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Biology, Entomology; tomato pest; Tuta absoluta; bioassay; pesticide resistance; LD50; CYP450s
Online: 15 August 2018 (04:24:01 CEST)
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In 2016 northern Nigeria experienced a devastating infestation by the tomato leaf miner, leading to soaring in prices of tomato across the country. Unfortunately, information on the bionomics and resistance status of this pest is lacking in northern Nigeria, hampering appropriate control measures. Here, we identified to species level, and using conventional and synergist bioassays characterised pesticides resistance profile of a field population of a tomato leaf miner from northern Nigeria. Highest resistance was obtained with λ-cyhalothrin (Type II pyrethroid) with a low mortality (18.52% at 56hr) and LD50 of 7461.474ppm. Resistance was also established toward propoxur and chlorpyrifos-methyl with average mortalities each of 56% and LD50s of 1023.51ppm and 106.351ppm, respectively. Highest susceptibility was seen with abamectin with mortality of 86% and LD50 of 0.034ppm. Pre-exposure to piperonyl butoxide significantly recovered λ–cyhalothrin susceptibility (mortality = 90% and LD50 = 0.92ppm) implicating the P450 monoxygenases in the resistance. No significant changes in mortalities were obtained on pre-exposure to diethyl maleate and triphenyl-phosphate- inhibitors of glutathione S-transferases and carboxylesterases, respectively. The finding of resistance to these agricultural pesticides will sensitize stakeholders across Nigeria to take action to manage the resistance at an early stage before it gets out of hand.
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Biology, Agricultural Sciences & Agronomy; irrigation; technology adoption; farmers’ innovation; diffusion
Online: 15 August 2018 (04:08:07 CEST)
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In 2013, thirty-eight treadle pumps (TPs) were installed as low-cost technology introduction for small-scale irrigation in eastern Ethiopia. This pilot project also trained six farmers on tube well excavation, installation and maintenance of pumps. In June 2015, researchers visited nine of the 38 TP villages, and found only two functional TPs. The rest were replaced with a new technology developed by the trained farmers. Adopters of the new technology stated that the limited water output and high labor demand of the conventional TP did not optimally fulfil their irrigation water requirements. The new technology had spread quickly to more than one hundred households due to three key factors. First, farmers’ innovative modifications of the initial excavation technique addressed the discharge limitations of the conventional TP by excavating boreholes with wider diameter. Second, local ownership of the new technology, including skills used in well drilling and manufacturing excavation implement, made the new irrigation technology affordable and accessible to the majority of households. Third, this innovation spread organically without any external support, confirming its sustainability. Farmers, empowered by training, gained more control in developing technology options tailored to local needs and conditions of their communities.
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Biology, Other; mimiviridae; algal virus; giant virus; phycodnaviridae; aquatic virus
Online: 15 August 2018 (03:00:29 CEST)
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Since 1998, when Jim van Etten’s team initiated its characterization, Paramecium bursaria Chlorella virus 1 (PBCV-1) had been the largest known DNA virus, both in terms particle size and genome complexity. In 2003, The Acanthamoeba-infecting Mimivirus unexpectedly superseded PBCV-1, opening the era of giant viruses, i.e. with virions large enough to be visible by light microscopy and genomes encoding more proteins than many bacteria. During the 15 following years, the isolation of many Mimivirus-relatives, have made the Mimiviridae one of the largest and most diverse family of eukaryotic viruses isolated from aquatic environments. Metagenomic studies keep suggesting that many more remain to be isolated. As Mimiviridae members are found to infect an increasing range of phytoplanckton species, their taxonomic position compared to the traditional Phycodnaviridae (i.e. etymologically “algal viruses”) became a source of confusion in the literature. Following a rapid history of the key discoveries that established the Mimiviridae family, we describe its current taxonomic structure and propose a set of operational criteria to help in the classification of future isolates.
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Biology, Plant Sciences; Linum usitatissimum, GWAS, seed mucilage content, seed hull content, single nucleotide poymosphism (SNP)
Online: 14 August 2018 (16:42:57 CEST)
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New flaxseed cultivars differing in seed mucilage content (MC) with low hull content (HC) represent an attractive option to simultaneously target the food and feed markets. Here, a genome-wide association study (GWAS) was conducted for MC and HC in 200 diverse flaxseed accessions genotyped with 1.7 million SNP markers. The data obtained for MC and HC indicated a broad phenotypic variation and high (~70%) and a moderate (~49%) narrow sense heritability, respectively. MC and HC did not differ statistically between fiber and oil morphotypes, but yellow-seeded accessions had 2.7% less HC than brown-seeded ones. The genome wide linkage disequilibrium (LD) decayed to r2 = 0.1 at a physical distance of ~100 Kb. Seven and four QTL were identified for MC and HC, respectively. Promising candidate genes included Linum usitatissimum orthologs of the Arabidopsis thaliana genes TRANSPARENT TESTA 8, SUBTILISIN-LIKE SERINE PROTEASE, GALACTUROSYL TRANSFERASE-LIKE 5, MUCILAGE-MODIFIED 4, AGAMOUS-LIKE MADS-BOX PROTEIN AGL62, GLYCOSYL HYDROLASE FAMILY 17 and UDP-GLUCOSE FLAVONOL 3-O-GLUCOSYLTRANSFERASE that have been shown to play a role in mucilage synthesis and release, seed coat development and anthocyanin biosynthesis in A. thaliana were identified. The favorable alleles will be useful in flaxseed breeding towards the goal of achieving the ideal flaxseed cultivars for food and feed by genomic-based breeding.
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Dong-Xing Zhang,
Yuan-Huan Kang,
Ming-Fang Song,
Hui-Ping Shu,
Song-Ning Guo,
Jun-Peng Jia,
Luo-Tao Tao,
Ze-Lin Zhao,
Lei Zhang,
Gui-Qin Wang,
Chun-Feng Wang,
Ai-Dong Qian,
Xiao-Feng Shan
Biology, Animal Sciences & Zoology; Northern snakehead, Aeromonas veronii, virulence genes, pathogenicity test
Online: 14 August 2018 (15:31:16 CEST)
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Aeromonas veronii are mainly associated with infections in freshwater fish species and reported as threats to aquatic environments. Here, we investigated the species distribution in Aeromonas isolated from healthy Northern snakehead (Channa argus) in China and evaluated the potential pathogenicity of A.veronii isolates. One hundred and sixty seven Aeromonas isolates were identified based on sequencing of the 16S rRNA gene and housekeeping gene gyrB. Furthermore, the distribution of seven virulence factors that related to the pathogenicity of Aeromonas spp. was determined by PCR. The results revealed that A.veronii (69/167; 29.3 %) and A.hydrophila (41/167; 17.9 %) were the most common species found in fish intestine. Seven dominant virulence factors, including aer, act, ser, exu, lip, LuxS, and Aha were determined exclusively in A.veronii isolates. The presence of the aer (141/167; 84.4 %) and act (135/167; 80.8 %) genes was associated with cytotoxicity in A.veronii. Different combination patterns of seven potential genes were presented in A.veronii, among which A.veronii harboring multiple virulence factors were capable of causing mortality and disease in fish. Pathogenicity test showed that the 50 % lethal dose (LD50) of A.veronii strains carrying seven virulence factors were higher compared to control. Collectively, A.veronii is the predominant species isolated from healthy Northern snakehead in China and might be widely distributed in aquatic environments. This study emphasizes the multiple virulence factors involved in the sophisticated process of Aeromonas pathogenesis, and the A.veronii species should be considered as potential threats in public health.
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Biology, Agricultural Sciences & Agronomy; Mozambique; dairy; research
Online: 13 August 2018 (06:27:29 CEST)
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The Mozambican dairy industry landscape is not well known because the research about it presents numerous inconsistencies. These inconsistencies are possibly due to miscommunication between scholars, entrepreneurs, the government and other actors, besides major events such as the civil war and policy changes and overall lack of coordination. This study aimed to catalog and relate the major studies and findings in the Mozambican dairy research, contextualize them historically, analyze the implications and provide hints for future researchers. Dairy research seemed intimately related to the industry’s development, and it has been dependent on the country’s sociopolitical changes and opportunities. Social and economic studies are more abundant, perhaps because the dairy industry is emerging, thriving to stand out in a very competitive environment, but there are also studies in applied sciences, especially microbiology and chemistry. There are promising directions to follow such as the improvement of herding techniques (e.g. feeding, disease control), multidisciplinary synergies or exploration of traditional dairy products such as masse. Also, it would be important for institutions to share their research through electronic platforms, even the information published prior to the existence of the worldwide web.
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Biology, Animal Sciences & Zoology; Parrots, Psittaciformes, Psittacidae, Chromosome painting, Phylogeny, Putative Ancestral Karyotype
Online: 9 August 2018 (20:51:32 CEST)
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Most Neotropical Psittacidae have a diploid number of 2n=70, and a dichotomy in chromosome patterns. Long-tailed species have biarmed macrochromosomes, while short - tailed ones have telo/acrocentric macrochromosomes. However, the use of chromosome painting with chicken and white hawk probes has demonstrated that karyotype evolution in Psittacidae includes a high number of inter/intrachromosomal rearrangements. Hence, to determine the phylogeny of Long and Short-Tailed species, and to propose a putative ancestral karyotype for this group, we constructed homology maps of Pyrrhura frontalis (PFR) and Amazona aestiva (AAE) and compared them to other previously analyzed long-tailed species. Chromosomes were analyzed by conventional staining and fluorescent in situ hybridization (FISH) using whole chromosome paints of G. gallus (GGA) and L. albicollis (LAL). Conventional staining showed a karyotype with 2n=70 in both species, with biarmed macrochromosomes in Pyrrhura frontalis and telo/acrocentric chromosomes in Amazona aestiva. Comparison of the results with the putative avian ancestral karyotype (PAK) showed fusions in P. frontalis of PAK1p/PAK4q (PFR1) and PAK6/PAK7 (PFR6) with a paracentric inversion in PFR6. However, in A. aestiva there was only the fusion between PAK6/7 (AAE7) with a paracentric inversion. Hybridizations with LAL probes confirmed these results. The results indicate that PFR retained a more basal karyotype than Anodorhynchus hyacinthinus (AHY), Ara macao (AMA) and Ara chloropterus (ACH), because these three species show the fusion PAK8/PAK9 that is not seen in PFR. Hence, we suggest that the ancestral karyotype of species with biarmed chromosomes have the fusions PAK1p/PAK4 and PAK6/PAK7 and, additionally, a pericentric inversion of PAK6/PAK7, while the fusion PAK8/PAK9 would have appeared in the common ancestor of Anodorhynchus hyacinthinus, Ara macao and Ara chloropterus. However, the species A. aestiva shows a characteristic plesiomorphic trait, since PAK1p/PAK4q and PAK8/9 fusions are absent. Our results base on chromosome rearrangements suggest the classification following the criterium of tail length may no reflect the real phylogenetic history of Neotropical Psittacidae.
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Biology, Plant Sciences; Cudratricusxanthone L; Cudrania tricuspidata; Neuroinflammation; Nuclear factor-kappa B (NF-κB); Mitogen-activated protein kinase (MAPK)
Online: 9 August 2018 (20:43:24 CEST)
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Neuroinflammatory responses are implicated in the pathogenesis of neurodegenerative diseases. In neurodegenerative diseases, neuroinflammatory reactions to neuronal injury are modulated by microglial cells, which are vital innate immune cells in the central nervous system. Activated microglial cells release proinflammatory cytokines, mediators, and neurotoxic factors that induce fatal neuronal injury. The present study investigated the anti-neuroinflammatory effects of cudratricusxanthone L (1), which was isolated from Cudrania tricuspidata. This compound reduced the levels of lipopolysaccharide-stimulated inflammatory mediators and cytokines, including nitric oxide, prostaglandin E2, interleukin (IL)-1β, tumor necrosis factor-α, IL-6, and IL-12. These effects suggested that cudratricusxanthone L (1) suppressed the nuclear factor-kappa B (NF-κB) signaling pathway. Specifically, cudratricusxanthone L (1) also attenuated the phosphorylation of Jun kinase and inhibited p38 mitogen-activated protein kinase (MAPK) signaling in BV2 and rat primary microglial cells. These results indicated that cudratricusxanthone L (1) effectively repressed neuroinflammatory processes in BV2 and rat primary microglial cells by inhibiting NF-κB and the MAPK signaling pathway.
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Shoko Hasegawa,
Takuya Tsutsumi,
Shunsuke Fukushima,
Yoshihiro Okabe,
Junna Saito,
Mina Katayama,
Masato Shindo,
Yusuke Yamada,
Koichiro Shimomura,
Kaori Yoneyama,
Kohki Akiyama,
Koh Aoki,
Tohru Ariizumi,
Hiroshi Ezura,
Shinjiro Yamaguchi,
Mikihisa Umehara
Biology, Plant Sciences; carotenoid cleavage dioxygenase 8; Orobanche minor; Phelipanche aegyptiaca; shoot branching; Solanum lycopersicum; strigolactones
Online: 8 August 2018 (15:24:04 CEST)
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Strigolactones (SLs), a group of plant hormones, induce germination of root-parasitic plants and inhibit shoot branching in many plants. Shoot branching is an important trait that affects the number and quality of flowers and fruits. Root-parasitic plants such as Phelipanche spp. infect tomato roots and cause economic damage in Europe and North Africa. Thus, resistant tomato cultivars are needed. In this study, we found carotenoid cleavage dioxygenase 8-defective mutants of Micro-Tom tomato (slccd8) by the “targeting induced local lesions in genomes” (TILLING) method. The mutants showed excess branching, which was suppressed by exogenously applied SL. Grafting shoot scions of the slccd8 mutants onto wild-type (WT) rootstocks restored normal branching in the scions. The levels of endogenous orobanchol and solanacol in WT were enough detectable, whereas that in the slccd8 mutants were below the detection limit of quantification analysis. Accordingly, root exudates of the slccd8 mutants hardly stimulated seed germination of root parasitic plants. In addition, SL deficiency did not critically affect the fruit traits of Micro-Tom. Using a rhizotron system, we also found that Phelipanche aegyptiaca infection was lower in the slccd8 mutants than in wild-type Micro-Tom because of the low germination. We propose that the slccd8 mutants might be useful as new tomato lines resistant to P. aegyptiaca.
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Biology, Anatomy & Morphology; evolution; development; physiology; structure
Online: 8 August 2018 (15:02:58 CEST)
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That form and function relates, is the maxim to anatomy and physiology. Yet form-function relations can be difficult to establish. Human subjects with excessive trabeculated myocardium in the left ventricle, for example, are diagnosed with non-compaction cardiomyopathy, but the extent of trabeculations may be without relation to ejection fraction. Rather than rejecting a relation between form and function, we may ask whether the salient function is assessed; is there a relation to electrical propagation, mean arterial blood pressure, propensity to form blood clots, or all? And how should extent of trabeculated muscle be assessed? While reviewing literature on trabeculated muscle, we applied Tinbergen’s four types of causation - how does it work, why does it work, how is it made, and why did it evolve - to better parse what is meant by form and function. The paper is structured around cases that highlight advantages and pitfalls of applying Tinbergen’s questions. It further uses the evolution of lunglessness in amphibians to argue lung reduction can impact on chamber septation, and it considers the evolution of an arterial outflow in fishes to argue that reductions in energy consumption may drive structural changes with little consequences to function. Concerning trabeculations, we argue they relate to pump function in the embryo in the couple of weeks before the onset of coronary circulation. In fetal and postnatal stages, a spectrum of trabeculated-to-compact myocardium makes no difference to cardiac function and in this period form and function may appear unrelated.
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Biology, Anatomy & Morphology; fear; anxiety; aversive brain system; comparative neuroanatomy; teleost fish
Online: 8 August 2018 (05:13:58 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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Biology, Physiology; premature ovarian failure (POF); PBMC, chemotherapy; cancer; ovary
Online: 6 August 2018 (07:56:50 CEST)
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Cancer treatment with specific chemotherapeutic agents has been well documented to have an adverse impact on female fertility leading to premature ovarian failure (POF). The objective of this study was to investigate if chemotherapeutic induced POF can be reversed with an infusion of autologous nucleated peripheral blood cells (PBMC). To reach our goal, mice were treated with a single intraperitoneal injections of busulfan and cyclophosphamide to induce POF. This was followed by transfusion of PBMC. The ovarian morphology and functional parameters were monitored by radioimmunoassay, real-time PCR, immunofluorescence and immunohistochemistry analysis. Our study showed that chemotherapy (CTX) protracted estrous cycle period and repressed E2 production. CTX decreased the expressions of steroidogenesis markers- CYP-17 synthesis, StAR and Connexin-43 protein expression from the ovarian follicles. We also observed reduced numbers and sizes of the primordial and primary follicles in CTX-treated mice compared to untreated controls (P < 0.05). When both CTX and untreated –control groups were stimulated with gonadotrophin, the control group produced ten times more ova than the CTX group. Finally, the treatment of premature ovarian failure induced by CTX with autologous PBMC transfusion resulted in over-expression and a statistically significant increase in several stem cell markers and restoration of fertility. Infusion with PBMC in CTX further decreased the estrous cycle length by 2.5 times (P < 0.01). We found that transfusion of autologous PBMC to mice with chemotherapy induced POF was very effective at restoring fertility. These results are similar to other studies using bone marrow derived mesenchymal stem cells.
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Biology, Agricultural Sciences & Agronomy; Agroforestry; ecosystem services; measurable criteria; certification standard; biodiversity; agroecosystem; regenerative agriculture
Online: 5 August 2018 (13:00:37 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, Agricultural Sciences & Agronomy; Triticum durum, cropping systems, microbiome, fertilization, tillage, breeding, environmental footprint
Online: 5 August 2018 (12:04:57 CEST)
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The global demands for various grains including durum wheat (Triticum durum Desf.) are expected to increase substantially in the coming years due to ever-growing human population’s needs for food, feed and fuel. Thus, providing consistent or increased durum grain to the world market is one of the priorities for policy-makers, researchers, and farmers. What are the major achievements in agronomic advancement for durum wheat cultivation in recent decades? How might the current cropping systems be improved to increase crop yield and quality and improve resource use efficiencies while minimizing input costs and decreasing negative impact on the environment? Canada is one of the major durum wheat producers in the world, as Canada contributes about 50% to global trade of durum grain. Canada’s research achievements in durum wheat might serve as a guide for advancing the cultivation of the crop in other regions/countries on the planet. This review summarizes the major Canadian research findings in the aspects of durum wheat agronomics during the period 2001 to 2017 years. It highlights the main advancements in seeding and tillage, crop rotation and diversification, and use of pulse-induced microbiomes to improve soil health and feedback mechanism. The genetic gain and breeding for resistance against abiotic and biotic stresses are discussed. Finally, we identified main constraints and suggested some near-term research priorities. The research findings highlighted in this review will be of use for other areas on the planet to increase durum wheat productivity, improve soil fertility and health, and enhance long-term sustainability.
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Biology, Agricultural Sciences & Agronomy; firmness; Vaccinium; ripening; cell wall; crispy; quantitative genetics; breeding; molecular markers; genome editing
Online: 5 August 2018 (10:11:33 CEST)
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Blueberry (Vaccinium spp.) has been recognized worldwide as a valuable source of health-promoting compounds, becoming a crop with some of the fastest rising consumer demand trends. Fruit firmness is a key target for blueberry breeding as it directly affects fruit quality, consumer preference, transportability, shelf life, and the ability of cultivars to be machine harvested. Fruit softening naturally occurs during berry development, maturation, and postharvest ripening. However, some genotypes are better at retaining firmness than others, and some are crispy, which is a putatively extra-firmness phenotype that provides a distinct eating experience. In this review, we summarized important studies addressing the firmness trait in blueberry, focusing on physiological and molecular changes affecting this trait at the onset of ripening and also the genetic basis of firmness variation across individuals. New insights into these topics were also achieved by using previously available data and historical records from the blueberry breeding program at the University of Florida. The complex quantitative nature of firmness in an autopolyploid species such as blueberry imposes additional challenges for the implementation of molecular techniques in breeding. However, we highlighted some recent genomics-based studies and the potential of a QTL mapping analysis and genome editing protocols such as CRISPR to further assist and accelerate the breeding process for this important trait.
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Biology, Physiology; Long Term Evolution, LTE; 4G; mobile phone; nociception; pain; thermal pain threshold
Online: 3 August 2018 (15:50:47 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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Frank You,
Jin Xiao,
Pingchuan Li,
ZHEN YAO,
Gaofeng Jia,
Liqiang He,
Santosh Kumar,
Braulio Soto-Cerda,
Scott Duguid,
Helen Booker,
Khalid Rashid,
Sylvie Cloutier
Biology, Agricultural Sciences & Agronomy; flax; genome-wide association study (GWAS); selective sweep; genotyping by sequencing (GBS); bi-parental population; single nucleotide polymorphism (SNP); seed yield; plant height; maturity; fatty acid composition
Online: 3 August 2018 (15:34:24 CEST)
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A genome-wide association study (GWAS) was performed on a set of 260 lines which belong to three different bi-parental flax mapping populations. These lines were sequenced to an averaged genome coverage of 19× using the Illumina Hi-Seq platform. Phenotypic data for 11 seed yield and oil quality traits were collected in eight year/location environments. A total of 17,288 single nucleotide polymorphisms were identified, which explained more than 80% of the phenotypic variation for days to maturity (DTM), iodine value (IOD), palmitic (PAL), stearic, linoleic (LIO) and linolenic (LIN) acid contents. Twenty-three unique genomic regions associated with 33 QTL for the studied traits were detected, thereby validating four genomic regions previously identified. The 33 QTL explained 48-73% of the phenotypic variation for oil content, IOD, PAL, LIO and LIN but only 8-14% for plant height, DTM and seed yield. A genome-wide selective sweep scan for selection signatures detected 114 genomic regions that accounted for 7.82% of the flax pseudomolecule and overlapped with the 11 GWAS-detected genomic regions associated with 18 QTL for 11 traits. The results demonstrate the utility of GWAS combined with selection signatures for dissection of the genetic structure of traits and for pinpointing genomic regions for breeding improvement.
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Biology, Ecology; Egrets and herons; MaxEnt; potential habitat; residential district
Online: 3 August 2018 (11:59:19 CEST)
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Potential breeding habitat of egrets and herons was evaluated using the Maximum Entropy Model (MaxEnt). Model output can help guide management of nuisance egret and heron rookeries in urban forests of Daejeon Metropolitan City, Korea. This study examined 126 locations regarded as breeding sites of egrets and herons at the nationwide census conducted by the National Institute of Environmental Research between 2011 and 2012. In addition, 252 randomly selected locations were used to identify the significant variables among a total of 15 environmental variables within 4 factors (topography, natural environment, distance and climate). Twelve variables were significantly different between the breeding and randomly selected points. The final 10 variables were selected through Pearson’s correlation analysis. Using MaxEnt, breeding area was estimated using the 10 selected variables in Daejeon. The area under the receiver operating characteristic curve (AUC) was 0.950, which was the average value through 10-fold cross-validation to estimate the model reliability. The potential breeding habitat for egrets and herons was estimated to be 106.69 km2 (19.76% of the total area) in Daejeon. Within the estimated potential habitat, 11.82 km2 (12.46%) were less than 50 m from the residential district while 79.85 km2 (88.92%) were more than 50m from the residential district. Discriminative management strategies considering the breeding location of egrets and herons should be applied not only to minimize conflicts with residents, but also to maintain stable egret and heron breeding sites in Daejeon, Korea.
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Biology, Animal Sciences & Zoology; neural; stem cells; compressed; spinal cord; injury; regeneration; rat
Online: 2 August 2018 (06:26:46 CEST)
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Background: In spinal cord injury, radical treatment is still a persistent hope for patients and clinicians. Our study aimed to determine the different histological changes in central, cranial and caudal sites of compressed spinal cord as a result of neuroectodermal stem cells (NESCs) transplantation in rats. Material and methods: For extraction of NESCs, future brains were extracted from mice embryos (10-days old) and cultured. Eighty, male rats were divided randomly into control, sham (20 rats each); while 40 rats were subjected to compressed spinal cord injury (CSCI). Seven days after spinal cord injury, rats were subdivided into 2 groups (20 rats each); an untreated and treated with NESCs injected cranial and caudal to the site of the spinal cord injury. Rats were sacrificed 4 weeks after transplantations of NESCs and specimens from the spinal cord at the central, cranial and caudal to site of spinal cord injury were proceeded to be stained with haematoxylin & eosin, osmic acid and Immunohistochemistry of glial fibrillary acidic protein (GFAP). Results: Sections of CSCI revealed areas of hemorrhages, necrosis and cavitation limited by reactive astrocytosis, with upregulation of GFAP expression. Evidence of remyelination and mitigation of histopathological features, reactive astrocytosis in CSCI sections were more pronounced in cranial than in caudal region. Conclusions: NESCs transplantation ameliorated the pathological changes, promoted remyelination.
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Igor Giarretta,
Ilaria Gatto,
Margherita Marcantoni,
Giulia Lupi,
Diego Tonello,
Eleonora Gaetani,
Dario Pitocco,
Roberto Iezzi,
Ada Truma,
Angelo Porfidia,
Adriana Visonà,
Paolo Tondi,
Roberto Pola
Biology, Physiology; sonic hedgehog; microparticles; peripheral artery disease
Online: 2 August 2018 (05:20:58 CEST)
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Sonic Hedgehog (Shh) is a prototypical angiogenic agent with a crucial role in the regulation of angiogenesis. Experimental studies have shown that Shh is upregulated in response to ischemia. Also, Shh may be found on the surface of circulating microparticles (MPs) and MPs bearing Shh (Shh+ MPs) have shown the ability to contribute to reparative neovascularization after ischemic injury in mice. In this study, the plasma number of Shh+ MPs in patients with peripheral artery disease (PAD) and control subjects without PAD. We found significantly higher number of Shh+ MPs in plasma of subjects with PAD, compared to controls, while the global number of MPs – produced either by endothelial cells, platelets, leukocytes, and erythrocytes – was not different between PAD patients and controls. Interestingly, the concentration of Shh protein unbound to MPs – which was measured in MP-depleted plasma – was not different between subjects with PAD and controls, indicating that, in the setting of PAD, the call for Shh recapitulation does not lead to secretion of protein into the blood but to binding of the protein to the membrane of MPs. These findings provide novel insights on the mechanisms through which the Shh signaling is reactivated during ischemia in humans, with potentially important fundamental and clinical implications.
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Biology, Agricultural Sciences & Agronomy; cotton, vegetation antibroadleaf herbicides, cultivars, fat content
Online: 1 August 2018 (11:16:31 CEST)
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In this study was investigate the effect of vegetative treatment with the herbicides Basagran 480 SL, Pulsar 40 and Express 50 WG on the fat content of seeds of different Bulgarian cotton cultivars. The experiment was carried out with twelve Bulgarian cotton cultivars - Chirpan-539, Helius, Trakia, Vicky, Philipopolis, IPK-Veno, Boyana, Avangard, Natalia, Darmy, Dorina and Nelina belonging to Gossypium hirsutum L. For the first time in the world, cotton cultivars resistant to herbicides Basagran 480 SL (bentazone), Pulsar 40 (imazamox) and Express 50 WG (Tribenuron-methyl) have been established. They are applied at the bud formation stage of cotton. Fat content in cotton seeds was determined by extraction - SR ISO 6492. For the first time in the world it has been established that in the vegetative treatment with herbicides the most valuable with regard to cottonseed fat content are all cultivars treated with Basagran 480 SL, except Chirpan-539 and Helius. It has been established for the first time that from the point of view of growing technology with vegetative treatment with the herbicide Express 50 WG, the most valuable are the cultivars Chirpan-539, Helius, Trakia, Vicky, Philipopolis, IPK-Veno, Boyana, Avangard, Natalia. None of the cultivars is highly rated when treated with the herbicide Pulsar 40 with regard to fat content in seeds.
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Biology, Other; m6A, RNA, AML, leukaemia, epitranscriptomics
Online: 30 July 2018 (15:36:54 CEST)
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We are currently assisting at the explosion of the epitranscriptomics, which studies the functional role of chemical modifications into RNA molecules. Among more than 100 RNA modifications, the N6-methyladenosine (m6A), in particular, has attracted the interest of researchers all around the world. m6A is the most abundant internal chemical modification in mRNA and it can control any aspect of mRNA post-transcriptional regulation. m6A is installed by “writers”, removed by “erasers”, and recognized by “readers”, thus, it can be compared to the reversible and dynamic epigenetic modifications in histones and DNA. Given its fundamental role in determining the way mRNAs are expressed, it comes as no surprise that alterations to m6A modifications have a deep impact in cell differentiation, normal development and human diseases. Here, we review the proteins involved in m6A modification in mammals, m6A role in gene expression and its contribution to cancer development. In particular, we will focus on AML that, among first, has indicated how alteration in m6A modification can disrupt normal cellular differentiation and lead to cancer.
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Biology, Other; emergence; complex adaptive systems; ecosystems; biosphere; Gaia
Online: 30 July 2018 (05:11:32 CEST)
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A speculative argument is presented which suggests the possible existence of a global metasystem that would be characterized as an emerging from the interaction of the units that make up the planetary system. The metasystem´s units would be the different physical, chemical and biological processes occurring in the subsystems that form the metasystem: magnetosphere, atmosphere, geosphere, hydrosphere, and biosphere. The revised global metasystem is broader than that considered in the Gaia theory or in Earth System Science, where the Earth's crust and upper atmosphere, i.e., the volume where the presence of life occurs, are considered as the limits of the system. The maintenance of the dynamic state of the global metasystem it is achieved by dissipating the free energy derived from the electromagnetic radiation of the Sun, the obtained from the Earth-Moon gravitational interaction and the energy resulting from the dynamics of the Earth core and mantle, which produces the magnetic field and much of tectonic activity. For the human species, the importance of a greater understanding of global metasystem is based on the fact that natural resources and the climate system are products of the subsystems of the global metasystem. It is possible therefore that human activities that modify the atmosphere, hydrosphere, and biosphere, change the dynamics of global metasystem.
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Maria Iglesias-Caballero,
Javier Juste,
Sonia Vázquez-Morón,
Ana Falcon,
Carolina Aznar,
Carlos Ibáñez,
Francisco Pozo,
Guillermo Ruiz,
Jose M. Berciano,
Ignacio Garín,
Jose Aihartza,
Juan E. Echevarria,
Inmaculada Casas
Biology, Other; adenovirus, western palaearctic bats, phylogenetic analysis, Spain
Online: 30 July 2018 (03:57:27 CEST)
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In the context of long-term screening for viruses on Western Palaearctic bats, we tested for the presence of adenovirus 1.392 oropharyngeal swabs and 325 stool samples taken from 27 bat species. Adenoviruses were detected in 12 species of the Vespertilionidae and the Rhinolophidae families. Fifty positive respiratory and 26 positive stool samples were studied. Phylogenetic analyses of partial hexon protein and partial DNA-dependent DNA polymerase genes, indicate all these bat adenoviruses belong to the genus Mastadenovirus but without constituting a monophyletic cluster. According to genetic identities, the new groups are distinct to the previously described Bat mastadenovirus A and B species, and contribute with potentially new members. Our data support that diversity of Bat mastadenovirus is host-dependent and increase the knowledge of potentially pathogenic virus from bats. For human concerns this knowledge is an important Public Health issue due to the active role of bats as viral reservoirs.
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Milad Heydari,
Anna Zanfardino,
Alireza Taleei,
Ali Akbar Shah-NejatBoushehri,
Javad Hadian,
Viviana Maresca,
Sergio Sorbo,
Michela Di Napoli,
Mario Varcamonti,
Adriana Basile,
Daniela Rigano
Biology, Agricultural Sciences & Agronomy; Mentha x piperita; Mentha x arvensis; essential oils; heat stress; antibacterial activity; monoterpenes
Online: 27 July 2018 (14:04:14 CEST)
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Heat stress affects the yield of medicinal plants and can reduce biomass and/or metabolite production. In order to evaluate the effect of heat-induced stress on the essential oil production in Mentha x piperita L. var. Mitcham (Mitcham mint) and Mentha x arvensis var. piperascens Malinv. ex L. H. Bailey (Japanese mint), we studied the chemical composition of the oils of the two mint species under different heat shock stress in growth chambers. The antibacterial activity of the essential oils was also evaluated; microscopic observation (fluorescence and electron transmission) was used to assess the effect of the tested samples on bacterial growth. The results obtained shed light on the mint essential oils composition and biological activity in relation to heat stress.
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Biology, Plant Sciences; DAMPs; alarmins; innate immune response; plants; phylogeny; in silico
Online: 26 July 2018 (16:08:54 CEST)
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In plants and animals, endogenous biological molecules, termed damage-associated molecular patterns (DAMPs) or alarmins, are released by damaged, stressed or dying cells following abiotic stress such as radiation and drought stress. In turn, a cascade of downstream signaling events is initiated leading to the up-regulation of defense-related genes. In the present study, in an effort to investigate the conservation status of the molecular mechanisms implicated in the danger signaling, thorough in silico phylogenetic and structural analyses of the effector biomolecules were performed in taxonomically diverse plant species. On the basis of our results, the defense mechanisms appear to be largely conserved within the plant kingdom. Of note is our finding that the sequence and/or function of several components of these mechanisms were found to be conserved in animals, as well.
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Biology, Plant Sciences; Seed coat; pericarps; floral bracts; glumes; dead organs enclosing embryos; seed germination; seedling establishment; hydrolytic enzymes; ROS detoxifying enzymes; cell wall modification enzymes; nutrients; phytohormones; nucleases; chitinases; Brassicaceae; Poaceae
Online: 26 July 2018 (09:53:41 CEST)
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Plants have evolved a variety of dispersal units whereby the embryo is enclosed by various dead protective layers derived from maternal organs of the reproductive system including seed coats (integuments), pericarps (ovary wall, e.g., indehiscent dry fruits) as well as floral bracts (e.g. glumes) in grasses. Commonly, dead organs enclosing embryos (DOEEs) are assumed to provide a physical shield for embryo protection and means for dispersal in the ecosystem. In this review article, we will highlight recent studies showing that DOEEs of various species across families also have the capability for long-term storage of various substances including active proteins (hydrolases, ROS detoxifying enzymes), nutrients and metabolites that have the potential to support the embryo during storage in the soil and assist in germination and seedling establishment. We discuss a possible role for DOEEs as natural coatings capable of ‘engineering’ the seed microenvironment for the benefit of the embryo, the seedling and the growing plant.
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Biology, Other; cytomegalovirus; cell culture; antibodies; adaptation
Online: 26 July 2018 (04:31:39 CEST)
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Propagation of human cytomegalovirus (CMV) in cultured cells results in genetic adaptations that confer improved growth in vitro and significant attenuation in vivo. Mutations in RL13 arise quickly during cell culture passage, while mutations in the UL128-131A locus emerge later during fibroblast passage and disrupt expression of a glycoprotein complex that is important for entry into epithelial and endothelial cells. As in vivo CMV replicates in the context of host antibodies, we reasoned that antibodies might mitigate the accumulation of adaptive mutations during cell culture passage. To test this, CMV in infant urine was used to infect replicate fibroblast cultures. One lineage was passaged in the absence of CMV-hyperimmuneglobulin (HIG) while the other was passaged with HIG in the culture medium. The former lost epithelial tropism and aquired mutations disrupting RL13 and UL131A expression, whereas the latter retained epithelial tropism and both gene loci remained intact after 22 passages. An epitheliotropic RL13+/ UL131A+ virus was isolated by limiting-dilution in the presence of HIG and expanded to produce a working stock sufficient to conduct cell tropism experiments. Thus, culture in the presence of antibodies may facilitate in vitro experiments using viruses that are genetically more authentic than has been previously possible.
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Biology, Agricultural Sciences & Agronomy; bioavailability; Fe; nitrogen deficiency; phosphorous deficiency; phytic acid; wheat; Zn
Online: 26 July 2018 (03:40:56 CEST)
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Iron (Fe) and zinc (Zn) deficiency in cereal grains has deleterious effects on the health of millions of people, especially in developing countries. As wheat, as a staple crop, is consumed in large quantities, its micronutrient content is important. Crops in Africa are often grown under low nitrogen (N) and low phosphorous (P) conditions. The aim of this study was to determine the effect of low N and low P stress on Fe and Zn and phytic acid concentration, in two commercial spring wheat cultivars with excellent baking quality. The two cultivars did not differ significantly for the measured characteristics. Across all treatments the average values for Fe varied between 19.60-28.61 mg kg-1, Zn between 17.68-33.79 mg kg-1 and phytic acid between 5.03-6.92 mg g-1. Low P stress lead to the highest values of Fe and Zn, and the lowest value for phytic acid. Phytic acid:Fe and phytic acid:Zn ratios were also highly significantly reduced under low P stress conditions. Low N conditions caused significantly increased Zn levels. Despite this, the phytic acid:Fe and phytic acid:Zn ratios were relatively high under all conditions, indicating a low bioavailability of both Fe and Zn in these wheat cultivars.
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Biology, Physiology; Ether linkage; Molecular Dynamics; Area per lipid; Area compressibility modulus
Online: 25 July 2018 (15:54:33 CEST)
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Recently, a new liposomal drug delivery system has been proposed in which mechanosensitive ion channels are attached to superparamagnetic particles and used as nanovalves. However, in such system rise of temperature is inevitable which necessitates use of lipids with higher thermal and structural stability such as ether lipids. Hence, accurate measurement of their mechanical properties is essential. Herein, we examined the effect of the ether linkage on mechanical properties of ester- and ether-DPhPC lipid bilayers using all-atom molecular dynamics simulation. The value of area per lipid for the ester-DPhPC (80.8±0.1 (Å2)) is in agreement with experimental value (83.6±1.7 (Å2)). Moreover, although there are no experimental values available for the area per lipid of the ether-DPhPC, as anticipated, ether linkage decreased the area per lipid in the ether lipid bilayer. We used two approaches to calculate the area compressibility modulus both of which indicate a lower value for ester-DPhPC. These values are lower than those estimated in previous computational studies, but closer to the experimental values predicted for each monolayer.
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Biology, Plant Sciences; aquaporin; pollen hydration; stigma; PIP2;5; arabidopsis
Online: 25 July 2018 (06:24:50 CEST)
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In flowering plants with dry stigmas, pollen hydration involves water movement, which may be facilitated by aquaporins. To explore the possibility underlying this biological process, we identified and characterized a mutant with a T-DNA insertion in PIP2;5, which encodes an aquaporin with water channel activity in the PIP2 subfamily. We monitored the pollination process (pollen hydration, germination, and pollen tube growth) of wild type pollen on stigmas of the mutant and wild type. Pollen hydration was postponed on the stigmas of the mutant, compared with that on wild type stigmas. However, pollen tube germination and growth was unaffected in the mutant. The PIP2;5 protein was located in the cell plasma membrane and was preferentially expressed in the stigma. Based on our results, we concluded that PIP2;5 might play an important role in water movement during pollen hydration.
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Biology, Animal Sciences & Zoology; lineage determination; patterning; blastomere polarization; compaction; cleavage stages; morula; gene regulatory networks
Online: 25 July 2018 (05:43:59 CEST)
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The self-organisation of a fertilised egg to form a blastocyst structure, which consists of three distinct cell lineages (trophoblast, epiblast and hypoblast) arranged around an off-centre cavity, is unique to mammals. While the starting point (the zygote) and endpoint (the blastocyst) are similar in all mammals, the intervening events have diverged. This review examines and compares the descriptive and functional data surrounding embryonic gene activation, symmetry-breaking, first and second lineage establishment, and fate commitment in a wide range of mammalian orders. The exquisite detail known from mouse embryogenesis, embryonic stem cell studies and the wealth of recent single cell transcriptomic experiments are used to highlight the building principles underlying early mammalian embryonic development.
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Biology, Forestry; climate change; temperature stress; drought; elevated CO2; soil water; forest succession; mechanistic landscape model; LANDIS-II; PnET-Succession
Online: 24 July 2018 (05:34:08 CEST)
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1) Background: Climate change may subject forests to climate conditions to which they are not adapted. Elevated temperatures reduce net photosynthesis by increasing respiration rates and increasingly long droughts dramatically increase morbidity. CO2 enrichment enhances productivity, but it is not clear to what extent CO2 enrichment can offset the negative effects of elevated temperatures and longer droughts. 2) Methods: We used a mechanistic landscape model to conduct controlled simulation experiments manipulating CO2 concentration, temperature, drought length and soil water capacity. 3) Results: We found that elevated CO2 stimulates productivity such that it dwarfs the negative effect caused by elevated temperature. Energy reserves were not as strongly mitigated by elevated CO2, and mortality of less competitive cohorts increased. Drought length had a surprisingly small effect on productivity measures, but had a marked negative effect on mortality risk. 4) Conclusions: Elevated CO2 compensated for the negative effect of longer droughts in terms of productivity measures, but not survival measures.
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Biology, Ecology; Carcinus maenas; shore crab; European green crab; population dynamics
Online: 23 July 2018 (22:11:59 CEST)
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Carcinus maenas (the “shore crab” or “European green crab”) is a very proficient invader (considered to be one of the world’s 100 worst invaders by the IUCN) due to its phenotypic plasticity, wide temperature and salinity tolerance, and an extensive omnivorous diet. Native to Atlantic Europe, it has established two well-studied nonindigenous populations in the northwestern Atlantic and northeastern Pacific and less-studied populations in Australia, Argentina and South Africa. Green crabs are eurythermal and euryhaline as adults, but they are limited to temperate coastlines due to more restrictive temperature requirements for breeding and larval development. They cannot tolerate wave-swept open shores so are found in wave-protected sheltered bays, estuaries and harbors. C. maenas has been the subject of numerous papers, with over 1000 published in the past decade. This literature review provides an up-to-date account of the current published information on the population dynamics of this very important species, including habitat preferences, physical parameter tolerances, reproduction and larval development, sizes of crabs, densities of populations, sex ratios, ecosystem dynamics and ecological impacts in the various established global populations of green crabs.
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Yingzhong Zhang,
Liangbo Zhang,
Jing Wang,
Xuxiao Tang,
Hong Wu,
Minghuai Wang,
Wu Zeng,
Qihui Mo,
Yongquan Li,
Jianwei Li,
Yijuan Huang,
Baohua Xu,
Mengyu Zhang
Biology, Plant Sciences; Near infrared reflectance spectroscopy; Camellia seeds kernel; Oil content; Moisture content
Online: 23 July 2018 (21:12:39 CEST)
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A fast and effective determination method of different species of vegetable seeds oil is vital in the plant oil industry. The near-infrared reflectance spectroscopy (NIRS) method was developed in this study to massively analyze the oil and moisture contents of Camellia gauchowensis Chang and C. semiserrata Chi seeds kernels. In the prediction models of NIRS, the levels of accuracy obtained were sufficient for C. gauchowensis Chang and C. semiserrata Chi, the correlation coefficient of which oil were 0.983 and 0.962, respectively, while which of moisture were 0.937 and 0.907, respectively. The near infrared spectrum of crush seeds kernels was more precise compared to intact kernels. Based on the calibration models of the two Camellia species, the NIRS predictive oil contents of C. gauchowensis Chang and C. semiserrata Chi seeds kernels were 48.71 ± 8.94% and 31.71 ± 7.39%, respectively, and the NIRS predictive moisture contents were 4.39 ± 1.08% and 3.49 ± 0.71%, respectively. Compared with the traditional chemical measurement, the rapid, precise measurement of oil and moisture of C. gauchowensis Chang and C. semiserrata Chi seeds kernels can be actualized by NIRS method.
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Biology, Agricultural Sciences & Agronomy; Conservation Agriculture; Durum Wheat; Faba-bean, Fungal diseases; Grain Quality
Online: 23 July 2018 (11:39:38 CEST)
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Conservation agriculture (CA) could be very effective for agricultural sustainability under Mediterranean environments, where farmers rely on short rotation based on durum wheat. In this work we investigated the effect of different combination of tillage treatments and crop sequence (conventional tillage and wheat monocropping, CT-WW; conventional tillage, and wheat following faba-bean, CT-WF; zero tillage and wheat monocropping, ZT-WW; zero tillage and wheat following faba-bean, ZT-WF) on yield, grain quality traits as well as on diseases incidence and severity in durum wheat (var. Saragolla). The results of a two-years of data of a long-term experiment (7-year experiment; split-plot design) are discussed. The CA approach (ZT+WF), which induced always the highest grain yields (6.1 t ha-1 and 3.3 t ha-1 in 2016 and 2017) thanks to an increased number of spikes m-2 (296 vs 269 and 303 vs 287 spikes m-2 in 2016 and 2017, respectively) as well as to a more pronounced ear length, demonstrated significant positive influences in terms of grain quality. It promoted grain protein accumulation (12.1% for ZT+WF versus 11.4% for ZT+WW and 12.4% for ZT+WF versus 10.6% for ZT+WW in 2016 and 2017), improved gluten quality (in terms of SDS sedimentation test) and colour of the grain. The abundance of crop residues determined a higher incidence and severity of Zymoseptoria tritici leaf symptoms under CA system; nevertheless the late appearance of infection was the main reason of not affecting yield and quality traits. The presence of faba-bean (WF) in the rotation significantly reduced leaf symptoms of Z. tritici.
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Biology, Plant Sciences; novel lncRNA; lncRNA conservation; copaifera; epigenetics; adaptive response
Online: 20 July 2018 (04:31:16 CEST)
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LncRNA are involved in multiple regulatory pathways, its versatile mode of action has disclosed a new layer in gene regulation. They are reportedly modulated during plant development, with specific tissue functions and in response to stresses. In this study, we analyzed LncRNA from leave samples collected from the legume Copaifera langsdorffii (copaiba) from two divergent ecosystems: Cerrado (CER) and Atlantic Rain Forest (ARF). We identified 8020 novel lncRNAs, from which 2893 transcripts were regulated above 2-fold and 566 above 5-folds in either condition. This putative lncRNA set was compared with seven Fabaceae genomes, of which 1747 and 1879 transcripts (from ARF and CER, respectively) aligned to at least two genomes. Further, 2194 copaiba lncRNAs were successfully mapped to at least one of six Fabaceae transcriptomes. The secondary structures of the lncRNAs that were conserved and differentially expressed between the populations were predicted using in silico methods. Our results indicate the potential involvement of lncRNAs in the adaptation of C. langsdorffii to two different biomes.
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Biology, Other; organic farming; persistent organic pollutants; crops; peasant farmers; education
Online: 20 July 2018 (04:09:42 CEST)
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Organic farming products are fast gaining acceptance from consumers all over the world due to the perceived belief that they are safe for human consumption. In recent years, there has been an increase in the levels of persistent organic and inorganic pollutants in the environment. These pollutants may be found in materials such as sewage sludge, treated wastewater, farmyard manure (human and animal feaces and urine) that are used for organic farming. The present review examined through literature the presence of these emerging pollutants in crops that are cultivated from farming activities practicing organic farming. The review highlighted and documented various pollutants that may be found in crops due to non-compliance with legislation establishing organic farming. The need to develop a robust method for identifying safe products from organic farming was highlighted. The impact of non-compliance and lack of proper education on the peasant farmers practicing backyard farming was also enumerated.
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Biology, Plant Sciences; bioelectrochemical systems (BES); electroactive bacteria (EAB); extracelullar electron transfer (EET); microbial fuel cells (MFC); treatment wetlands
Online: 20 July 2018 (04:03:11 CEST)
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Microbial electrochemical technologies (MET) rely on the presence of the metabolic activity of electroactive bacteria for the use of solid-state electrodes for oxidizing different kind of compound, that could lead to the synthesis of chemicals, bioremediation of polluted matrices, the treatment of contaminants of interest, as well as the recovery of energy. Keeping in mind those possibilities, since the beginning of the present century, there has been a growing interest in the use of electrochemical technologies for wastewater treatment, and if possible with simultaneous power generation. In the last years, there has been a growing interest to explore the possibility of merging MET with constructed wetlands, to offer a new option of intensified wetland system that could keep a high performance with a lower footprint. Based on that interest, this paper explains the general principles of MET, and the different known extracellular electron transfer mechanisms ruling the interaction between electroactive bacteria and potential solid-state electron acceptors. Also, the adoption of those principles for the development of MET set-ups for simultaneous wastewater treatment and power generation, and the challenges that the technology face. Ultimately, the most recent developments in set-ups that merges MET with constructed wetlands are presented and discussed.
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Biology, Agricultural Sciences & Agronomy; American grapevine rootstocks; vertical garden; offshoot growth; footprint
Online: 16 July 2018 (05:23:00 CEST)
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In this study, grapevine was used as the research material. This plant which epitomizes the opinion that vertical gardens can have a positive influence on human psychology with their beautiful view, e.g., the hanging gardens of Babylon about 2500 years ago. The study in question was conducted in 2016 at Bingol University, Faculty of Agriculture, the Department of Garden Plants research and application area. The offshoot growth was measured in a fertilizer experiment that formed the control, first application (200 g/100 L water, leaf) and second application (100 g/100 L water + 20% leaf + root). Moreover, the plant’s footprint in the vertical area was determined. The average offshoot growth of 1103 P American grapevine rootstock in the first and second applications was measured as 61.5 cm and 39.5 cm respectively, and it was 43.0 cm and 51.0 for C American grapevine rootstock. The average growth of 1103 P and 1616 C American grapevine in the control group was determined as 30.6 cm and 32.1 cm. The average growth of both American grapevine rootstocks used in the experiment was determined to be higher for the first and second applications than the controls.
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Biology, Forestry; Habitat types, visual differences, landscape characteristics.
Online: 13 July 2018 (17:07:05 CEST)
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The unique qualities of areas with natural landscape features help provide sustainability. Moreover, their different vegetation covers and ecosystems contribute to the preservation of their visual attraction. In recent years, the demand for natural areas has not only been seen at a recreational level, but has also become associated with the conservation and sustainability of those areas. Although the concept of sustainability is expressed from an ecological point of view, studies indicate that the visual aspect is also an important component. Thus, in this study, a visual quality assessment was carried out which considered both objective and subjective evaluations of different habitat types. Efteni lake-wetland and Melen Ağzı dunes (Düzce), Anzer, Ayder, and Çat Düzü highlands (Rize), and Sultanmurat and Taşli highlands (Trabzon) were selected as the study areas. A visual quality analysis was conducted with a total of 43 participants (23 students, 16 local inhabitants and four lecturers) in order establish their preferences in areas with different landscape characteristics. For the determination of the visual qualifications of these areas, a total of 24 photographs showing typical images representing each habitat type (three photographs for each) were employed. Taking perceptual parameters into consideration, assessment of visual quality was made according to the points given to each photo by the participants. Consequently, differences in visual quality were found to be influenced by the demographic status of the participants, differences in habitat types, recreational trends and the conservation status of the habitats.
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Biology, Other; keratinophilic fungi, non-dermatophytes, fungal flora, hair, nails
Online: 13 July 2018 (13:30:46 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, Animal Sciences & Zoology; arsenic toxicity; antioxidants; kidney; liver; mice
Online: 13 July 2018 (13:15:31 CEST)
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The present study aimed to investigate the protective effects of some natural and artificial antioxidants on the hepato-renal injuries induced by arsenic toxicity. Sixty adult male albino mice weighing 30-40 g were subjected to a sub-lethal dose of sodium arsenate (40 mg/kg body weight) to investigate hematological, biochemical and histopathological alterations resulting from arsenic-induced hepato-renal toxicity. Arsenic-exposed mice were also co-treated with different antioxidants including green tea, garlic and vitamin C to reveal their potential protective role. The antioxidants induced normalization of all blood parameters that showed significant declines by arsenic toxicity. ALT and AST activities were significantly increased in sodium arsenate treated group compared to all other groups. These enzymes did not acquire insignificant differences in antioxidants-treated groups compared to the control mice. Creatinine and urea were significantly increased in arsenate treated mice and become normal in mice co-treated with different antioxidants. Liver sections of arsenate treated mice showed venous congestion, sinusoidal dilatation, mononuclear cell infiltration and periportal fibrosis. Renal sections in the same groups revealed interstitial hemorrhages, mononuclear cell infiltration, glomerulonephritis and proximal tubular necrosis. Hepato-renal histopathology was greatly reduced, particularly, in groups received combined antioxidants. The used antioxidants, therefore, exhibited potential protection against hepato-renal induced arsenic toxicity.
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Biology, Other; 4-AAQB; SOD2; hsa-miR-324; colon cancer stem cells; chemoresistance; chemosensitivity
Online: 13 July 2018 (04:24:11 CEST)
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Background: Colorectal cancer (CRC) remains a leading cause of cancer-related morbidity and mortality in both sexes globally. This is not unconnected with the heterogeneity and plasticity of CRC stem cells (CRC-SCs) which stealthily exploit niche-related and (epi)genetic factors to facilitate metastasis, chemoresistance, tumor recurrence, and disease progression. Despite accumulating evidence of the role of dysregulated microRNAs in malignancies, the therapeutic efficacy of pharmacological-targeting of CRC-SC-associated microRNAs is relatively under-explored. Experimental approach: In this present study, we employed relatively new bioinformatics approaches, analyses of microarray data, western blot, RT-PCR, and functional assays to show that hsa-miR-324-5p expression is significantly suppressed in CRC cells, and inversely correlates with the aberrant expression of SOD2. Results: This converse hsa-miR-324-5p/SOD2 relationship is associated with enhanced oncogenicity, which is effectively inhibited by 4-AAQB as evidenced by inhibited cell viability and proliferation, as well as, attenuated migration, invasion and clonogenicity in 4-AAQB-treated DLD1 and HCT116 cells. We also showed that 4-AAQB-induced re-expression of hsa-miR-324-5p, akin to short-interfering RNA reduced SOD2 expression, correlates with the concurrent down-regulation of SOD2, N-cadherin, vimentin, c-Myc, and BcL-xL2, with concomitant up-regulation of E-cadherin and BAX2 proteins. Enhanced expression of hsa-miR-324-5p in the CRC cells suppressed their tumorigenicity in vitro and in vivo. Additionally, 4-AAQB synergistically potentiates FOLFOX anticancer effect by eliciting the re-expression of SOD2-suppressed hsa-miR-324 and inhibiting SOD2-mediated tumorigenicity. Conclusion: Our findings highlight the pre-clinical anti-CSC efficacy of 4-AAQB, with or without FOLFOX in CRC, and suggest a potential novel therapeutic strategy for CRC patients.
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Biology, Agricultural Sciences & Agronomy; ALS-inhibitors; horseweed; multiple-resistance; alternative chemical control
Online: 11 July 2018 (11:56:59 CEST)
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Conyza canadensis is a species invading large agricultural areas throughout the world, mainly to its ability to evolve herbicide resistance. Specifically, in Hungary, extensive areas have been infested by this species due to the difficulty in controlling it with glyphosate. To corroborate this fact as resistance and not as an incorrect herbicide application, eight suspicious glyphosate-resistant C. canadensis populations from different Hungarian regions were studied. In dose-response assays with glyphosate, the LD50 and GR50 values indicated that populations 1 to 5 were resistant to this herbicide (H-5 population the most resistant). Besides, the shikimic acid accumulation tests corroborated the results observed in the dose-response assays. 11 alternative herbicides from 6 different mode of action (MOA) were applied at field doses as control alternatives on populations H-5 and H-6 (both in the same regions). The H-5 population showed an unexpected resistance to flazasulfuron (ALS-inhibitor). The ALS enzyme activity studies indicated that the I50 for H-5 was 63.3 fold higher compared to its correspondent susceptible population (H-6). Therefore, the H-5 population exhibited multiple-resistance to flazasulfuron and glyphosate, being the first case reported in Europe for this two MOA. For that reason, the other herbicides with different MOA have to be tested here.
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Biology, Ecology; Yabello rangeland; degradation; rehabilitation techniques; encroachment
Online: 11 July 2018 (11:56:31 CEST)
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Background: Rangeland degradation means that a reduction both in rank and status of general floral/ fauna composition, energy flow and biomass of a certain ecosystem. Objective: The review was conducted to assess rangeland degradation, cause and its impact on local livelihood in Yabello district and also suggests appropriate methods used to rehabilitate it. Methods: The data and literatures were collected from different both domestic and abroad researcher research result reviewed and internet sources. The research paper review mainly addresses concepts of rangeland degradation, major causes in tropics and Ethiopia particularly in Yabello rangelands, impacts of rangeland degradation, principles of rangeland restoration and common restoration techniques.Result: Based on those research papers and the current fact situations the major drivers leading to rangeland degradation includes climate change, overgrazing, bush encroachment, both human and livestock population pressure, drought, and government policy . Of all bush encroachment is becoming the major threat to Yabello rangelands. And this led to decline in rangeland condition, water potential, soil status, and animal performance, livestock holding at the household level and community become destitute and in the long run poverty. In spite of these impacts, the action of restoration techniques in the area is highly insufficient. Conclusion: Generally in order to address rangeland degradation problems, there is a strong need to coordination between the local community and the scientific community for sustainable land management trough post management techniques by applying reseeding technology.
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Biology, Physiology; Cannabis, obesity, body mass index, CB1R, AEA, 2-AG, meta-analysis, theory, causation
Online: 11 July 2018 (11:49:02 CEST)
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Obesity is treatment-resistant, and is linked with a number of serious, chronic diseases. Adult obesity rates in the United States have tripled since the early 1960s. Recent reviews show that an increased ratio of omega-6 to omega-3 fatty acids contributes to obesity rates by increasing levels of the endocannabinoid signals AEA and 2-AG, overstimulating CB1R and leading to increased caloric intake, reduced metabolic rates, and weight gain. Cannabis, or THC, also stimulates CB1R and increases caloric intake during acute exposures. The present meta-analysis reveals significantly reduced body mass index and rates of obesity in Cannabis users, in conjunction with increased caloric intake. We provide for the first time a causative explanation for this paradox, in which rapid and long-lasting downregulation of CB1R following acute Cannabis consumption reduces energy intake and storage and increases metabolic rates, thus reversing the impact on body mass index of elevated dietary omega-6/omega-3 ratios.
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Biology, Forestry; weed control; competing vegetation; yield modelling; E. globulus
Online: 10 July 2018 (12:04:37 CEST)
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Several studies have quantified the responses of Eucalyptus globulus plantations to weed control on its early development (2-3 years after establishment). However, long-term results of competing vegetation effects have been rarely incorporated into growth and yield models that forecast the long-term effects of reducing the intensity of competing vegetation control and its interaction with site resource availability on stem volume production close to rotation age. We compared several models predicting stand stem volume yield of Eucalyptus globulus plantations established across a water and fertility gradient growing under different intensity levels of free area of competing vegetation maintained during the first 3 years of stand development. Four sites were selected encompassing a gradient in rainfall and amount of competing vegetation. Treatments were applied at stand establishment and were monitored periodically until age 9 years. Competing vegetation control intensity levels considered 0, 5, 20, 44 and 100% weed-free cover around individual E. globulus seedlings. Maximum competing vegetation biomass production during the first growing season were 2.9, 6.5, 2.2 and 12.9 Mg ha-1, for sites ranging from low to high annual rainfall. As expected, reductions in volume yield at age 9 years were observed as competing vegetation control intensity decreased during the first growing season. A strong relationship was established between stem volume yield loss and the intensity of competing vegetation control, the amount of competing vegetation biomass produced during the first growing season and mean annual rainfall. The slope of the relationship was different among sites and was related mainly to water and light limitations. Our results, suggest that the biomass of competing vegetation (intensity of competition) affecting site resource availability, contribute to observed long-term effects on E. globulus plantations productivity. The site with the lowest mean annual rainfall showed the highest volume yield loss at age 9 years. Sites with highest rainfall showed contrasting results related to the amount of competing vegetation biomass.
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Biology, Ecology; cervids; damage; deer forage; fencing; forest regeneration stages; population density; Poland
Online: 10 July 2018 (09:03:25 CEST)
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In the lowland forests of south-western Poland, the effect of the fencing of forest regeneration stages, aged up to 20 years, upon the level of damage inflicted by red deer (Cervus elaphus), fallow deer (Dama dama), and roe deer (Capreolus capreolus) in non-fenced patches of this age class of forest was studied. In the studied forest districts (n=4), there was the highest proportion of the mixed coniferous‑deciduous forest types, where the main forest‑forming tree species were pine (Pinus sylvertris), birch (Betula sp.), oak (Quercus sp.), beech (Fagus sylvatica), and spruce (Picea abies). At the forest district level, the percentage of fenced areas in young forest plantations (1‑10‑year old) ranged, on average, from 9.1-30.9%, and that in tickets (11-20‑year old) ranged from 0.0%-10.2%. The percentage of areas of severely damaged young plantations fluctuated between 5.7 and 14.2%, and that of tickets fluctuated between 0.3-12.9%. For young plantations, a statistically significant correlation (“r” ranged from 0.51-0.75) was obtained between percentage of area in fenced plots and the level of damage caused by deer. For thickets, this correlation was obtained solely in Pieńsk Forest District (r = 0.646). In the studied forest districts, the fencing of young plantations and thickets resulted in the reduction of average potential food base for cervids, from 2.9 to 10.0 %. An attempt was made to interpret the level of deer damage on the basis of an index, taking into account the standing crop of deciduous browse and forbs, and the population density of cervids.
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Biology, Plant Sciences; bread wheat; correlations, gamma, grain nutrients concentrations; mutation, phytic acid; metals bioavailability
Online: 9 July 2018 (15:39:51 CEST)
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Metal, primarily Fe and Zn, deficiencies affect over half of the world's population. Human diets with prevalent cereal products cause micronutrient malnutrition. Biofortification is one of the most effective approaches to alleviate malnutrition. Spring wheat genetically stable (M7) mutant lines developed with 100 and 200 Gy gamma treatments to broaden genetic variation and search for new resources were analyzed for nutritionally important minerals (Ca, Mg, K, Fe, and Zn), their bioavailability, and grain protein content (GPC). The variation was 172.3–883.0 mg/kg for Ca, 472.9–1088 mg/kg for Mg, 3128.6–5487.5 mg/kg for K, 40.9–89.0 mg/kg for Fe, and 22.2–89.6 mg/kg for Zn. In mutant lines, among the investigated minerals, the highest increases in concentrations were observed in Fe, Zn, and Ca when compared to the parent. Some mutant lines, mostly in the 100 Gy-derived germplasm, had two to three times higher Fe, Zn, and Ca concentrations, lower phytic acid concentration (1.4–2.1 times), and 6.5–7% higher GPC compare to the parent. Variation was detected for the Ca:Phy, Mg :Phy, Phy:K, Phy:Fe, and Phy:Zn molar ratios, (1.27–10.41, 5.05–18.68, 1.66–4.87, 1.40–5.32 and 1.78–11.78, respectively). The results showed how the genetic variation could be generated through radiation and be useful to develop biofortification by micronutrient varieties with their appropriate bioavailability to overcome malnutrition.
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Biology, Animal Sciences & Zoology; extinction; ‘light’ order; Linnaean system; thermodynamics; trophic levels; tropical lowland communities
Online: 9 July 2018 (14:52:02 CEST)
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The origination of most free-living animal species is predictable. ‘Light’ order in the producer trophic levels below is the key. Absent from the abiotic environment (pre-biotic level) and prokaryotes, ‘light’ order consists of differences in species composition between developed species-packed communities in which extinction may be the precursor of speciation, particularly ecologically comparable tropical lowland ones of Africa, Australia, India, and South America. Based on but not itself of matter and non-burnable, nil waste heat content ‘compensates’ for burned-up food energy. Where the amounts on pre-apical levels form an inverted pyramid like waste heat’s, occupancy of consumer levels from primary to apical is predictable (variation and selection assumed). Terminal non-inversion predicts post-apical vacancy. Examined communities were from grasslands (large carnivores, large grazing mammals, grasses) and woodlands (raptorial birds, insect-eating birds, butterflies, woody plants). Comparisons with Darwin’s and Lyell’s non-predictive theories of change are made. Implication for Gladyshevian thermodynamics v. Prigoginean dynamics is discussed. Linnaeus’s classificational system turns out to be rich with new and unsuspected content.
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Biology, Plant Sciences; comparative proteomics analysis; CIPK14; WHIRLY1/WHIRLY3; protein metabolism
Online: 6 July 2018 (08:51:11 CEST)
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Leaf variegation pale yellowing is observed in the Calcineurin B-Like-Interacting Protein Kinase14 (CIPK14) overexpression line (oeCIPK14) and double knockout WHIRLY1/WHIRLY3 (why1/3) lines of Arabidopsis, the distribution of WHIRLY1 (WHY1) protein between plastids and the nucleus are affected by the phosphorylation of WHY1 by CIPK14. To elucidate the coregulation of CIPK14 and WHIRLY1/WHIRLY3 mediated leaf pale yellowing, a differential proteomic analysis is conducted between the oeCIPK14 variegated (oeCIPK14-var) line, why1/3 variegated (why1/3-var) line and wild type (WT). More than 800 protein spots are distinguished on each gel, 67 differential abundance proteins (DAPs) are identified by matrix-assisted laser desorption ionization-time of flight/time of flight mass spectrometry (MALDI-TOF/TOF-MS), of which, 34 DAPs are in the oeCIPK14-var, 33 DAPs are in the why1/3-var compared to WT. Five overlapping proteins differentially change both in the oeCIPK14-var and in the why1/3-var. They are ATP-dependent Clp protease proteolytic subunit-related protein 3 (ClpR3), Ribulose bisphosphate carboxylase large chain (RBL), Beta-amylase 3 (BAM3), Ribosome-recycling factor (RRF), Ribulose bisphosphate carboxylase small chain (RBS). Bioinformatics analysis show that most of DAPs are involved in photosynthesis, defense and antioxidation pathway, protein metabolism, amino acid metabolism, energy metabolism, malate biosynthesis, lipid metabolism and transcription. Thus, the photosystem parameters are measured that the content of chlorophyll, the photochemical efficiency of PSⅡ (Fv/Fm), and electron transport rates (ETR) decrease in the why1/3-var and oeCIPK14-var, but the non-photochemical quenching (NPQ) increases. Both mutants show high sensitivity to strong light. Based on the annotation of DAPs from both why1/3-var and oeCIPK14-var lines, we conclude that CIPK14 phosphorylation mediated WHY1 deficiency in plastids is related to impairment of protein metabolism leading to chloroplast dysfunction.
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Biology, Ecology; dog-mediated rabies; transects; dog ownership; mass dog vaccination
Online: 5 July 2018 (08:59:58 CEST)
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Estimates of dog population sizes are a prerequisite for delivering effective canine rabies control. However, dog population sizes are generally unknown in most rabies-endemic areas. Several approaches have been used to estimate dog populations but without rigorous evaluation. We compare post-vaccination transects, household surveys and school-based surveys to determine which most precisely estimates dog population sizes. These methods were implemented across 28 districts in southeast Tanzania, in conjunction with mass dog vaccinations, covering a range of settings, livelihoods and religious backgrounds. Transects were the most precise method, revealing highly variable patterns of dog ownership, with human: dog ratios ranging from 12.4:1 to 181.3:1 across districts. Both household and school-based surveys generated imprecise and sometimes inaccurate estimates, possible due to low sample size. Transect data were subsequently used to develop a predictive model for estimating dog populations in districts lacking transect data. We predicted a dog population of 2,316,000 (95% CI 1,573,000-3,122,000) in Tanzania and an average human: dog ratio of 20.7:1. Our modelling approach has the potential be applied to predicting dog population size in other districts where mass dog vaccination is carried out, given census and livelihood data. We recommend transects as a rapid and effective method to refine dog population estimates across large geographic areas and guide dog vaccination programs.
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Biology, Other; CagA; phosphatidylserine; phosphatidylserine mutations; conservation N-terminal CagA; homology modeling; molecular docking
Online: 5 July 2018 (08:34:40 CEST)
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Helicobacter pylori cytotoxin-associated gene A protein (CagA) has been associated with the increase in virulence and risk of cancer. It has been demonstrated that CagA's translocation is dependent on its interaction with phosphatidylserine. We evaluated the variability of the N-terminal CagA in 127 sequences reported in NCBI, by referring to molecular interaction forces with the Phosphatidylserine and the docking of 3 mutations chosen from variations in specific positions. The major sites of conservation of the residues involved in CagA-Phosphatidylserine interaction were 617, 621 and 626 which had no amino acid variation. Position 636 had the lowest conservation score, so mutations in this position were evaluated to observe the differences in intermolecular forces of the CagA-Phosphatidylserine complex. We evaluated the docking of 3 mutations: K636A, K636R and K636N. The models of the crystal and mutations presented a ΔG of −8.919907, −8.665261, −8.701923, −8.515097 Kcal/mol, respectively, while mutations K636A, K636R, K636N and the crystal structure presented 0, 3, 4 and 1 H-bonds, respectively. Likewise, the bulk effect of the ΔG and amount of H-bonds was estimated in all of the docking models. The type of mutation affected both the ΔG (χ2(1) = 93.82, p-value < 2.2 × 10−16) and the H-bonds (χ2(1) = 91.93, p-value < 2.2 × 10−16). In all the data, 76.9% of the strains that exhibit the K636N mutation produced a severe pathology. The average H-bond count diminished when comparing the mutations with the crystal structure of all the docking models, which means that other molecular forces are involved in the CagA-Phosphatidylserine complex interaction.
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Biology, Ecology; Speyeria diana, butterfly, conservation, fragmentation, global warming, Maxent, WorldClim
Online: 3 July 2018 (16:16:38 CEST)
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Climate change is predicted to alter the geographic distribution of a wide variety of taxa, including butterfly species. Research has focused primarily on high latitude species in North America, with no known studies examining responses of taxa in the southeastern US. The Diana fritillary (Speyeria diana) has experienced a recent range retraction in that region, disappearing from lowland sites and now persisting in two, phylogenetically disjunct mountainous regions. These findings are consistent with the predicted effects of a warming climate on numerous taxa, including other butterfly species in North America and Europe. We used ecological niche modeling to predict future changes to the distribution of S. diana under several climate models. To evaluate how climate change might influence the geographic distribution of this butterfly, we developed ecological niche models using Maxent. We used two global circulation models, CCSM and MIROC, under low and high emissions scenarios to predict the future distribution of S. diana. Models were evaluated using the Receiver Operating Characteristics Area Under Curve test and the True Skill Statistics (mean AUC = 0.91± 0.0028 SE, TSS = 0.87 ± 0.0032 SE for RCP = 4.5, and mean AUC = 0.87± 0.0031SE, TSS = 0.84 ± 0.0032 SE for RCP = 8.5), which both indicate that the models we produced were significantly better than random (0.5). The four modeled climate scenarios resulted in an average loss of 91% of suitable habitat for S. diana by 2050. Populations in the Southern Appalachian Mountains were predicted to suffer the most severe fragmentation and reduction in suitable habitat, threatening an important source of genetic diversity for the species. The geographic and genetic isolation of populations in the west suggest that those populations are equally as vulnerable to decline in the future, warranting ongoing conservation of those populations as well. Our results suggest that the Diana fritillary is under threat of decline by 2050 across its entire distribution from climate change, and is likely to be negatively affected by other human-induced factors as well.
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Biology, Agricultural Sciences & Agronomy; parthenium weed, soil seedbank, soil depth, seed extraction, sieve shaker
Online: 3 July 2018 (16:02:13 CEST)
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Weed seedbank is an indication of future weed infestation potential of the species and is essential for making strategic planning for its sustainable management. Parthenium weed (Parthenium hysterophorus L.) is an invasive alien species threatening the biodiversity and the environment in Malaysia. A study was, therefore, conducted to estimate the soil seedbank of the weed at four soil depths of four villages of Kuala Muda, Kedah. The aim was to indicate the critical s of parthenium weed seedbank in Malaysia. Soil samples were collected from the sites using a soil core. The seeds were extracted from the soil samples with sieve shaker at the Universiti Malaysia Kelantan laboratory, Jeli Campus. The study indicates that the weed seedbank is in critical level at the area. The highest number of weed seeds (6915/m2) was found in Kg. Kongsi 6, followed by Kg. Sungai Tok Rawang (4481 seeds/m2). The top layer of soil, 0-5 cm, contained the maximum number of weed seeds (4878 seeds/m2) and a significant number of seeds (316 seeds/m2) were noticed at 10-15 cm soil depth. The study suggests the Malaysian government to take immediate action to control parthenium weed seedbank of the sites.
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Biology, Agricultural Sciences & Agronomy; Plant stress, abiotic stress, biotic stress, metabolomics, phytometabolomics, sensomics, phytohormonics, LC-MS/MS, NMR, targeted metabolomics, untargeted metabolomics, functional food.
Online: 3 July 2018 (14:18:19 CEST)
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The breeding of stress-tolerant cultivated plants that would allow for a reduction in harvest losses and undesirable decrease in quality attributes requires a new quality of knowledge on molecular markers associated with relevant agronomic traits, on quantitative metabolic responses of plants on stress challenges, and on the mechanisms controlling the biosynthesis of these molecules. By combining metabolomics with genomics, transcriptomics and proteomics datasets a more comprehensive knowledge of the composition of crop plants used for food or animal feed is possible. In order to optimize crop trait developments, to enhance crop yields and quality, as well as to guarantee nutritional and health factors, that provides the possibility to create functional food or feedstuffs, the knowledge about the plants’ metabolome is crucial. Next to classical metabolomics studies, this review focusses on several metabolomics based working techniques, such as sensomics, lipidomics, hormonomics and phytometabolomics, which were used to characterize metabolome alterations during abiotic and biotic stress, to find resistant food crops with a preferred quality or at least to produce functional food crops are highlighted.
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Biology, Forestry; species, edible, food bearing, diversity, neighborhoods, urban forest
Online: 3 July 2018 (12:10:53 CEST)
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In Africa, 80% of households in urban areas are food insecure and is coupled with a dramatically changing urban food culture towards increased consumption of sugary and fatty foods. Consequently, incidences of obesity and undernourishment in many African cities are becoming escalating. Urban and peri-urban forestry emerges as a complementary measure to contribute towards elimination of urban hunger and improved nutritional security. However, there is scanty knowledge about the composition, diversity and socioeconomic contributions of urban food trees in African cities and this hinders policy discussions integrating urban forestry into the food security discourse. This paper examines the diversity and composition of the urban forest and food trees of Accra and sheds light on perceptions of urbanites regarding food tree cultivation and availability in the city. Using a mixed methods approach, about 105 respondents in six neighbourhoods of Accra were interviewed while over 200 100-m2 plots were surveyed across five land use types. Twenty-two out of the 70 woody species in Accra are edible. The food tree abundance in the city is about half of the total number of trees enumerated. The species richness and abundance of the edible trees and all trees in the city were significantly different among land use types (p<0.0001) and neighbourhood types (p<0.0001). The diversity of food bearing tree species was much higher in the poorer neighbourhoods than in the wealthier neighbourhoods. Respondents in wealthier neighbourhoods indicated that tree and fruit tree cover of the city was generally low and showed greater interests in cultivating fruit trees and expanding urban forest cover than poorer neighbourhoods. These findings demonstrate the need for urban food policy reforms that integrate urban grown tree foods in the urban food system/culture.
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Biology, Plant Sciences; abiotic stresses; GWAS; ionomics; omics; phenomics; QTL
Online: 28 June 2018 (04:41:19 CEST)
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Abiotic stresses greatly influenced wheat productivity executed by environmental factors such as drought, salt, water submergence, and heavy metals. The effective management at molecular level is mandatory for thorough understanding of plant response to abiotic stress. The molecular mechanism of stress tolerance is complex and requires information at the omic level to understand it effectively. In this regard, enormous progress has been made in the omics field in the areas of genomics, transcriptomics, and proteomics. The emerging field of ionomics is also being employed for investigating abiotic stress tolerance in wheat. Omic approaches generate a huge amount of data, and adequate advancements in computational tools have been achieved for effective analysis. However, the integration of omic-scale information to address complex genetics and physiological questions is still a challenge. In this review, we have described advances in omic tools in the view of conventional and modern approaches being used to dissect abiotic stress tolerance in wheat. Emphasis was given to approaches such as quantitative trait loci (QTL) mapping, genome-wide association studies (GWAS), and genomic selection (GS). Comparative genomics and candidate gene approaches are also discussed considering identification of potential genomic loci, genes, and biochemical pathways involved in stress tolerance mechanism in wheat. This review also provides a comprehensive catalog of available online omic resources for wheat and its effective utilization. We have also addressed the significance of phenomics in the integrated approaches and recognized high-throughput multi-dimensional phenotyping as a major limiting factor for the improvement of abiotic stress tolerance in wheat.
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Biology, Other; Hupresin®; affinity chromatography; procainamide-Sepharose; BChE; AChE
Online: 27 June 2018 (10:52:04 CEST)
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Affinity chromatography on procainamide-Sepharose has been an important step in the purification of butyrylcholinesterase (BChE) and acetylcholinesterase (AChE) since its introduction in 1978. The procainamide affinity gel has limitations. In the present report a new affinity gel called Hupresin® was evaluated for its ability to purify truncated, partly-deglycosylated human butyrylcholinesterase (rHuBChE) expressed in a stably transfected CHO cell line. We present a detailed example of the purification of rHuBChE secreted into 3940 mL of serum-free culture medium. The starting material contained 13,163 units of BChE activity (20.9 mg). rHuBChE was purified to homogeneity in a single step by passage over 82 mL of Hupresin® and elution with 0.1 M tetramethylammonium bromide in 20 mM TrisCl pH 7.5. The fraction with the highest specific activity of 630 units/mg contained 11 mg of BChE. Hupresin® is superior to procainamide-Sepharose for purification of BChE, but is not suitable for purifying native AChE because Hupresin® binds AChE so tightly that AChE is desorbed with denaturing solvents such as 50% acetonitrile or 1% trifluoroacetic acid. Procainamide-Sepharose will continue to be useful for purification of AChE.
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Biology, Forestry; Mixed forests; Questionnaire Survey; Ecosystem Services; Stepwise Regression; Climate Change
Online: 26 June 2018 (15:48:31 CEST)
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Scientific studies had shown that mixed forests of silver fir (Abies alba Mill.) and European beech (Fagus sylvatica L.) provide higher ecosystem services than monospecific forests. Mixed forests are known for their high resilience to climate change impacts and superior biodiversity compared to monospecific forests. In many countries, promotion of mixed forests in forest management is becoming a government policy since they can contribute to fulfill the Sustainable Development Goals set by the United Nation, respectively Goal 13 and 15. However, not much is known about public perceptions on mixed forests compared to monoculture forests. Our study on ecosystem services provided by mixed and monospecific forests in southwest Germany fill this gap. Based on a survey with 520 valid responses we analyzed people’s perception on 18 different supporting, cultural, regulating and provisioning ecosystem services measured by Likert scale. Stepwise regression analyses show relations between social profiles (gender, age, education, profession) and preferences on respondents’ perceptions. Our findings show that people perceive that mixed forests provide better cultural, regulating and supporting ecosystem services than monospecific forests of fir and beech whereas provisioning services were perceived as being equally or better provided by monospecific forests. Significant effects towards a positive perception on ecosystem services provided by mixed forests were mainly influenced by the perceived abundance of old trees, feeling of pleasantness in mixed forests, age, profession, and education. Our findings indicate that there is a high public support for the promotion of silver fir and beech mixed forests in Southwest Germany.
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Biology, Physiology; LGN; pRF; spatiotemporal; retinotopic; flicker; isoluminance; clustering
Online: 26 June 2018 (11:51:27 CEST)
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We developed a temporal population receptive field model to differentiate the functional and hemodynamic responses in the human LGN. The hemodynamic response of the human LGN is dominated by the richly vascularized hilum, a structure that serves as a point of entry for blood vessels entering the LGN and supplying the substrates of central vision. The location of the hilum along the ventral surface of the LGN and the resulting gradient in the amplitude of the hemodynamic response across the extent of the LGN has made it difficult to segment the human LGN into its more interesting magnocellular and parvocellular regions that represent two distinct visual processing streams. Here, we show that an intrinsic clustering of the LGN responses to a variety of visual input reveals the hilum, and further that this clustering is dominated by the amplitude of the hemodynamic response. We introduce a temporal population receptive field model that includes both a sustained and transient temporal impulse response. When we account for the hemodynamic amplitude, we demonstrate that this temporal response model is able to functionally segregate the residual responses according to their temporal properties.
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Biology, Agricultural Sciences & Agronomy; DNA fingerprinting; SSR-markers; gel electrophoresis; hybrid testing and pigeonpea
Online: 25 June 2018 (09:57:54 CEST)
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Pigeonpea (Cajanus cajan (L.) of Fabaceae family belongs to genus Cajanus usually grown in semi-arid tropics of Asia and Oceania, Africa and America. This crop has been a best source for improving food and soil quality amongst farmers. However, its seed have been always questioned for purity. This problem is managed by using polymorphic SSR markers. In present study, a DNA fingerprints generated by seven SSR markers and hybrid testing is performed on Pigeonpea test samples along with parental lines. The seed samples of pigeonpea were germinated in laboratory and three week old leaves samples were used for DNA isolation by CTAB method. A total of 9 alleles were observed in three test samples using three primers out of seven primers. The screening of the allelic data associated with the three cultivated varieties, revealed markers (CcM0246) displayed unique allelic profiles for one variety. Yet, the genetic fingerprinting data is not well resolved to potentially distinguished two bands of hybrid that are merely of 4–8 bp to confirm hybrid testing of seed. Hybrid testing of may be confirmed including more SSR primers prepared from genomic DNA of pigeonpea.
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Biology, Physiology; archaic human genes; obesity; diabetes mellitus; Indigenous Australians
Online: 25 June 2018 (08:13:36 CEST)
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Indigenous Australians have been particularly affected by type 2 diabetes mellitus due to their genetic susceptibility and a range of environmental risk factors. Recent genetic studies link predisposition to some diseases, including diabetes, to archaic humans, such as Neanderthals and Denisovans, suggesting persistence of ancient alleles in the genomes of modern humans. In this review we discuss the evolutionary role of the negative genetic selection associated with an adopted Western lifestyle as well as DNA variants influencing predisposition to obesity and diabetes in the Australian Indigenous population. We review the contribution of the ancient gene/pathways to the modern human phenotypes including the Neanderthal haplotype-tagging SNPs in NTRK2 gene, which may continue to play a role in obesity in Indigenous Australians.
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Biology, Ecology; forest structure; macrosystems biology; portable canopy LiDAR; rugosity; transect spatial autocorrelation
Online: 22 June 2018 (06:38:03 CEST)
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Forest canopy structure (CS) controls many ecosystem functions and is highly variable across landscapes, but the magnitude and scale of this variation is not well understood. We used a portable canopy lidar system to characterize variation in five categories of CS along N = 3 transects (140–800 m long) at each of six forested landscapes within the eastern USA. The cumulative coefficient of variation was calculated for subsegments of each transect to determine the point of stability for individual CS metrics. We then quantified the scale at which CS is autocorrelated using Moran’s I in an Incremental Autocorrelation analysis. All CS metrics reached stable values within 300 m but varied substantially within and among forested landscapes. A stable point of 300 m for CS metrics corresponds with the spatial extent that many ecosystem functions are measured and modeled. Additionally, CS metrics were spatially autocorrelated at 40 to 88 m, suggesting that patch scale disturbance or environmental factors drive these patterns. Our study shows CS is heterogeneous across temperate forest landscapes at the scale of 10’s of meters, requiring a resolution of this size for upscaling CS with remote sensing to large spatial scales.
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Biology, Agricultural Sciences & Agronomy; aflatoxins; Mozambique; impact; health; economy; regulation
Online: 20 June 2018 (09:50:00 CEST)
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Aflatoxins are a known cause of primary liver cancer in Mozambique since pre-independence epidemiological studies. However, their impact goes beyond the public health, affecting the country’s economy and raising legal concerns. As a developing country endemic for Aspergillus, the nation has been struggling to keep pace with external trade quality demands, delicate policy making, still dealing with the farmers’ limitations to control the contamination. The contamination shows variations over time, space and the different commodities. Considering the recommendations of the Codex Alimentarius, the major crops will be highly implicated unless there is major intervention from the authorities to control the toxins.
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Biology, Plant Sciences; Keywords: Bacillus amyloliquefaciens, Chitinase, Defense enzymes; Biological control
Online: 19 June 2018 (15:56:47 CEST)
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To investigate whether the ech42 gene in Clonostachys rosea can improve the biocontrol efficacy of Bacillus amyloliquefaciens and its molecular mechanism.Compared to the wild type, the B. amyloliquefaciens transformed with the ech42 gene exhibited a higher chitinase activity. The B. amyloliquefaciens-ech42 also showed a significantly higher biocontrol efficiency against B. cinerea when tomato plants were pre-treated with amyloliquefaciens-ech42. No significant difference of control efficiency was observed between the wild type and amyloliquefaciens-ech42 when tomato plants were first infected by B. cinerea. In addition, the activity of the defense-related enzyme polyphenol oxidase, but not superoxide dismutase was significantly higher in amyloliquefaciens-ech42 than in the wild type.The ech42 enhances the Bacillus amyloliquefaciens biocontrol efficiency by increasing the capacity of protection/prevention to plants, rather treating/killing the pathogens.
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Biology, Other; archaic introgression, fitness, natural selection, Neanderthal, Denisova, anatomically modern humans
Online: 19 June 2018 (10:12:15 CEST)
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The demographic history of anatomically modern humans (AMH) involves multiple migration events, population extinctions and genetic adaptations. As genome-wide data from complete genome sequencing becomes increasingly abundant and available even from extinct hominins, new insights of the evolutionary history of our species are discovered. It is currently known that AMH introgressed with archaic hominins once they left the African continent. Current out of African human genomes carry fragments of archaic origin. This review focuses on the fitness consequences of archaic interbreeding in current human populations. We discuss new insights and challenges that researchers face when interpreting the potential impact of introgression on fitness and testing hypotheses about the role of selection within the context of health and disease.
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Biology, Physiology; neuroendocrinology; social behaviour network; mesolimbic reward system; aversive behaviour network
Online: 19 June 2018 (10:09:33 CEST)
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Animal-focused research has been crucial for scientific advancement however, in this matter, rodents are still taking a starring role. Coming out from merely being supportive of evidence found in rodents, the use of fish models has slowly taken a more central role and expanded its overall contributions in areas such as social sciences, evolution, physiology, and recently in translational medical research. In neurosciences, zebrafish has been widely adopted, contributing to our understanding of the genetic control of brain processes, and the effects of pharmacological manipulations. However, discussion continues regarding the paradox of function versus structure, when fish and mammals are compared, and on the potentially evolutionarily conserved nature of behaviour across fish species. From the behavioural stand point we explored aversive/stress and social behaviour in selected fish models, and refer to the extensive contributions of stress and monoaminergic systems. We suggest that, in spite of marked neuroanatomical differences between fish and mammals, stress and sociality are conserved at the behavioural and molecular levels. We also suggest that stress and sociality are mediated by monoamines in predictable and non-trivial ways, and that monoamines could “bridge” the relationship between stress and social behaviour. To reconcile the level of divergence with the level of similarity, we need neuroanatomical, pharmacological, behavioural, and ecological studies conducted in the laboratory and in nature. These areas need to add to each other to enhance our understanding of fish behaviour and ultimately how this all may translate to better model systems for translational studies.
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Igor Koloniuk,
Thanuja Thekke-Veetil,
Jean-Sébastien Reynard,
Irena Mavrič Pleško,
Jaroslava Přibylová,
Justine Brodard,
Isabelle Kellenberger,
Tatiana Sarkisova,
Josef Špak,
Janja Lamovšek,
Sebastien Massart,
Thien Ho,
Joseph Postman,
Ioannis Tzanetakis
Biology, Plant Sciences; Ribes; currant; closterovirus; recombinants/recombination
Online: 15 June 2018 (14:40:33 CEST)
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Five isolates of a new putative member of the genus Closterovirus, tentatively named blackcurrant leafroll associated virus 1 (BcLRaV-1), were identified in currant. The 17 kb long genome of BcLRaV-1 contained 10 open reading frames (ORFs). The replication associated polyprotein has two papain-like leader proteases, a methyltransferase, a helicase and an RNA-dependent RNA polymerase domain. Additional ORFs coded for heat shock protein 70 homolog, heat shock protein 90 homolog, two divergent copies of coat protein, and three accessory proteins without identifiable functions. Phylogenetic analysis showed that BcLRaV-1 is related to members of the genus Closterovirus and recombination analysis of the isolates showed clear evidences of intraspecies recombination.
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Biology, Plant Sciences; morphogenesis, cell wall protein, Hechtian oscillator, calcium signalling, H+ ATPase
Online: 15 June 2018 (14:15:29 CEST)
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Morphogenesis remains a riddle, wrapped in a mystery, inside an enigma. It remains a formidable problem viewed from many different perspectives of morphology, genetics, and computational modelling. We propose a biochemical reductionist approach that shows how both internal and external physical forces contribute to plant morphogenesis via mechanical stress-strain transduction from the primary cell wall tethered to the plasma membrane by a specific arabinogalactan protein (AGP). The resulting stress vector with direction defined by Hechtian adhesion sites, has a magnitude of a few picoNewtons amplified by a hypothetical Hechtian growth oscillator. This paradigm shift involves stress activated plasma membrane Ca2+channels and auxin-activated H+-ATPase. The proton pump dissociates periplasmic AGP-glycomodules that bind Ca2+. Thus, as the immediate source of cytosolic Ca2+ an AGP-Ca2+ capacitor directs vectorial exocytosis of cell wall precursors and auxin efflux (PIN) proteins. In toto these components comprise the Hechtian Oscillator and also the gravisensor. Thus interdependent auxin and Ca2+ morphogen gradients account for the predominance of AGPs. The size and location of a cell surface AGP-Ca2+ capacitor is essential to differentiation and explains AGP correlation with all stages of morphogenetic patterning from embryogenesis to root and shoot. Finally, evolutionary origins of the Hechtian Oscillator in the unicellular Chlorophycean algae reflect the ubiquitous role of chemiosmotic proton pumps that preceded DNA at the dawn of life.
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Biology, Horticulture; endophytes; tomato; biocontrol; PGPR; seed; microbiome
Online: 15 June 2018 (09:54:47 CEST)
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Tomato (Solanum lycopersicum L.) is widely consumed around the world is mostly affected by stresses and diseases that reduce yield and production. Research on sustainable technologies like the use of beneficial microorganismsis crucial to development sustainable management strategies. Endophytic bacteria might increase production as well as plant health.. In this work we studied the endobiome of tomato seeds of different cultivars since the plant genotype might affect the microbial community structure in terms of plant growth promoters as well as organisms for biocontrol. The conditions prevailing within seeds along the maturation period might have affected bacterial survival. This is such that seed endophytes share features, which are different from those of bacteria from other plant tissues. The community associated with different cultivars reflects the different resources available in the seed and its potential to prevent the attack of pathogens and to promote plant growth.
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Biology, Plant Sciences; epigenetics; differentially methylated markers (DMMs); LEAVES; roots; DNA methylation; salinity stress; barley
Online: 15 June 2018 (06:10:53 CEST)
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Salinity can negatively impact crop growth and yield. Changes in DNA methylation are known to occur when plants are challenged by stress and have been associated with the regulation of stress-response genes. However, the role of DNA-methylation in moderating gene expression in response to salt stress has been relatively poorly studied among crops such as barley. Here, we assessed the extent of salt-induced alterations of DNA methylation in barley and their putative role in perturbed gene expression. Using Next Generation Sequencing, we screened the leaf and root methylomes of five divergent barley varieties grown under control and three salt concentrations, to seek genotype independent salt-induced changes in DNA methylation. Salt stress caused increased methylation in leaves but diminished methylation in roots with a higher number of changes in leaves than in roots, indicating that salt induced changes to global methylation are organ specific. Differentially Methylated Markers (DMMs) were mostly located in close proximity to repeat elements, but also in 1094 genes, of which many possessed gene ontology (GO) terms associated with plant responses to stress. Identified markers have potential value as sentinels of salt stress and provide a starting point to allow understanding of the functional role of DNA methylation in facilitating barley’s response to this stressor.
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Biology, Physiology; corneal; pediatric; adult; corneal endothelial dystrophies; total RNA; gene expression; gene sets; transcriptome
Online: 15 June 2018 (05:42:13 CEST)
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The eyes are the sense organs through we view the world around us, and the cornea is the transparent layer which covers the outer, visible part of the eye. It is known that the gene expression of corneal endothelium depends on age. And the expressed genes of the endothelium of cornea for pediatric samples is different than that of the adult samples. The purpose or objective of this study was to characterize human corneal endothelial cell (HCEnC) gene expression and differential gene expression and to detect the expressed genes mapped to chromosomal loci associated with some corneal endothelial dystrophies. Both upregulated and downregulated genes were analyzed. For this purpose, total RNA was isolated from ex vivo corneal endothelium taken from six pediatric and five adult corneas. The complementary DNA was hybridized to the Affymetrix GeneChip 1.1 ST array. The data analysis was performed using the Enrichr software for both upregulated and downregulated genes. These are described in more detail in the results and discussion section. This study uses bioinformatics tools to identify and analyse gene sets present in the transcriptome of the corneal endothelium, and tries to find out and observe the relation of the aging effect on the corneal endothelium gene expression. The human subjects had participated voluntarily and informed consent was obtained from all before carrying out any testing procedure. Proper guidelines from the hospital ethical committee were also followed and no harmful chemicals were used on the participants. This study simply aims to raise some awareness of the given topic among the local people so that they are better able to take informed choices about their health in the near future, and also so that they seek medical help when necessary and have no inhibitions in doing so.
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Biology, Agricultural Sciences & Agronomy; biochar; compost; nutrient retention; highly weathered soil; Chinese cabbage
Online: 14 June 2018 (15:46:36 CEST)
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Highly weathered soils in the tropics are low in fertility, negatively affecting plant growth. The potential of biochar for improving soil nutrient retention is reportedly promising, triggering this study to assess the nutrient retention capacities of two biochars when applied at 2% in combination with two composts also applied at 2% to an Ultisol (Ustic Kanhaplohumult, Leilehua series) and an Oxisol (Rhodic haplustox, Wahiawa series) of Hawai’i. Chinese cabbage (Brassica rapa cv. Bonsai) was used as the test plant in two greenhouse plantings, which had a factorial completely randomized design with three replicates per treatment. The results indicated that the combined additions of biochar and compost significantly increased the pH, EC, P and K of the soils; improved Ca, Mg and Fe uptake; and increased shoot and total cabbage fresh and dry matter. Exchangeable aluminum in the Ultisol was decreased from 2.5 cmol+/kg to virtually zero. Extractable Mn and Fe in the high Mn-Oxisol were decreased by 55 and 42%, respectively. Chinese cabbage growth in the Ultisol amended with the lac tree (Schleichera oleosa) wood biochar and vermicompost was almost twice over lime at 2 cmol+/kg. Essential nutrients in the plant tissues, with the exception of N and K, were sufficient for the cabbage growth, suggesting increases in nutrients and reduced soil acidity by the additions of biochar combined with compost were the probable cause.
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Biology, Agricultural Sciences & Agronomy; Site-specific K management, Soil K supply, Maize yield response to K, Maize Crop Manager, Nutrient Expert for Maize.
Online: 13 June 2018 (16:05:00 CEST)
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Increased nutrient withdrawal by rapidly expanding intensive cropping systems, in combination with imbalanced fertilization, is leading to potassium (K) depletion from agricultural soils in Asia. There is an urgent need to better understand the soil K-supplying capacity and K-use efficiency of crops to address this issue. Maize is increasingly being grown in rice-based systems in South Asia, particularly in Bangladesh and North East India. The high nutrient extraction, especially K, however, causes concerns for the sustainability of maize production systems in the region. The present study was designed to estimate, through a plant-based method, the magnitude, and variation in K-supplying capacity of a range of soils from the maize-growing areas and the K-use efficiency of maize in Bangladesh. Eighteen diverse soils were collected from several upazillas (or sub-districts) under 11 agro-ecological zones to examine their K-supplying capacity from the soil reserves and from K fertilization (@ 100 mg K kg-1 soil) for successive seven maize crops grown up to V10-V12 in pots inside a net house. A validation field experiment was conducted with five levels of K (0, 40, 80, 120 and 160 kg ha-1) and two fertilizer recommendations based on “Nutrient Expert for Maize-NEM” and “Maize Crop Manager-MCM” decision support tools (DSSs) in 12 farmers’ fields in Rangpur, Rajshahi and Comilla districts in Bangladesh. Grain yield and yield attributes of maize responded significantly (P < 0.001) to K fertilizer, with grain yield increase from 18 to 79% over control in all locations. Total K uptake by plants not receiving K fertilizer, considered as potential K-supplying capacity of the soil in the pot experiment, followed the order: Modhukhali >Mithapukur >Rangpur Sadar >Dinajpur Sadar >Jhinaidah Sadar >Gangachara >Binerpota >Tarash >Gopalpur >Daudkandi >Paba >Modhupur >Nawabganj Sadar >Shibganj >Birganj >Godagari >Barura >Durgapur. Likewise in the validation field experiment, the K-supplying capacity of soils was 83.5, 60.5 and 57.2 kg ha-1 in Rangpur, Rajshahi, and Comilla, respectively. Further, the order of K-supplying capacity for three sites was similar to the results from pot study confirming the applicability of results to other soils and maize-growing areas in Bangladesh and similar soils and areas across South Asia. Based on the results from pot and field experiments, we conclude that the site-specific K management using the fertilizer DSSs can be the better and more efficient K management strategy for maize.
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Biology, Other; Aspergillus flavus; antioxidant gallic acid; aflatoxin; farB; creA
Online: 13 June 2018 (09:59:49 CEST)
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Aflatoxin biosynthesis is correlated with oxidative stress and is proposed to function as a secondary defense mechanism to redundant intracellular reactive oxygen species (ROS). We find that the antioxidant gallic acid inhibits aflatoxin formation and growth in A. flavus in a dose-dependent manner. Global expression analysis (RNA-Seq) of gallic acid treated A. flavus showed that 0.8% (w/v) gallic acid revealed two possible routes of aflatoxin inhibition. Gallic acid significantly inhibited the expression of farB, encoding a transcription factor that participates in peroxisomal fatty acid β oxidation, a fundamental contributor to aflatoxin production. Secondly, the carbon repression regulator encoding gene creA was significantly down regulated by gallic acid treatment. CreA is necessary for aflatoxin synthesis and aflatoxin biosynthesis genes were significantly downregulated in DcreA mutants. In addition, the results of antioxidant enzyme activities and the lipid oxidation levels coupled with RNA-Seq data of antioxidant genes indicated that gallic acid may reduce oxidative stress through the glutathione- and thioredoxin-dependent systems in A. flavus.
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Biology, Animal Sciences & Zoology; NSAIDs; salicylic acid; sodium salicylate; HPLC; sheep; pharmacokinetics
Online: 12 June 2018 (09:35:41 CEST)
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The pharmacokinetics of salicylic acid (SA) in sheep was evaluated following intravenous (IV) and oral administration of sodium salicylate (sodium salt of salicylic acid) at different doses. Six healthy sheep were administered sodium salicylate (SS) IV at doses of 10, 50, 100 and 200 mg/kg body weight and another six sheep were drenched with 100 and 200 mg/kg of SS orally. Both studies were randomised crossover trials. A one-week washout period between each treatment was allowed in both studies. Blood samples were collected at 0, 15, 30 minutes and 1, 2, 4 and 6 hours after IV and oral SS administrations. Plasma SA concentrations were determined using high performance liquid chromatography with diode array detection method. Pharmacokinetic variables were calculated in a non-compartmental model. The elimination half-life (T1/2 el) of SA after IV administration of 200 mg/kg SS was 1.16 ± 0.32 hours. Mean bioavailability of SA was 64%, and mean T1/2 el was 1.90 ± 0.35 hours, after 200 mg/kg of oral SS. The minimum plasma SA concentration (16.8 µg/mL) required to produce analgesia in humans was achieved after IV administration of 100 and 200 mg/kg SS in sheep for about 0.17 hour in this study. Experiments on pharmacokinetic-pharmacodynamics modelling are required to determine the actual effective plasma concentration range of SA in sheep.
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Biology, Agricultural Sciences & Agronomy; abscission layer; artificial selection; crop domestication; dehiscence; legumes; seed dispersal
Online: 11 June 2018 (15:28:54 CEST)
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In wild habitats, fruit dehiscence is a critical strategy for seed dispersal; however, in cultivated crops it is one of the major sources of yield loss. Therefore, indehiscence of fruits, pods, etc., was likely to be one of the first traits strongly selected in crop domestication. Even with the historical selection against dehiscence in early domesticates, it is a trait still targeted in many breeding programs, particularly in minor or underutilized crops. Here, we review of this trait in pulse (grain legume) crops, which are of growing importance as a source of protein in human and livestock diets, and which have received less attention than cereal crops and the model plant Arabidopsis thaliana. We specifically focus on the i) history of indehiscence in domestication across legumes, ii) structures and the mechanisms involved in shattering, iii) the molecular pathways underlying this important trait, iv) an overview of the extent of crop losses due to shattering, and the effects of environmental factors on shattering, and, v) efforts to reduce shattering in crops. While our focus is mainly pulse crops, we also included comparisons to crucifers and cereals because there is extensive research on shattering in these taxa.
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Biology, Agricultural Sciences & Agronomy; aflatoxin, history, research, Mozambique
Online: 7 June 2018 (10:23:53 CEST)
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In Mozambique, the aflatoxin research started in 1960’s and has been carried through apparently unrelated efforts according to opportunities. However, there was a major trend divided in early epidemiological studies and recent agricultural research. Early investigators found strong correlation between aflatoxin contamination and primary liver cancer. Since then, there have been efforts to analyze the extent of contamination, especially in groundnuts and maize. More recent investigation and intervention aimed mostly to reduce the level of contamination enough to allow such commodities to gain acceptance in the international market. The current status of knowledge is still marginal but the increasing involvement of local authorities, academia and international organizations seems promising.
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Biology, Entomology; insulin-signaling; insulin receptor; Aedes aegypti; mosquitoes; insulin; insulin-like peptides; nutrition; hyperinsulinemia; larval-diet; metabolic reserves
Online: 6 June 2018 (11:55:53 CEST)
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Mosquitoes have distinct developmental and adult life history, and the vectorial capacity of females has been shown to be affected by the larval nutritional environment. However, little is known about the effect of developmental nutrition on insulin-signaling and nutrients storage. In this study, we used Aedes aegypti, the yellow fever mosquito, to determine whether larval nutrition affects insulin gene expression. We also determined the traits regulated by insulin signaling, such as stored-nutrients levels and fecundity. We raised mosquito larvae on two different diets, containing either high protein or high carbohydrates. Development on a high-carbohydrate diet resulted in several life-history phenotypes indicative of suboptimal conditions, including increased developmental time and decreased fecundity. Additionally, our data showed that insulin transcript levels are affected by a high-carbohydrate diet during development. Females, not males, reared on high-carbohydrate diets had much higher transcript levels of insulin-like peptide 3 (ILP3), a mosquito equivalent of human insulin, and these females more readily stored sugar from the meal into lipids. We also found that AaILP4, not AaILP3, transcript levels were much higher in the males after a sugar meal, suggesting sex-specific differences in insulin-signaling pathway. Our findings suggest a conserved mechanism of carbohydrate-mediated hyperinsulinemia in animals.
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Biology, Physiology; glaucoma; nitric oxide; spectral domain optical coherence tomography; aqueous humor outflow tract; physiology
Online: 6 June 2018 (06:09:24 CEST)
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Purpose: To correlate outflow function and outflow tract vessel diameter changes induced by nitric oxide (NO).
Methods: In a porcine anterior segment perfusion model, the effects of a nitric oxide donor (100 µM DETA-NO) on outflow facility were compared to controls (n=8 per group) with trabecular meshwork (TM) and after circumferential ab interno trabeculectomy (AIT). Outflow structures were assessed with spectral domain optical coherence tomography (SD-OCT) before and after NO, or an NO synthase inhibitor (100 µM L-NAME) and the vasoconstrictor, endothelin-1 (100 pg/mL ET-1). Scans were processed with a custom macro script and aligned for automated reslicing and quantification of cross-sectional outflow tract areas (CSA).
Results: The facility increased after DETA-NO (0.189±0.081 μL/min·mmHg, p=0.034) and AIT (0.251±0.094 μL/min·mmHg, p=0.009), respectively. Even after AIT, DETA-NO increased the facility by 61.5% (0.190±0.074 μL/min·mmHg, p=0.023) and CSA by 13.9% (p<0.001). L-NAME + ET-1 decreased CSA by -8.6% (p<0.001). NO increased the diameter of focal constrictions 5.0±3.8 fold.
Conclusions: NO can dilate vessels of the distal outflow tract and increase outflow facility in a TM-independent fashion. There are short, focally constricting vessel sections that display large diameter changes and may have a substantial impact on outflow.
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Biology, Plant Sciences; epigenetics; H3K9 methylation; H3K4 methylation; DNA methylation; seasonal climate change; summer dormancy; heat shock proteins; ribosomal proteins; Zygophyllum dumosum Boiss
Online: 4 June 2018 (12:49:59 CEST)
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Plants thriving in desert environments are suitable for studying mechanisms for plant survival under extreme seasonal climate variation. Zygophyllum dumosum Boiss, like many other Zygophyllaceae species, displays a unique epigenetic mechanism whereby the repressive markers di- and tri-methyl of H3K9 do not exist. We studied epigenetic mechanisms underlying seasonal growth cycles in Z. dumosum and their association with factors regulating basic cell functions. We showed strong association between rainfall and seasonal growth and the epigenetic marker of dimethyl H3K4, which disappears on entry into the dry season and the acquisition of dormant state. DNA methylation is not affected by lack of H3K9 di and tri methyl and changes in methylation pattern are apparent on entry into the dry season. Proteome analysis of acid soluble fractions revealed extensive reduction in ribosomal proteins and in proteins involved in chloroplasts and mitochondria activities during the dry seasons concomitantly with up-regulation of molecular chaperone HSPs. Our results highlight mechanisms underlying Z. dumosum adaptation to seasonal climate variation. Particularly, summer dormancy is associated with loss of the permissive epigenetic marker dimethyl H3K4, which might facilitate genome compaction, concomitantly with significant reduction in proteins involved in basic cell functions (i.e., protein synthesis, photosynthesis and respiration).
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Biology, Other; origin of life; LUCA; FUCA; RNA World; PTC; Archaea; translation system
Online: 4 June 2018 (11:17:58 CEST)
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The existence of a common ancestor to all living organisms in Earth is a necessary corollary of Darwin idea of common ancestry. The Last Universal Common Ancestor (LUCA) has been normally considered as the ancestor of cellular organisms that originated the three domains of life: Bacteria, Archaea and Eukarya. Recent studies about the nature of LUCA indicate that this first organism should present hundreds of genes and a complex metabolism. Trying to bring another of Darwin ideas into the origins of life discussion, we went back into the prebiotic chemistry trying to understand how LUCA could be originated under gradualist assumptions. Along this line of reasoning, it became clear to us that the definition of another ancestral should be of particular relevance to the understanding about the emergence of biological systems. Together with the view of biology as a language for chemical translation, on which proteins are encoded into nucleic acids polymers, we glimpse a point in the deep past on which this Translation mechanism could have taken place. Thus, we propose the emergence of this process shared by all biological systems as a point of interest and propose the existence of this non-cellular entity named FUCA, as the First Universal Common Ancestor. FUCA was born in the very instant on which RNA-world replicators started to be capable to catalyze the bonding of amino acids into oligopeptides. FUCA has been considered mature when the translation system apparatus has been assembled together with the establishment of a primeval, possibly error-prone genetic code. This is FUCA, the great-grandmother of LUCA.
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Biology, Plant Sciences; heavy metals; dyer´s greenweed; elicitation; exudation
Online: 4 June 2018 (10:13:25 CEST)
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Family Fabaceae traditionally serves as food and herbal remedies source. Several plants are already used for menopausal symptoms treatment based on a presence of typical secondary metabolites, isoflavones. Beside soybean and clovers, isoflavones could be produced by other plants or in vitro cultures. This type of production can be further enhanced by elicitation that stimulates metabolites biosynthesis via stress reaction. Vanadium compounds have been already described as potential elicitors and the aim of this study was to determine an impact of NH4VO3 and VOSO4 solutions on isoflavones production in Genista tinctoria L. cell cultures. The significant increase of isoflavones content such as genistin, genistein or formononetin was measured in a nutrient medium or dry mass after NH4VO3 treatment for 24 or 48 hours. The possible transport mechanism of isoflavones was also evaluated. An incubation with different transport inhibitors prior elicitation took effect on isoflavones content in the medium. However, there was non-ended result for particular metabolites such as genistein and daidzein, where ABC or alternatively MATE proteins can participate. Possible elicitation by some inhibitors was also discussed as result of their pleiotropic effect. Despite this outcome, the determining of transport mechanism is important step for identification of specific transporter.
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Biology, Other; neuromelanin; ferritin; quantum dot; substantia nigra pars compacta; locus coeruleus; quantum biology
Online: 4 June 2018 (09:52:06 CEST)
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In this review, the author shows that ferritin has documented quantum dot material properties that have been reported in numerous independent studies and can generate coherent electron conduction bands over substantial distances, using quantum coherence. In addition, neuromelanin is a conjugated polymer, and quantum dot/conjugated polymer combinations have been reported in numerous independent studies to generate coherent electron conduction bands for solar photovoltaic applications. Both ferritin and neuromelanin are present in large quantities in the dopamine neurons of the substantia nigra pars compacta and the norepinephrine neurons of the locus coeruleus. The unique structure of subgroups of these neurons that have a large number of axon branches and synapses appears to have evolved to take advantage of these coherent electron conduction bands to coordinate conscious action. Independent clinical and laboratory studies are also reviewed that corroborate this theory of coordinated action in these neuron groups. Proposed research to validate the theory using an existing fluorescent probe material is proposed.
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Volodymyr V. Oberemok,
Kateryna V. Laikova,
Anna I. Repetskaya,
Igor M. Kenyo,
Mikhail V. Gorlov,
Igor N. Kasich,
Alisa M. Krasnodubets,
Nikita V. Gal'chinsky,
Iryna I. Fomochkina,
Aleksei S. Zaitsev,
Viktoriya V. Bekirova,
Eleonora E. Seidosmanova,
Ksenia I. Dydik,
Anna O. Meshcheryakova,
Sergey A. Nazarov,
Natalya N. Smagliy,
Edie L. Chelengerova,
Alina A. Kulanova,
Karim Deri,
Mikhail V. Subbotkin,
Refat Z. Useinov,
Maksym N. Shumskykh,
Anatoly V. Kubyshkin
Biology, Other; antisense oligonucleotides; antisense therapy; DNA insecticides; RNAi; medicine; agriculture; forestry
Online: 31 May 2018 (12:11:59 CEST)
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Antisense oligonucleotides (ASO), short single-stranded polymers based on DNA or RNA chemistries and synthesized in vitro, regulate gene expression by binding in a sequence-specific manner to an RNA target. The functional activity and selectivity in the action of ASOs largely depends on the combination of nitrogenous bases in a target sequence. This simple and natural property of nucleic acids provides an attractive route by which scientists can create different ASO-based techniques. Over the last 50 years, planned and realized applications in the field of antisense and nucleic acid nanotechnologies have produced astonishing results and posed new challenges for further developments, exemplifying the essence of the post-genomic era. Today the majority of ASOs are chemically modified and/or incorporated within nanoparticles to enhance their stability and cellular uptake. This review critically analyzes some successful cases using the antisense approach in medicine to address severe diseases, such as Duchenne muscular dystrophy and spinal muscular atrophy, and suggests some prospective directions for future research. We also examine in detail the elaboration of unmodified insect-specific DNA insecticides and RNA preparations in the areas of agriculture and forestry, a relatively new branch of ASO that allows circumvention of the use of non-selective chemical insecticides. When considering the variety of successful ASO modifications with an efficient signal-to-noise ratio of action, coupled with the affordability of in vitro oligonucleotide synthesis and post-synthesis procedures, we predict that the next half-century will produce a fruitful yield of tools created from effective ASO-based end products.
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Biology, Other; cells; LUCA; RNA world; PTC; bacteria; Archaea; translation system
Online: 30 May 2018 (09:33:22 CEST)
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A dogma is normally considered as a principle or a belief accepted as an indisputable truth by some individuals and/or groups. Theoretically there can be no dogmas in science, but it has been demonstrated that scientific thought operates by conceptual changes. A dogma therefore can be understood as a concept present at the heart of some contemporary research programmes that need to be altered to overcome paradigms. Here we argue that two ideas relating to emergence of the biological system research need to be re-evaluated. First, is the idea that research programmes about the emergence of the biological system are the same as those of the origin of cells. Cells are strikingly important biological entities, hard core concepts for the entire field of biology. The emergence of the biological system happened much earlier than the origin of cells and thus the First Universal Common Ancestor (FUCA) should be viewed as a great-grandfather to the Last Universal Cellular Ancestor (LUCA); i.e. the latter is the first cellular life form. Second, RNA-world theories are the focus of mainstream research programmes for the origin of life stricto sensu. In the RNA-world view, self-replication of nucleic acids is seen as one of the most relevant events in the pre-biotic world. Without denying the relevance of self-replication, we argue here that the most germane event which occurred in the pre-biotic world was the crosstalk between nucleic acids and peptides. When these two macromolecules started to interact, the singularity that aggregated the complexity required to produce life emerged. Thus, comprehension of the early origins of the translation machinery and the assembly of the genetic code is key. Therefore, the relevance of cell theory and self-replication should be re-evaluated as well as the concept of life itself.
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Biology, Animal Sciences & Zoology; whale; virome; drone; mammalian host; virosphere
Online: 30 May 2018 (07:37:39 CEST)
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There is growing interest in characterizing the viromes of diverse mammalian species, particularly in the context of disease emergence. However, little is known about virome diversity in aquatic mammals, in part due to difficulties in sampling. We characterized the virome of the exhaled breath (or blow) of the Eastern Australian humpback whale (Megaptera novaeangliae). To achieve an unbiased survey of virome diversity a meta-transcriptomic analysis was performed on 19 pooled whale blow samples collected via a purpose-built Unmanned Aerial Vehicle (UAV, or drone) approximately 3km off the coast of Sydney, Australia during the 2017 winter annual northward migration from Antarctica to northern Australia. To our knowledge, this is the first time that UAVs have been used to sample viruses. Despite the relatively small number of animals surveyed in this initial study, we identified six novel virus species from five viral families. This work demonstrates the potential of UAVs in studies of virus disease, diversity, and evolution.
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Biology, Agricultural Sciences & Agronomy; Fusarium graminearum, mycelial growth, RGB, gray scale.
Online: 28 May 2018 (16:31:22 CEST)
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Size-based fungal growth studies have limitations. For example, the growth in size stops in closed systems once it reaches the borders and poorly describes the metabolic status, especially in the stationary phase. This might lead mycotoxin studies to unrealistic results. Color change could be a viable alternative as pigments are results of the mold’s metabolic activity. This study aimed to verify the possibility of using gray values and the RGB system to analyze the growth of Fusarium graminearum. It consisted color and area measurement using the ImageJ software for specimens grown in yeast extract agar (YEA). The results suggest the usability of color and gray values as reliable tools to analyze the growth of F. graminearum.
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Biology, Ecology; cyprinidae; life history; freshwater ecology; oocyte; ovary
Online: 28 May 2018 (08:48:11 CEST)
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Understanding the reproductive patterns and strategies of a species is an important step in establishing the species’ life history. Campostoma oligolepis, the Largescale Stoneroller, is a species that has received little attention in the 90 years since it was first identified, and the work that has been done has been localized in the American Midwest. Collections of C. oligolepis were made monthly from the Flint River in Madison County in northern Alabama, USA, from March, 2014, to September, 2015. A total of 768 fish were collected over the collection period including 492 adults, 268 females and 224 males. We found strong evidence that the peak spawning time for C. oligolepis in the Flint River is March and April. Ovarian maturation, gonadosomatic index for both sexes, and monthly clutch size all support this conclusion. Two unexpected features were found. The first is how few females of mature size were found to carry either oocytes or a clutch except in the peak observed reproductive month of April, 2014. The second unusual feature is the prevalence of asymmetric ovaries, with the left the larger if a difference exists. Campostoma oligolepis may have unusually strong inter-annual responses to abiotic factors such as water temperature and river discharge.
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Biology, Agricultural Sciences & Agronomy; aflatoxins; Mozambique; etiology; epidemiology; control
Online: 28 May 2018 (08:40:13 CEST)
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Mozambique is endemic to aflatoxigenic Aspergillus but the country has to heavily rely on foreign research to deduct what is happening locally. There is some information produced by local scholars and institutions but it needs to be “tied” together. This review briefly synthetizes the country’s major findings in relation to the toxin’s etiology, epidemiology, detection and control, discussing and meta-analyzing them as far as they allow. The causes and foods affected are the same as in most tropical countries, the toxin is widespread and the level of exposure is high. Regarding the control, it is still marginal but some institutions have driven efforts in this direction. Learning from other countries is still the best approach to take, as the solutions are probably the same for most places.
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Biology, Other; annexins; inflammation; wound healing; host-pathogen interplay; drug target; translational research
Online: 27 May 2018 (11:32:34 CEST)
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The vertebrate annexin superfamily (AnxA) consists of 12 members of a calcium (Ca2+) and phospholipid binding protein family which share a high structural homology. In keeping with this hallmark feature, annexins have been implicated in the Ca2+-controlled regulation of a broad range of membrane events. In this review, we identify and discuss several themes of annexin actions that hold a potential therapeutic value, namely the regulation of the immune response and the control of tissue homeostasis, and that repeatedly surface in the annexin activity profile. Our aim is to identify and discuss those annexin properties which might be exploited from a translational science and specifically clinical point of view.
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Biology, Other; photodynamic therapy; photobleaching; photosensitizers; fluorescence imaging
Online: 24 May 2018 (08:32:27 CEST)
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Photodynamic therapy (PDT) of cancer is dependent on three primary components: photosensitizer (PS), light, and oxygen. Because these components are interdependent and vary during the dynamic process of PDT, assessing PDT efficacy may not be trivial. Therefore, it has become necessary to develop pre-treatment planning, on-line monitoring and dosimetry strategies during PDT, which become more critical for two or more chromophore systems, e.g. PS-CD conjugates developed in our laboratory for fluorescence-imaging and PDT of cancer. In this study, we observed a significant impact of variable light dosimetry; (i) high light fluence and fluence rate (light dose: 135 J/cm2, fluence rate: 75 mW/cm2) and (ii) low light fluence and fluence rate (128 J/cm2 and 14 mW/cm2 and 128 J/cm2 and 7 mW/cm2) in photobleaching of the individual chromophores and their long-term tumor response. The fluorescence at the near-infrared (NIR) region of the PS-NIR fluorophore conjugate was assessed intermittently via fluorescence imaging. The loss of fluorescence, photobleaching, caused by singlet oxygen from the PS was mapped continuously during PDT. The tumor responses (BALB/c mice bearing Colon26 tumors) were assessed after PDT by measuring tumor sizes daily. Our results showed distinctive photobleaching kinetics rates between the PS and CD. Interestingly, compared to higher light fluence, the tumors exposed at low light fluence showed reduced photobleaching and enhanced long-term PDT efficacy. The presence of NIR fluorophore in PS-CD conjugates provides an opportunity of fluorescence imaging and monitoring the photobleaching rate of the CD moiety for large and deeply seated tumors and assessing PDT tumor response in real-time.
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Dian Novianto,
Ilham Ilham,
Bram Setyadji,
Chandara Nainggolan,
Djodjo Suwardjo,
Suciadi Catur Nugroho,
Syarif Syamsuddin,
Arief Efendi,
Yaser Krisnafi,
Muhamad Handri,
Abdul Basith,
Yusrizal Yusrizal,
Erick Nugraha
Biology, Other; abundance indices; skipjack tuna; drifting gillnet; Indian Ocean
Online: 24 May 2018 (07:54:39 CEST)
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Skipjack tuna supports a valuable commercial fishery in Indonesia. Skipjack tuna are exploited in the Indian and Pacific Oceans with a variety of gear but drifting gillnets are a common method used by Indonesian fishers. However, despite of its importance, little information on the drifting gillnet fishery is available. This study describes a preliminary examination of the catch and effort data from the Indonesian skipjack drifting gillnet fishery. Utilizing daily landing report from 2010-2015, nominal catch per unit of effort (CPUE) data were calculated as kg/day at sea. Generalized Linear Models (GLM) were used to standardize the CPUE, using year, quarter, day at sea, and area as fixed variables. Model Goodness-of-fit and model comparison was carried out with the Akaike Information Criteria (AIC), the pseudo coefficient of determination (R2) and model validation with a residual analysis. The final estimation of abundance indices was calculated by least square means (LSMeans) or Marginal Means. The results showed that days accounted for most of the variation in CPUE, followed by year, quarter, and area. In general, there were no noticeable trends indicative of over exploitation or population depletion suggesting a sustainable fishery for Skipjack tuna in Indonesian waters.
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Biology, Other; annexins; inflammation; wound healing; drug target; translational research
Online: 23 May 2018 (08:19:42 CEST)
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The vertebrate annexin superfamily (AnxA) consists of 12 calcium (Ca2+) and phospholipid binding proteins which share a high structural homology. In keeping with this hallmark feature, annexins have been implicated in the Ca2+-controlled regulation of membrane events. In this review, we discuss several themes of potential therapeutic value, namely the regulation of the immune response and the control of tissue homeostasis, that repeatedly surface in the annexin action profile. Our aim is to identify and discuss those annexin properties which might be exploited from a translational science and specifically clinical point of view.
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Biology, Other; RANBP9; RANBPM; RANBP10; Scorpins; DDR; GID complex; CTLH complex
Online: 22 May 2018 (09:40:57 CEST)
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The DNA Damage Response (DDR) is a complex signaling network that comes into play when cells experience genotoxic stress. Upon DNA damage, cellular signaling pathways are rewired to slow down cell cycle progression and allow recovery. However, when the damage is beyond repair, cells activate complex and still not fully understood mechanisms, leading to a complete proliferative arrest or cell death. A number of conventional and novel anti-neoplastic treatments rely on causing DNA damage or on the inhibition of the DDR in cancer cells. However, the identification of molecular determinants directing cancer cells toward recovery or death upon DNA damage is still far from complete, and it is object of intense investigation. SPRY-COntaining RAN binding Proteins (Scorpins) RANBP9 and RANBP10 are evolutionarily conserved and ubiquitously expressed proteins whose biological functions are still debated. RANBP9 has been previously implicated in cell proliferation, survival, apoptosis and migration. Recent studies also showed that RANBP9 is involved in the Ataxia Telangiectasia Mutated (ATM) signaling upon DNA damage. Accordingly, cells lacking RANBP9 show increased sensitivity to genotoxic treatment. Although there is no published evidence, extensive protein similarities suggest that RANBP10 might have partially overlapping functions with RANBP9. Like RANBP9, RANBP10 bears sites putative target of PIK-kinases and high throughput studies found RANBP10 to be phosphorylated following genotoxic stress. Therefore, this second Scorpin might be another overlooked player of the DDR alone or in combination with RANBP9. This review focuses on the relatively unknown role played by RANBP9 and RANBP10 in responding to genotoxic stress.
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Biology, Entomology; biotrophic interactions; invasive species; colour polymorphism; harlequin ladybird; harmonine
Online: 21 May 2018 (11:41:07 CEST)
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Harmonia axyridis is an invasive ladybird (Coleoptera, Coccinellidae) with the potential to outcompete native ladybird species in its invasive distribution area. It was introduced as a biological control agent in many countries but has also spread unintentionally in many others. Hesperomyces virescens (Ascomycota, Laboulbeniales) is a minute (200–400 µm in size) biotrophic fungus that infects over 30 species of ladybirds. The aim of this study was to evaluate whether elytral colour pattern, size, and sex of Ha. axyridis affect infection by H. virescens. Colouration in Ha. axyridis has been linked to the presence of an antimicrobial alkaloid (harmonine). In fall 2016, we collected 763 Ha. axyridis individuals in Cambridge, Massaschusetts, of which 119 (16%) bore H. virescens fruiting bodies. We analysed 160 individuals concerning prevalence and intensity of infection by H. virescens. Elytral sizes and colouration patterns were quantified using digital photography and analytical methods. Smaller ladybirds had a higher prevalence and higher intensity of parasitism. Additionally, male ladybirds bore more thalli compared to female ladybirds. Elytral colour patterns had an effect on neither prevalence nor intensity of infection by Laboulbeniales in our dataset. This suggests that development of Laboulbeniales may be unaffected by certain insect alkaloids.
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Biology, Other; endoplasmic reticulum stress; metabolic disorders; unfolded protein response; inflammation; lipotoxicity; glucotoxicity; therapy
Online: 21 May 2018 (08:09:59 CEST)
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Metabolic disorders have become among the most serious threats to human health, leading to severe chronic diseases such as obesity, type 2 diabetes, non-alcoholic fatty liver disease, as well as cardiovascular diseases. Interestingly, despite the fact that each of these maladies has different physiological and clinical symptoms, they appear to share certain pathological traits such as intracellular stress and inflammation induced by metabolic derangements stemmed from over nutrition frequently aggravated by modern sedentary life style. These modern ways of living inundate cells and organs with saturating levels of sugar and fat, leading to glycotoxicity and lipotoxicity that induce intracellular stress signaling ranging from oxidative to ER stress response to cope with the metabolic insults [1]. In this review, we discuss the roles played by cellular stress and its responses in shaping metabolic disorders. We have summarized here current mechanistic insights explaining the pathogenesis of these disorders. These are followed by a discussion of the latest therapies targeting the stress response pathways.
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Biology, Agricultural Sciences & Agronomy; GH3 family; sequencing plants; potato; jasmonic acids; tissues; biotic
Online: 17 May 2018 (12:01:00 CEST)
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Glycoside Hydrolase 3 (GH3) is a phytohormone-responsive family of genes that has been found in many plant species. It is implicated in the biological activity of indolacetic (IAA) and jasmonic acids (JA), and also affects plant growth and developmental processes and some stresses. In this study, GH3 genes were identified in 48 plants, which belong to algae, moss, fern, gymnosperm and angiosperm. No GH3 representative gene has been found in algae, and our research identified 4 genes in mosses, 19 in ferns, 7 in gymnosperms, and numerous in Angiosperms. The results showed that GH3 genes mainly occur in seed plants. Phylogenetic analysis of all GH3 genes showed three separate clades. Group I was related to JA adenylation, group II was related to IAA adenylation, and group III was separated from group II but the function was not clear. The structure of GH3 protein indicated highly conserved sequence in the plant kingdom. The analysis of JA-adenylation related to gene expression of GH3 in potato (Solanum tuberosum) showed that StGH3.12 highly responded to Methyl Jasmonate (MeJA) treatment. Expression levels of StGH3.1, StGH3.11, and StGH3.12 were high in flower and StGH3.11 expression was also high in stolon. Our research revealed the evolution of the GH3 family, which is useful for studying the precise function about JA-adenylation GH3 genes in S. tuberosum under development and biotic stresses.