Origanum vulgare; Spodoptera littoralis; terpenoid biosynthesis; larval survival; antioxidant enzyme activity and gene expression; toxicity
Online: 31 August 2018 (15:28:51 CEST)
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Terpenoids are toxic compounds produced by plants as a defense strategy against insect herbivores. We tested the effect of Origanum vulgare terpenoids on the generalist herbivore Spodoptera littoralis and the response of the plant to herbivory. Terpenoids were analyzed by GC-FID and GC-MS and quantitative gene expression (qPCR) was evaluated on selected plant genes involved in both terpene biosynthesis. The insect detoxification response to terpenes was evaluated by monitoring antioxidant enzymes activity and expression of insect genes involved in terpene detoxification. O. vulgare terpenoid biosynthesis and gene expression was modulated by S. littoralis feeding. The herbivore-induced increased level of terpenoids (particularly carvacrol and p-cymene) interacted with the herbivore by decreasing larval survival and growth rate. The assimilation by S. littoralis of more than 50% of ingested terpenes correlated with the possible toxic effects of O. vulgare terpenoids. In choice test experiments, carvacrol and γ-terpinene mediated the larval feeding preferences, wherease the prolonged feeding on O. vulgare terpenoids (particularly on γ-terpinene) exerted relevant antinutritional effects on larvae. S. littoralis was found to react to O. vulgare terpenoids by increasing its antioxidant enzymes activities and gene expression, although this was not sufficient to sustain the toxicity of O. vulgare terpenoids.
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Biology, Anatomy & Morphology; apoptosis; necroptosis; neurodegeneration
Online: 31 August 2018 (07:56:58 CEST)
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Neuronal cell death in the central nervous system has always been a challenging process to decipher. In physiological condition, neuronal cell death is restricted in the adult brain even as people ages. However, in pathological conditions of various neurodegenerative diseases, the cell death and shrinkage of a specific brain region represent a fundamental pathological feature across different neurodegenerative diseases. In this review, we will briefly go through the general pathways of cell death and describe the evidence of the cell deaths in the context of common neurodegenerative diseases individually, discussing our current understandings of cell death in connecting with the renowned pathogenic proteins, including tau, amyloid-beta, alpha-synuclein, huntingtin, and TDP-43.
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Biology, Anatomy & Morphology; Chironomus riparius, laboratory cultures, experimental evolution
Online: 30 August 2018 (17:57:20 CEST)
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Chironomus riparius is a well-established model organism in various fields such as ecotoxicology and ecology, and therefore environmental preferences, ecological interactions and metabolic traits are well-studied. With the recent publication of a high-quality draft genome, as well as different population genetic parameters such as mutation and recombination rate, the species can be used as an alternative to the Drosophila models in experimental population genomics or molecular ecology. To facilitate access to this promising experimental model species for a wider range of researchers, we describe experimental methods to first create and sustain long term cultures of C. riparius and then use them to perform repeatable and comparable experiments for various research questions.
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Biology, Agricultural Sciences & Agronomy; Landraces, indigenous, accession, seed characters, diversity, faba bean
Online: 30 August 2018 (14:01:36 CEST)
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Faba bean (Vicia faba L.) is one of the popular pulse crops grown for traditional consumption, not only in Oman but also in Arabian Peninsula and other countries. In Oman, the famers living in and around high altitude mountain areas mostly grow it. This paper highlights features of variation in seed color and diversity in seed traits found in collected accessions from the joint collecting missions of 2008-2010 between the staff of College of Agriculture, Sultan Qaboos University and the Ministry of Agriculture & Fisheries throughout all the governorates of the Sultanate of Oman. 41 seed samples/accessions were collected from 38 sites. Of these, the highest number of accessions was collected from Batinah South governorate (38) represented mostly by the mountains of Rustaq, followed by the mountains of Interior/Al-Dakhliyah (8), and Dhahira & Buraimi (4). Only one accession was collected from mountains of the Eastern/ Al-Sharqiyah governorates. The seed accessions were found diverse with respect to all seed characters studied, i.e. seed length (cm) and width (cm) and 1000-seed weight (g) besides seed color. The faba bean accessions were classified into 9 genetically diverse clusters based on the Principal Component Analysis, which indicated that the contribution of seed width and 100-seed weight to the total variation existing in indigenous germplasm collected from all the governorates of Oman. It was found from the critical analysis of seed colors that 38 accessions were homogenous (pure) with one color and three were heterogeneous with combinations of colors.
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Biology, Forestry; balsam fir; white spruce; seedlings; partial cut; plantation; naturals stands; light; seed rain
Online: 30 August 2018 (07:36:10 CEST)
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This study documents the conditions associated to white spruce and balsam fir regeneration after partial cutting. Measurements were collected 9 to 30 years after partial cutting in 12 natural fir stands and 5 white spruce plantations. We estimated seed input, measured light reaching the undergrowth, recorded seedlings (<150 cm) and their age on 6 different seedling establishment substrates: mineral soil, moss, rotten wood, litterfall, herbaceous and dead wood. Partial cutting generally favours the establishment and growth of seedlings. The number of fir and spruce seedlings is always greater in natural stands than in plantations, a trend likely associated with the reduced abundance of preferential establishment substrate in the latter. White spruce significantly prefers rotten wood while fir settles on all types of substrates that cover at least 10% of the forest floor. There is a strong relationship between light intensity and the median height of spruce seedlings, but this relationship is non-significant for fir. Seedlings of both species can survive at incident light intensities as low as 3%, but an intensity of 15% or more seems to offer the best growth conditions. The conditions for successful forest regeneration proposed in this study should be applied when the goal is to establish a new stand prior to clear cutting or to convert stand structure.
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Biology, Ecology; sexual selection, sexual conflicts, contemporary evolution, mate choice, mating systems, mating strategies.
Online: 29 August 2018 (18:19:12 CEST)
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The study of eco-evolutionary feedbacks is in clear recent expansion. However, most studies concern predator-prey and host-parasite interactions, while the analysis of eco-evolutionary feedbacks involving sexual interactions is lagging behind. This is at odds with the potential of these interactions to engage in such processes. Indeed, there is now ample evidence that sexual selection is affected by ecological change. There is also evidence that sexual selection traits evolve rapidly, which may modify the ecological context of species, and thus the selection pressures they will be exposed to. Here, we first set a clear distinction between processes in which ecology drives evolution and those in which the contemporary evolution of populations may change their ecology, depending on which traits act as drivers and objects of change. We then review evidence for these processes and discuss examples of closed eco-evolutionary feedbacks in an attempt to understand how we can tear this loop apart. We suggest that a better understanding of eco-evolutionary feedbacks of sexual selection may help us understand the effects of sexual selection on the rate of adaptation, speciation, and extinction, and thus foster future research in this area.
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Biology, Agricultural Sciences & Agronomy; mesocosm; irrigation canal; irrigation channel; degradation; biodegradation; persistence; aquatic weed
Online: 29 August 2018 (10:58:03 CEST)
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Endothall dipotassium salt and monoamine salt are herbicide formulations used for controlling submerged aquatic macrophytes and algae in aquatic ecosystems. Microbial activity is the primary degradation pathway for endothall. To better understand what influences endothall degradation, we conducted a mesocosm experiment to 1) evaluate the effects of different water and sediment sources on degradation, and 2) determine if degradation was faster in the presence of a microbial community previously exposed to endothall. Endothall residues were determined with LC-MS at intervals to 21 days after endothall application. Two endothall isomers were detected. Isomer-1 was abundant in both endothall formulations, while isomer-2 was only abundant in the monoamine endothall formulation and was more persistent. Degradation did not occur in the absence of sediment. In the presence of sediment degradation if isomer-1 began after a lag phase of 5-11 days and was almost complete by 14 days. Onset of degradation occurred 2-4 days sooner when the microbial population was previously exposed to endothall. We provide direct evidence that the presence and characteristics of sediment are of key importance in the degradation of endothall in an aquatic environment, and that monoamine endothall has two separate isomers that have different degradation characteristics.
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Biology, Animal Sciences & Zoology; Irukandji syndrome; box jellyfish; CSL antivenom; nematocyst extracts; antigenicity; human sera; human antibodies
Online: 29 August 2018 (07:23:55 CEST)
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Carukia barnesi (Cb), Malo kingi (Mk) and Chironex fleckeri (Cf) are dangerous Australian box jellyfish species that provoke distinct and not well understood envenomation syndromes. Specifically, Cb and Mk are small, rare and able to induce a systemic syndrome of generalised muscle pain and catecholamine excess termed “Irukandji syndrome”; Cf has been widely regarded as one of the most venomous organisms in the animal kingdom causing severe sting site pain combined with potentially lethal cardiotoxicity. Building on past studies of major chirodropid and carybdeid species venoms, this study compared the utility of various cubozoan specific antibody reagents to better define the relationships between venom proteins from both exemplar Irukandji species (Cb and Mk) and the archetype C. fleckeri box jellyfish. With the aid of commercial ovine derived Cf-specific antivenom, mouse antibodies reactive to Cb and Mk and rabbit antibodies specific to two Cf toxins (CfTX-1 and 2), as well as human sera, the cross-reactivity of jellyfish species-specific polyclonal antibodies against these three cubozoan venoms was investigated. Immunoblot assays revealed distinc levels of immune recognition across the three species, indicating that Mk specific reagents may bind both Irukandji and Cf venoms. Irukandji venom appears to be antigenic with the exception of a few proteins in the range of 43/46 kDa maybe homologous to CfTX-1 and 2. The implications of such antibody binding for future antivenom development require further investigation.
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Biology, Ecology; COS production; COS uptake; Carbonic anhydrase; nitrate; ammonium; sulfur; microbial community
Online: 29 August 2018 (03:07:13 CEST)
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Soils are an important COS sink. However they can also act as sources of COS to the atmosphere. Here we demonstrate that variability in the soil COS sink and source strength is strongly linked to available soil inorganic nitrogen (N) content across a diverse range of biomes in Europe. We revealed in controlled laboratory experiments that N fertilisation simultaneously decreases the COS sink strength of soils while increasing the COS production rate. Furthermore, we found strong links between variations in the two gross COS fluxes, microbial biomass and nitrate and ammonium contents, providing new insights into the mechanisms involved. Our findings provide evidence for how soil-atmosphere exchange of COS is likely to vary spatially and temporally, a necessary step for constraining the role of soils and land use in the COS mass budget.
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Biology, Other; red cabbage; acidic electrolyzed water; decontamination; S. Typhimurium DT104; physicochemical characteristics; anthocyanins
Online: 28 August 2018 (10:46:47 CEST)
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The effects of acidic electrolyzed water (AEW) on the microbiological and physicochemical properties of fresh-cut red cabbages were studied. The fresh-cut red cabbages and artificially inoculated red cabbages with Salmonella Typhimurium DT104 were washed with distilled water (DW) and different available chlorine concentration (ACC) of AEW for different times. AEW treatments significantly reduced the populations of native aerobic bacteria, molds and yeasts, and artificially inoculated S. Typhimurium DT104 compared to the DW treated and untreated red cabbage samples. The effectiveness of AEW treatments was greatly enhanced with increasing ACC and treatment times. S. Typhimurium DT104 were not detected in the washing water after the red cabbages treated by AEW. The surface color, pH, and total phenolic contents were did not significantly change when the red cabbages were washed with DW and 100 ppm AEW for 3 min. The anthocyanin contents and antioxidant activities of red cabbage were significantly reduced by 18.5% for cyanidin, 22.1% for pelargonidin, and 11.2% for DPPH radical scavenging activity, the impacts on the nutritional benefits of red cabbage were considered as limited and acceptable. The optimal process condition of AEW for washing red cabbage was 100 ppm for 3 min. In these conditions, most of the native microflora were inactivated, and artificial inoculated S. Typhimurium DT104 on the red cabbage were reduced by 40.2% (3.67 log CFU/g) and with minimal losses of nutrients and antioxidant activity, as well as no requirement of discontinuation treatment on the washing water.
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Biology, Agricultural Sciences & Agronomy; WHR; SLW; PsaA; PsbA
Online: 27 August 2018 (10:02:31 CEST)
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Supplementary lighting is commonly used in high-quality seedling production. In this study, grafted tomato seedlings were grown for 10 days in a glasshouse with a 16-hour daily supplementary lighting at 100 μmol·m−2·s−1 PPFD from either high pressure sodium (HPS), metal halide (MH), far-red (FR), white LEDs (W), or mixed LEDs (W1R2B1) to determine which light sources improve the seedling quality. The control did not have any supplementary light. The physiological parameters and the expression of genes related to photosynthesis were analyzed. The results show that the root length, biomass, number of leaves, chlorophyll (SPAD), dry weight to height ratio (WHR) of the scion, and specific leaf weight (SLW) were the greatest for grafted seedlings grown in W1R2B1. The level of root ball formation was the greatest for seedlings grown in W1R2B1, followed by those grown in W, HPS, and MH. Seedlings grown in FR did not fare very well, as they were very thin and weak. Moreover, the expression of two photosynthetic genes (PsaA and PsbA) was significantly increased by W1R2B1 and W, which suggests that the plastid or nuclear genes might be regulated. The overall results suggest that W1R2B1 was the most suitable light source to enhance the quality of grafted tomato seedlings. The results of this study could be used as a reference for seedling production in glasshouses, and provide new insights in the research of lights affecting the development of plants.
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Biology, Animal Sciences & Zoology; bioinvasion; molecular markers; fanworm; biofouling
Online: 27 August 2018 (07:59:35 CEST)
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Introduction of exotic species in new areas through anthropic action is one of the major problems that can affect biodiversity. Branchiomma luctuosum is known for its highly invasive potential and the actual occurrence of species commonly associated with port activity areas is an extra evidence that this anthropogenic activity should not be underestimated. In order to develop suitable molecular markers for future studies on colonization routes and population dynamics of the invading individuals of B. luctuosum, nine highly polymorphic microsatellite loci were isolated and their polymorphism levels were evaluated. These loci showed a range of number of alleles per locus from five to ten and all loci had a high level of genetic diversity, and exhibited significant heterozygote deficiencies probably due to the presence of null alleles. Significant deviations from the Hardy-Weinberg equilibrium were detected at several loci and most of them were related to a heterozygous deficit. Heterozygous deficiency can be expected in this case due to the biology and history of this invasive species, in relation to its recent introduction in Brazilian coast and possible action of multiple introductory events.
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Biology, Other; HIV, cell-to-cell transmission, designer antigens, neutralizing antibody, cell-free, high multiplicity of infection
Online: 24 August 2018 (12:25:33 CEST)
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Viruses can infect a cell via one or both routes viz. cell-to-cell (c-c) or cell-free (c-f) . Pathogenesis studies of various viruses, including HIV, have shown that c-c transmission yields a significantly higher infection magnitude than the c-f route. Expectedly, potent antibodies inhibited c-f infection more efficiently than with c-cell transmission. To achieve a one-step, synchronous infection cycle that provides amplified infection, we have studied a consistent and efficient c-c HIV infection model since 1992. H9 cells persistently infected with HTLV-IIIB (H3B cells) and uninfected target CD4+ lymphocyte line (HuT78) were mixed in a ratio of 1:4 respectively. We have recently used this model to produce HIV designer antigens that have been shown to elicit monoclonal as well as polyclonal specific antibodies against novel epitopes that are formed post virus-cell engagement, but prior to fusion. The model can be extended for HIV neutralizing antibody assays or drug inhibitors against high multiplicity of infection.
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Biology, Animal Sciences & Zoology; mitochondrial DNA; mitochondrial genome; genome assembly; genome annotation; next generation sequencing; animal genomics; partial genomics; bioinformatics
Online: 24 August 2018 (05:24:37 CEST)
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Next-generation sequencing is now a mature technology, allowing partial animal genomes to be produced for many clades. Though many software exist for genome assembly and annotation, a simple pipeline that allows researchers to input raw sequencing reads in fastq format and allow the retrieval of a completely assembled and annotated mitochondrial genome is still missing. mitoMaker 1.0 is a pipeline developed in python that implements (i) recursive de novo assembly of mitochondrial genomes using a set of increasing k-mers; (ii) search for the best matching result to a target mitogenome and; (iii) performs iterative reference-based strategies to optimize the assembly. After (iv) checking for circularization and (v) positioning tRNA-Phe at the beginning, (vi) geneChecker.py module performs a complete annotation of the mitochondrial genome and provides a GenBank formatted file as output.
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Biology, Forestry; seeds; physical properties; range of variation; correlations; sorting
Online: 22 August 2018 (17:04:22 CEST)
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Information about the variations and correlations between the physical properties of seeds is essential for designing and modeling seed processing operations. The aim of this study was to determine the variations in the basic physical properties of seeds of selected spruce species and to identify the correlations between these attributes for the needs of the seed sorting processes. Terminal velocity, thickness, width, length, mass and the angle of external friction were determined in the seeds of 11 spruce species. The measured parameters were used to calculate three aspect ratios, geometric mean diameter, sphericity index and specific mass of each seed. The average values of the basic physical properties of the analyzed seeds were determined in the following range: terminal velocity – 5.25 to 8.34 m s-1, thickness – 1.10 to 2.32 mm, width – 1.43 to 3.19 mm, length – 2.76 to 5.52 mm, the angle of external friction – 23.1 to 30.0°, and mass – 2.29 to 18.57 mg. The seeds of Jezo spruce and Meyer's spruce were most similar to the seeds of other spruce species, whereas oriental spruce seeds differed most considerably from the remaining seeds. Our findings indicate that spruce seeds should be sorted primarily with the use of mesh sieves with longitudinal openings to obtain fractions with similar seed mass and to promote even germination.
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Biology, Agricultural Sciences & Agronomy; Landsat8; multi-temporal; crops statistics; land use land cover; Pakistan
Online: 21 August 2018 (14:25:17 CEST)
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Developing countries like Pakistan is among those where lack of adoption to science and technology advancement is a major constraint for Satellite Remote Sensing use in crops and land use land cover digital information generation. Exponential rise in country population, increased food demand, limiting natural resources coupled with migration of rural community to urban areas had further led to skewed official statistics. This study is an attempt to demonstrate the possible use of freely available satellite data like Landsat8 under complex cropping system of Okara district of Punjab, Pakistan. An Integrated approach has been developed for the satellite data based crops and land use/cover spatial area estimation. The resultant quality was found above 96% with Kappa statistics of 0.95. Land utilization statistics provided detail information about cropping patterns as well as land use land cover status. Rice was recorded as most dominating crop in term of cultivation area of around 0.165 million ha followed by autumn maize 0.074 million ha, Fallow crop fields 0.067 million ha and Sorghum 0.047 million ha. Other minor crops observed were potato, fodder and cotton being cultivated on less than 0.010 million ha. Population settlements were observed over an area of around 0.081 million ha of land.
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Biology, Other; retinoic acid; microRNA; RNA sequencing; neuronal regeneration; growth cone; Lymnaea
Online: 21 August 2018 (07:35:01 CEST)
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Retinoic acid (RA) is the biologically active metabolite of vitamin A,and has become a well-established factor that induces neurite outgrowth and regeneration in both vertebrates and invertebrates. However, the underlying regulatory mechanisms that may mediate RA-induced neurite sprouting remain unclear. In the past decade, microRNAs have emerged as important regulators of nervous system development and regeneration, and have been shown to contribute to processes such as neurite sprouting. However, few studies have demonstrated the role of miRNAs in RA-induced neurite sprouting. By R-Seq analysis, we identify 482 miRNAs in the regenerating CNS of the mollusc Lymnaea stagnalis, 219 of which represent potentially novel miRNAs. Of the remaining conserved miRNAs, 38 show a statistically significant up or downregulation in regenerating CNS as a result of RA treatment. We further characterized the expression of one neuronally-enriched miRNA upregulated by RA, miR-124. We demonstrate for the first time that miR-124 is expressed within the cell bodies and neurites of regenerating motorneurons. Moreover, we identify miR-124 expression within the growth cones of cultured ciliary motorneurons (Pedal A), whereas expression from the growth cones of another class of respiratory motorneurons (RPA) was absent in vitro. These findings support our hypothesis miRNAs are important regulators of retinoic acid induced neuronal outgrowth and regeneration in regeneration-competent species.
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Biology, Physiology; Long Term Evolution, LTE; 4G; mobile phone; nociception; pain; thermal pain threshold
Online: 20 August 2018 (17:01:09 CEST)
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Although the majority of mobile phone (MP) users do not attribute adverse effects on health or well-being to MP-emitted radiofrequency (RF) electromagnetic fields (EMFs), the exponential increase in the number of RF devices necessitates continuing research aimed at the objective investigation of such concerns. In this work, we investigate the effects of acute exposure from Long Term Evolution (LTE) MP EMFs on thermal pain threshold in healthy young adults. We use a protocol that was validated in a previous study in a capsaicin-induced hyperalgesia model, and was also successfully used to show that exposure from an RF source mimicking a Universal Mobile Telecommunications System (UMTS) MP led to mildly stronger desensitization to repeated noxious thermal stimulation relative to the sham condition. Using the same experimental design, we did not find any effects of LTE exposure on thermal pain threshold. The present results are in accordance with previous evidence suggesting that effects are likely to be placebo/nocebo effects and are unrelated to the brief acute LTE EMF exposure itself. The fact that this is dissimilar to our previous results on UMTS exposure implies that RF modulations might differentially affect pain perception, and points to the necessity of further research in the topic.
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Biology, Forestry; Southeastern rim of Tibetan plateau; dendrochronology; climate response; climate warming; subalpine conifer forests
Online: 18 August 2018 (14:08:03 CEST)
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Climate change has a inevitable impacts on tree radial growth, particularly at mountain timeberlines. To understand climate effects on conifer radial growth in the central Hengduan Mountains and potential impacts of future climate change on conifer forest, we studied growth responses to climate variables in Abies georgei, the major tree species of conifer forest in Hengduan Mountains. We collected tree ring samples from four sites near the timberlines and analyzed the relationship between principle components (PC#1) of four chronologies and climatic variables by using response function analysis (RFA), redundancy analysis (RDA) and moving interval analysis (MIA). A. georgei growth was affected by both temperature (positive effects) and precipitation (negative effects). Specifically, the radial growth of A. georgei was significantly and positively correlated with current July and previous November temperature (detected by both RFA and RDA), while precipitation of current June and September inhibited tree growth (detected by RDA). More rapid warming in recent 20 years (1990–2010) clearly enhanced growth responses to July and November temperature, whereas the relationship was weaken for June and September precipitation according to MIA. Under the climate trend of the study area, if the increasing temperature could offset the negative effects of excessive precipitation, A. georgei radial growth would likely benefit from warming, the dynamics of conifer forest should also consider indirect impacts of climate change.
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Biology, Other; Candida glabrata, drug resistance, tolerance, FKS, MSH2, echinocandin, azole
Online: 17 August 2018 (14:43:43 CEST)
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Candida glabrata has thoroughly adapted to successfully colonize human mucosal membranes and survive in vivo pressures prior to and during antifungal treatment. Out of all the medically relevant Candida species, C. glabrata has emerged as a leading cause of azole, echinocandin, and multidrug (MDR: azole + echinocandin) adaptive resistance. Neither mechanism of resistance is intrinsic to C. glabrata, since stable genetic resistance depends on mutation of drug target genes, FKS1 and FKS2 (echinocandin resistance), and a transcription factor, PDR1, which controls expression of major drug transporters, such as CDR1 (azole resistance). However, another hallmark of C. glabrata is the ability to withstand drug pressure both in vitro and in vivo prior to stable ‘genetic escape’. Additionally, these resistance events can arise within individual patients, which underscores the importance of understanding how this fungus is adapting to its environment and to drug exposure in vivo. Here, we explore the evolution of echinocandin resistance as a multistep model that includes general cell stress, drug adaptation (tolerance), and genetic escape. The extensive genetic diversity reported in C. glabrata will be highlighted.
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Biology, Physiology; Heterodimeric G protein coupled receptor; saturation transfer difference nuclear magnetic resonance spectroscopy; differential scanning calorimetry; circular dichroism; intrinsic fluorescence spectroscopy
Online: 17 August 2018 (13:15:39 CEST)
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Taste signaling is a complex process that is linked to obesity and its associated metabolic syndromes. The sweet taste is mediated through a heterodimeric G protein coupled receptor (GPRC) in a species-specific manner and at multi-tissue specific levels. The sweet receptor recognizes a large number of ligands with structural and functional diversities to modulate different amplitudes of downstream signaling pathway(s). The human sweet-taste receptor has been extremely difficult to study by biophysical methods due to inadequate methods for producing large homogeneous quantities of the taste-receptor protein and a lack of reliable in vitro assays to precisely measure productive ligand binding modes leading to activity upon their interactions with the receptor protein. We report a multimodal high throughput assays to monitor ligand binding, receptor stability and conformational changes to model the molecular interactions between ligand-receptor. We applied saturation transfer difference nuclear magnetic resonance spectroscopy (STD-NMR) complemented by differential scanning calorimetry (DSC), circular dichroism (CD) spectroscopy, and intrinsic fluorescence spectroscopy (IF) to characterize binding interactions. Our method using complementary NMR and biophysical analysis is advantageous to study the mechanism of ligand binding and signaling processes in other GPCRs.