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Biology, Animal Sciences & Zoology; extinction; ‘light’ order; Linnaean system; thermodynamics; trophic levels; tropical lowland communities
Online: 22 June 2018 (13:45:04 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, 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, Anatomy & Morphology; fear; anxiety; aversive brain system; comparative neuroanatomy; teleost fish
Online: 21 June 2018 (05:45:33 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 “high road” 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 “low road” 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 (not shown). 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, 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; antioxidants; antioxidant enzymes; Solanum lycopersicum
Online: 14 June 2018 (07:44:17 CEST)
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Tomato is one of the most widely consumed vegetables in the world, such that improvements to its nutraceutical quality would have a positive effect on consumers’ health. In this study, we subjected grafted and non-grafted tomato plants to four different saline concentrations (NaCl), inducing abiotic stress in an attempt to increase antioxidant content without significantly affecting yields. Grafting affected lycopene content and ascorbate peroxidase (APx) activity. High NaCl (50, 75, and 100 mM) concentrations increased vitamin C content and both SOD and APx activity, but reduced lycopene content and fruit yields. The fruits from grafted plants subjected to 100 mM NaCl demonstrated the greatest vitamin C and total phenol content. Lycopene was greatest in treatments without salt stress, while superoxide dismutase (SOD) activity benefited most from not grafting and 100 mM NaCl. Grafted plants, in the absence of salt (0 mM treatment), had the highest yields.
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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, Animal Sciences & Zoology; lineage determination; patterning; blastomere polarization; compaction; cleavage stages; morula; gene regulatory networks
Online: 13 June 2018 (10:34:59 CEST)
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The self-organisation of a fertilised egg into an embryo of three distinct cell lineages (trophoblast, epiblast and hypoblast) arranged around an off-centre cavity typifies the blastocyst, an embryonic structure that 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, 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, Agricultural Sciences & Agronomy; vegetation dynamics; environmental modeling; big data; drylands
Online: 4 June 2018 (12:09:22 CEST)
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Assessing long period of the spatiotemporal vegetation cover dynamics has received substantial attention among scholars and decision-makers in the past few years. Optical remote sensing data such as the Moderate Resolution Imaging Spectroradiometer (MODIS) and Landsat provided worldwide invaluable historical records on land cover status at multi-spatial and temporal scales. Big data in agricultural and environmental fields is a considerable challenge which requires proper tools and skills. Understanding the big data lifecycle from acquisition to visualization is essential to building usable and effective workflow. In this research, four major challenges were tackled, developing a framework to-how-to deal effectively with raster big data of ~ 600 gigabytes (GB). Several MODIS satellite images from three different sensors for 10 years at different spatial resolution were preprocessed and analyzed using the R programming language. The Nile delta was chosen as a case study to monitor and assess the vegetation cover dynamics between spectral indices, sensors, and spatial resolutions. The pixel-based statistical analysis supports this exploratory investigation and opened the door to building deep learning algorithms for finer change detection analysis to assess more accurately the spatiotemporal dynamics of land degradation development, natural hazards, urban sprawl, and climate change.
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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.
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Biology, Other; non-coding RNA; telomerase RNA; secondary structure; synteny; homology search; yeast
Online: 16 May 2018 (11:58:28 CEST)
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The telomerase RNA in yeasts is large, usually >1000 nt, and contains functional elements that have been extensively studied experimentally in several disparate species. Nevertheless, they are very difficult to detect by homology-based methods and so far have escaped annotation in the majority of the genomes of Saccharomycotina. This is a consequence of sequences that evolve rapidly at nucleotide level, are subject to large variations in size, and are highly plastic with respect to their secondary structures. Here we report on a survey that was aimed at closing this gap in RNA annotation. Despite considerable efforts and the combination of a variety of different methods, it was only partially successful. While 27 new telomerase RNAs were identified, we had to restrict our efforts to the subgroup Saccharomycetacea because even this narrow subgroup was diverse enough to require different search models for different phylogenetic subgroups. More distant branches of the Saccharomycotina still remain without annotated telomerase RNA.
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Biology, Anatomy & Morphology; gap junction; connexin; annular gap junction vesicle; mitochondria; lysosome
Online: 15 May 2018 (08:39:33 CEST)
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It is becoming clear that in addition to gap junctions, playing a role in cell-cell communication, gap junction proteins, connexins, located in cytoplasmic-compartments may have other important functions. Mitochondrial connexin 43 (Cx43) is increased after ischemic preconditioning and has been suggested to play a protective role in the heart. How Cx43 traffics to the mitochondria and the interactions of mitochondria with other Cx43-containing structures are unknown. In this study, immunocytochemical, super-resolution and transmission electron microscopy were used to detect cytoplasmic Cx43-containing structure and to demonstrate their interactions with other cytoplasmic organelles. The most prominent cytoplasmic Cx43-containing structures, annular gap junctions, were demonstrated to form intimate associations with lysosomes as well as with mitochondria. Surprisingly, the frequency of associations between mitochondria and annular gap junctions was greater than that between lysosomes and annular gap junctions. The benefits of annular gap junction/mitochondrial associations are not known. However, it is tempting to suggest that the contact between annular gap junction vesicles and mitochondria facilitates Cx43 deliver to the mitochondria. Furthermore, it points to the need for investigating trafficking of Cx43 to cytoplasmic compartments and annular gap junction as more than only a vesicle destined for degradation.
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Biology, Other; P-glycoprotein; glioblastoma multiforme; brain-blood barrier; doxorubicin
Online: 14 May 2018 (12:50:18 CEST)
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P-glycoprotein (Pgp) determines resistance to a broad spectrum of drugs in glioblastoma multiforme (GB) because it is highly expressed in GB stem cells and in brain-blood barrier (BBB), the peculiar endothelium surrounding brain. Inhibiting Pgp activity in BBB and GB is still an open challenge. Here, we tested the efficacy of a small library of tetrahydroisoquinoline derivatives with an EC50 for Pgp < 50 nM, in primary human BBB cells and in patients-derived GB, from which we isolated differentiated/adherent cells (AC, i.e. Pgp-negative/doxorubicin-sensitive cells) and stem cells (neurospheres, NS, i.e. Pgp-positive/doxorubicin-resistant cells). At 1 nM, 3 compounds increased the delivery of doxorubicin, a typical substrate of Pgp, across BBB monolayer, without altering expression and activity of other transporters. The compounds increased the drug accumulation within NS, restoring necrosis, apoptosis and reduction in cell viability induced by doxorubicin. In co-culture systems, the compounds added to the luminal face of BBB increased the delivery of doxorubicin to NS growing under BBB and rescued the drug’s cytotoxicity. Our work identified new ligands of Pgp active at low nanomolar concentrations, that effectively reduce Pgp activity in BBB and GB, and can improve chemotherapy efficacy in this tumor.
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Biology, Horticulture; ex vitro; internode; light-emitting diodes; stomata; rosette
Online: 14 May 2018 (12:12:07 CEST)
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Transferring in vitro-cultured Eustoma seedlings to an ex vitro condition (acclimation) is a big challenge that may expose the seedlings to biotic and abiotic stresses, and affect the internal and external structure of the plants. In addition, in vitro-cultured seedlings of Eustoma are difficult to handle and phenotype and physiological traits such as survival and rosette rate may have altered in the acclimation stage. Therefore, the present study aims to examine the effects of blue, red, and white LED light on the growth and development ex vitro of in vitro-cultured seedlings of Eustoma. The results showed that blue LEDs resulted in greater plant height, internode length, and leaf number, increased upper and lower fresh biomass, and higher chlorophyll content compared with treatment by the other LED lights. Higher stomatal density on the abaxial leaf surface was also observed in the blue LED-treated plants, which also showed a higher survival rate and lower rosette rate. In contrast, the white LED-treated plants had the highest leaf width and internode diameter. Acclimation of the Eustoma plants ex vitro suggests that a combination of blue and white LEDs may be advantageous for better growth and development for large-scale production in a controlled environment.
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Biology, Entomology; rice landscape; natural enemies; location; population dynamics; variography; LANDSAT 8
Online: 14 May 2018 (10:13:50 CEST)
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Relationships among the population abundance of four predator groups for rice insect pests, namely: carabid beetles, staphylinid beetles, green mirid bugs, and spiders in three landscape categories were evaluated. Both rice plots and the associated bund margins of these rice plots found among three Bangladesh landscape categories were sampled by sweep net. The results revealed that the abundance significantly varied across landscapes. The rice landscape of one location harbored higher numbers of a specific predator than other location in other regions of Bangladesh. The results also showed a dependency on the width of the rice bund margins of the rice plots, where spiders populations increased with increased bund widths, but the population abundance of these predators did not depend on the diversity of the number of weed species found on the rice bund margins. The relative abundance of predator populations also significantly differed among the three landscapes, with the green mirid bug having the highest number among the four predators. This study indicates that predators of rice insect pests are highly landscape specific. In order to design integrated pest management systems for different Bangladeshi rice production locales, considerations unique to the characteristics of each locale are necessary. Preliminary efforts to apply variography analyses to the RED spectral band of LANDSAT 8 imagery from December 2016 are presented as first step toward learning a suite of methods which describe useful local characteristics affecting rice pest predators.
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Biology, Agricultural Sciences & Agronomy; Vigna radiata (L.) Wilczek; G x E interaction; Improvement; Model; Yield; Yield traits
Online: 11 May 2018 (15:46:43 CEST)
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Mungbean [Vigna radiata (L.) Wilczek] in Australia has been transformed from a niche opportunistic crop into a major summer cropping option for dryland growers in the summer-dominant rainfall regions of Queensland and New South Wales. This transformation followed stepwise genetic improvements in both grain yields and disease resistance. For example, more recent cultivars such as ‘Crystal’, ‘Satin II’ and ‘Jade-AU‘ have provided up to a 20% yield advantage over initial introductions. Improved agronomic management to enable mechanised management and cultivation in narrow (<50 cm) rows has further promised to increase yields. Nevertheless, average yields achieved by growers for their mungbean crops remain less than 1 t/ha, and are much more variable than other broad acre crops. Further increases in yield and crop resilience in mungbean are vital. In this review, opportunities to improve mungbean have been analysed at four key levels including phenology, leaf area development, dry matter accumulation and its partitioning into grain yield. Improving the prediction of phenology in mungbean may provide further scope for genetic improvements that better match crop duration to the characteristics of target environments. There is also scope to improve grain yields by increasing dry matter production through the development of more efficient leaf canopies. This may introduce additional production risks as dry matter production depends on the amount of available water, which varies considerably within and across growing regions in Australia. Improving crop yields by exploiting photo-thermal sensitivities to increase dry matter is likely a less risky strategy for these variable environments. Improved characterisation of growing environments using modelling approaches could also better define and identify the risks of major abiotic constraints. This would assist in optimising breeding and management strategies to increase grain yield and crop resilience in mungbean for the benefit of growers and industry.
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Yuan Yuan,
Zhi-Peng Zhang,
Yi-Ning He,
Wen-Sheng Fan,
Zhi-Hua Dong,
Li-Hua Zhang,
Xin-Kuan Sun,
Li-Li Song,
Tianchao Wei,
Mei-Lan Mo,
Ping Wei
Biology, Animal Sciences & Zoology; infectious bronchitis virus; protection; co-expressing; subunit vaccine; challenge
Online: 10 May 2018 (12:02:08 CEST)
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Avian infectious bronchitis virus (IBV) is the causative agent of infectious bronchitis, which causes considerable economic losses to the poultry industry worldwide. It is imperative to develop safe and efficient candidate vaccines to control IBV infection. In the current study, recombinant baculoviruses co-expressing S1 and N proteins, mono-expressing S1 or N proteins alone of IBV were constructed and prepared into subunit vaccines rHBM-S1-N, rHBM-S1 and rHBM-N. The levels of immune protection of these subunit vaccines were evaluated by inoculating specific pathogen-free (SPF) chickens at 14 days of age, boosting with the same dose 14 days later, and following challenge with a virulent GX-YL5 strain of IBV 14 days post-booster (dpb). The commercial vaccine strain H120 was used as a control. The IBV-specific antibody levels as well as the percentages of CD4+ and CD8+ T lymphocytes were detected within 28 days post-vaccination (dpv). The morbidity, mortality, and re-isolation of virus from the tracheas and kidneys of challenged birds were evaluated at 5 days post-challenge (dpc). The results showed that the IBV-specific antibody levels and the percentages of CD4+ and CD8+ T lymphocyte in rHBM-S1-N group were higher than those of rHBM-S1 and rHBM-N groups, especially the cellular immunity response. At 5 dpc, the mortality, morbidity and virus re-isolation rate of rHBM-S1-N were slightly higher than those of H120 group, but were lower than those of rHBM-S1 group and rHBM-N group. The present study demonstrated that the protection of recombinant baculovirus co-expressing S1 and N proteins was better than that of recombinant baculoviruses mono-expressing S1 or N protein alone. Thus, the recombinant baculovirus co-expressing S1 and N proteins could serve as a potential IBV vaccine and this demonstrates that the bivalent subunit vaccine including the S1 and N proteins might be a strategy for the development of an IBV subunit vaccine.
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Biology, Other; brown-throated sloth; human-animal interactions; questionnaire; urban wildlife; Bradypus variegatus
Online: 8 May 2018 (10:53:37 CEST)
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Free-range sloths living in an urban environment is rare. In this study, human opinions, attitudes and interactions with a population of Bradypus variegatus in a public square were investigated. A questionnaire was applied to people in the square where the sloths reside, and informal, opportunistic observations of human-sloth interactions were made. 95% of respondents knew of the sloths’ existence in the square and 87.8% likes their presence. Opinions about population size differed greatly and younger people were concerned if the square was appropriate place for them. Some human-sloth interactions showed the consequence of lack of biological knowledge. People initiated all sloth-human interactions. The fact that sloths are strictly folivorous has limited their interactions with humans and consequently minimised negative impact of the human-animal interaction on their wellbeing. These results demonstrate that while there is a harmonious relationship between people and sloths, actions in environmental education of the square’s public could be beneficial for the sloths.
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Biology, Other; dimerization; miRNA; motility; anoikis; chaperon; PTEN; FIP200; LKB1; PI3K; regulation
Online: 8 May 2018 (09:07:58 CEST)
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Focal adhesion kinase (FAK) and its close paralogue, proline-rich tyrosine kinase 2 (PYK2), are key regulators of aggressive spreading and metastasis of cancer cells. While targeted small-molecule inhibitors of FAK and PYK2 are showing promising antitumor activity, their clinical long-term efficacy may be undermined by the strong capacity of cancer cells to evade anti-kinase drugs. In healthy cells, the expression and/or function of FAK and PYK2 is tightly controlled through modulation of gene expression, competing alternatively spliced forms, non-coding RNAs, and proteins that directly or indirectly affect kinase activation or protein stability. The molecular factors involved are frequently deregulated in cancer cells. Here, we review the endogenous mechanisms controlling FAK and PYK2, and discuss how these mechanisms could inspire or improve anticancer therapies.
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Biology, Agricultural Sciences & Agronomy; irrigation; technology adoption; farmers’ innovation; diffusion
Online: 7 May 2018 (08:29:29 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. The pilot project also included training of selected farmers on well excavation, installation and maintenance of pumps. In June 2015, researchers visited nine of the 38 TP sites, and found only two functional TPs. The rest were replaced with a new technology. Farmers who adopted 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 hybrid technologies have 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, community ownership of the new technology, including local skills used in well drilling and fabricating excavation implement, made the new irrigation technology affordable and accessible to a higher number of households, leading to faster diffusion of the technology. Third, this innovation has spread organically without any external support. Adoption of the new technology enabled some farmers to accumulate enough resources to diversify their livelihoods into non-farm activities.
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Biology, Agricultural Sciences & Agronomy; agrobiodiversity; vegetables; plant genetic resources; Italy; safeguarding; landraces
Online: 4 May 2018 (09:34:09 CEST)
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The study attempts, above all, to provide a summary, with a strictly scientific basis, about the strategies of conservation of autochthonous agrobiodiversity followed in Italy. A special focus is dedicated on vegetables and, therefore, could represent a contribution to improve the national strategy for the safeguarding of its agrobiodiversity in general. The paper offers also an outlook on the most critical factors of the ex situ conservation and some actions which need to be taken. Some examples of ‘novel’ recovered neglected crops are also given. Finally a case study is proposed: ‘Mugnolicchio’, a neglected race of Brassica oleracea L., cultivated in Altamura (Ba) in southern Italy. ‘Mugnolicchio’ might be considered as an early step in the evolution of broccoli (B. oleracea L. var. italica Plenck) like ‘Mugnoli’ another neglected race described from Salento (Apulia).
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Tao Wu,
Yang Lv,
Xueni Li,
Lin Zhang,
Yutao Shi,
Linxiao Du,
Dan Yi,
Hongbo Chen,
Shuangshuang Guo,
Lei Wang,
Di Zhao,
Binying Ding,
Yongqing Hou,
Joshua Gong
Biology, Animal Sciences & Zoology; Bacillus coagulans; intestinal function; gut microbiota; weaned piglet
Online: 4 May 2018 (05:31:44 CEST)
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This research was to investigate beneficial impact and molecular mechanism of B. coagulans on piglets intestine. Twenty-four 21 days old weaned piglets were allotted to three treatments: control group (basal diet), B6 group (basal diet + 2×106 CFU/g B. coagulans), B7 group (basal diet + 2×107 CFU/g B. coagulans). The results showed that compared with control group, B6 and B7 group significantly decreased diarrhea rate and the concent of CHOL, GGT and DAO in plasma; decreased villus height and increase crypt depth in jejunum and ileum; increased the activities of SOD and CAT and decreased the concent of MDA and H2O2 in intestine. These data suggested that supplementing B. coagulans had beneficial impacts on promoting nutrients metabolism, maintaining intestinal integrity and alleviating oxidative stress and diarrhea. Futher research of molecular mechanisms showed that, these beneficial impacts were regulated by changing expression levels of related proteins (including HSP70, Caspase-3, Bax, Villin and Occludin), and genes (including RPL4, IFN-α, IFN-β, IFN-γ, MX1, MX2, OAS1, IL-1β, IL-4, CXCL-9, CCL-2, AQP3, SGLT-1, LPL, INSR and b0,+AT), and altering community composition of gut microbiota (particularly family Clostridiaceae, Enterobacteriaceae, and Veillonellaceae and genus Prevotella, Turicibacter, and Lactobacillus).
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Biology, Animal Sciences & Zoology; obesity, diabetes, cardiomyopathy, echocardiography, ultrasound
Online: 3 May 2018 (16:06:24 CEST)
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Cardiomyopathy is the leading cause of morbidity and mortality among all complications of type 2 diabetes (T2D) and obese patients. Diabetic cardiomyopathy (DC) is characterized by changes in cardiac morphology with declines in both systolic and diastolic functions. No rodent models fully captured phenotypes of DC. The ZDSD rat, a new generation of T2D rat model with intact leptin signaling features with slow onset of diabetes and obesity, which closely mimics the development of the disease in patients. Age-matched male ZDSD and SD rats were monitored for blood pressure, glucose and cardiac function using echocardiography. Animals were also challenged with 1 mg/kg dobutamine for the assessment of cardiac reserve. ZDSD rats developed hypertension from age of 18 weeks with blood pressure significantly higher than controls. At resting state, ZDSD rats showed biphasic changes in left ventricular posterior wall thickness and cavity volume. Concomitantly, both ejection fraction (EF) and transmitral E/A ratio of LV declined at 34 weeks old. Upon treatment with dobutamine, ZDSD lost cardiac contractility. Therefore, ZDSD rats may serve as a suitable preclinical model to study potential therapeutic approaches to treat cardiomyopathy with presence of metabolic syndromes.
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Biology, Forestry; biomass yield; carbon storage; growth pattern; poplar; short-rotation coppices; seasonal trends
Online: 3 May 2018 (11:10:21 CEST)
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It is required to manage sustainable Short-Rotation Coppices (SRCs) as an important role on carbon sink and bioenergy output, because most of SRCs were established in reclaimed land in South Korea. However, during the last three years, growth pattern of the SRCs was remarkably changed with soil condition. This study aimed to identify the sustainability of SRCs on carbon storage, biomass and fuel pellet production, monitoring the neighboring vegetation of SRCs by land-use exchange, physiological change of poplar on seasonal trend, and to evaluate whether poplar is suitable for making wood pellets. The calculated biomass yield per area of poplar grown was 103.07 Mg per total area (55.6 ha), and volumes of carbon dioxide absorption was estimated to be 330 Mg CO2. Wood pellet quality based on the criteria scored third grade, indicating that poplar is suitable for manufacturing fuel pellets. Moreover, monitoring of the flora distribution in SRCs revealed changes in species composition. As halophyte was increased during drought, soil organic matter, net growth and total chlorophyll of poplar were significantly decreased. These findings indicated that photosynthesis and growth pattern of SRCs may be negatively affected by microclimate and will provide valuable information for effective management of SRCs.
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Biology, Agricultural Sciences & Agronomy; low fat; salt reduction; meat product; sensory; beef
Online: 3 May 2018 (09:46:55 CEST)
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The consumer’s acceptability of hamburgers elaborated with the flank of culling cows in which the content of salt or fat had been partially replaced was studied. A mixture of potassium chloride, potassium ferrocyanide and sodium ferrocyanide was used as substitutes for the salt. Oat flakes or a mixture of chia and flax seeds were used as substitutes for the fat. The hamburgers were tasted by 34 consumers. Consumers did not detect significant differences between the control and the rest of the formulations. Neither the gender nor the age of the consumers influenced the sensory appraisal. However, many comments regarding texture failures were recorded. Therefore, the substitution of salt and / or fat in the composition of hamburgers made with the flank of cows is a viable alternative for the commercialization of these pieces of low commercial value as long as the texture of the same is adjusted to resemble it to the control.
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Biology, Forestry; forest certification; market segmentation; cluster analysis; motivation schemes
Online: 3 May 2018 (09:21:17 CEST)
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Forest certification is considered a viable market-based policy instrument to promote forest sustainability. It has an important role of play in meeting the objective of modern forestry development in China, which is to sustain ecological and environmental benefits of forests. To understand differences in attitudes, opinions, and interests in forest certification, this study segmented respondents of a landowner’s survey in Shandong, China based on their level of interest in participating in forest certification under different program requirements. Multivariate cluster analysis revealed three distinct groups: likely-, potential-, and unlikely-landowners. We further examined the heterogeneity of these groups in terms of their demographics, ownership characteristics, management objectives, and perceived benefits and challenges with adopting forest certification. The results suggested the necessity of differentiating landowners in formulating and designing specific motivation-based incentives and tailor outreach efforts and communication strategies to improve their interests in forest certification. Findings are useful and interesting to forest policymakers interested in promoting forest certification among landowners in China and other countries facing similar circumstances.
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Biology, Ecology; Chamaecyparis forest; humic substances, 31P nuclear magnetic resonance spectroscopy (31P NMR); P species; topography
Online: 2 May 2018 (17:07:44 CEST)
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The productivity of forests is often considered to be limited by the availability of phosphorus (P). Knowledge of the role of organic and inorganic P in humid subtropical forest soils is lacking. In this study, we used chemical fractionation and 31P nuclear magnetic resonance (NMR) spectroscopy to characterize the form of P and its distribution in undisturbed perhumid Chamaecyparis forest soils. The toposequence of transects was investigated for the humic layer from summit to footslope and lakeshore. The clay layer combined with a placic-like horizon in the subsoil may affect the distribution of soil P because both total P and organic P (Po) contents in all studied soils decreased with soil depth. In addition, Po content was negatively correlated with soil crystalline Fe oxide content, whereas inorganic P (Pi) content was positively correlated with soil crystalline Fe oxide content and slightly increased with soil depth. Thus, Pi may be mostly adsorbed by soil crystalline Fe oxides in the soils. Among all extractable P fractions, the NaOH-Po fraction appeared to be the major component, followed by NaHCO3-Po; the resin-P and HCl-Pi fractions were lowest. In addition, we found no typical trend for Pi and Po contents in soils with topographical change among the three sites. From the 31P-NMR spectra, the dominant Po form in soils from all study sites was monoesters with similar spectra. The 31P-NMR findings were basically consistent with those from chemical extraction. Soil formation processes may be the critical factor affecting the distribution of soil P. High precipitation and year-round high humidity may be important in the differentiation of the P species in this landscape.
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Biology, Other; oncolytic virus; in situ autovaccination; cytokine; immune checkpoint inhibitor; immune co-stimulator
Online: 27 April 2018 (09:18:37 CEST)
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With the progress of immunotherapy in cancer, oncolytic viruses (OVs) are getting more and more attention during the past decade. Due to their cancer-selective and immunogenic property, OVs are considered ideal candidates to be combined with immunotherapy to increase both specificity and efficacy in cancer treatment. OVs preferentially replicate in and lyse cancer cells, generating pathogen-associated molecular patterns (PAMPs) and danger (damage)-associated molecular patterns (DAMPs). These signals trigger innate immune response to modulate the solid tumor microenvironment, resulting in in situ autovaccination leading to adaptive anti-virus and anti-tumor immunity. Here, we summarize the conceptual updates of oncolytic virotherapy, immunotherapy, and the strategies to enhance the virus-mediated anti-tumor immune response, including: 1. Arm OVs with cytokines to modulated innate and adaptive immunity; 2. Combine OVs with immune checkpoint inhibitors to release T cell inhibition; 3. Combine OVs with immune co-stimulators to enhance T cell activation.
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Biology, Ecology; nonylphenol; montmorillonite; zebrafish; enrichment; enzyme activity
Online: 26 April 2018 (05:48:32 CEST)
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To investigate the effect of montmorillonite on nonylphenol enrichment in a zebrafish model. The AB strain zebrafish were used as the animal subjects and three concentration gradients were set for both nonylphenol and montmorillonite, according to their actual concentrations in aquaculture water in Huzhou city. A group treated with nonylphenol alone was also set, adding up to 12 experimental groups. Concentrations of nonylphenol enriched in the liver, muscle, and gill of zebrafish were detected by solid phase microextraction–high performance liquid chromatography at Day 7, 15, and 30, respectively. Besides, the relative enzymatic activity of Superoxide dismutase (SOD) and the Glutathione S-transferase (GST) were also been detected, and the data were statistically analyzed. The results showed that the concentrations of nonylphenol in zebrafish peaked at Day 7 and gradually decreased afterwards for all the experimental groups. And the montmorillonite reduces short-term accumulation of nonylphenol in gills, and the high concentration of nonylphenol facilitates its enrichment in liver and muscle while the low concentration of nonylphenol doesn’t. Meanwhile, the low concentration of nonylphenol in liver exerts an influence on the inductive effect of SOD and GST while the high concentration of nonylphenol shows the inhibiting effect of SOD and GST.
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Biology, Plant Sciences; epigenomics, hordeum vulgare, leaf, root, tissue-specific methylation, developmental epigenomics
Online: 25 April 2018 (16:53:56 CEST)
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The barley (Hordeum vulgare) genome comprises over 32,000 genes, with differentiated cells expressing only a subset of genes; the remainder being silent. Mechanisms by which tissue-specific genes are regulated are not entirely understood, although DNA methylation is likely to be involved. DNA methylation patterns are not static during plant development, but it is still unclear whether different organs possess distinct methylation profiles. Methylation-sensitive GBS was used to generate DNA methylation profiles for roots, leaf-blades and leaf-sheaths from five barley varieties, using seedlings at the three-leaf stage. Differentially Methylated Markers (DMMs) were characterised by pairwise comparisons of roots, leaf-blades and leaf-sheaths of three different ages. While very many DMMs were found between roots and leaf parts, only a few existed between leaf-blades and leaf-sheaths, with differences decreasing with leaf rank. Organ-specific DMMs appeared to target mainly repeat regions, implying that organ differentiation partially relies on the spreading of DNA methylation from repeats to promoters of adjacent genes. Furthermore, the biological functions of differentially methylated genes in the different organs correlated with functional specialisation. Our results indicate that different organs do possess diagnostic methylation profiles and suggest that DNA methylation is important for both tissue development and differentiation and organ function.
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Biology, Horticulture; DNA markers; edible mushroom; genome stability; protoplast regeneration
Online: 25 April 2018 (08:26:25 CEST)
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A total of five protoclones were successfully cultured on PDA medium out of regenerated twenty two colonies of Termitomyces protoplast and further studied. Liquid MYG grown mycelial tissue is used for protoplast isolation by enzymatic digestionin a mixture containing Lysing enzyme 2% and Cellulase R10 2% in 0.6 M mannitol. The incubation conditions like temperature, shaking and time were standardized at 24ºC, 60 rpm and 10 hours, respectively for healthy protoplasts liberation. The purified protoplasts showed an average yield of 1.2 × 107 cells/gm tissue with 31.60 ± 9.31% regeneration efficiency on specific medium and 77.12 ± 2.72% viability by FDA test. Four ISSR primers were used in this study resulting a total of 27 reproducible bands with mean value of 6.75. They showed similar banding pattern in all the lines with zero percent polymorphism ranged from 280 bp–2700 bp. The amplified rRNA-ITS gene showed ~600 bp size in gel and found a single restriction site for enzyme HaeIII in all the protoclones and parent with similar fragment size in all.
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Valentina Monistero,
Hans Ulrich Graber,
Claudia Pollera,
Paola Cremonesi,
Bianca Castiglioni,
Enriqueta Bottini,
Alejandro Ceballos-Marquez,
Laura Lasso-Rojas,
Volker Kroemker,
Nicole Wente,
Inge-Marie Petzer,
Carlos Santisteban,
Jeff Runyan,
Marcos Veiga Santos,
Bruna Gomes Alves,
Renata Piccinini,
Valerio Bronzo,
Mohamed Salah Abbassi,
Meriam Ben Said,
Paolo Moroni
Biology, Animal Sciences & Zoology; mastitis; dairy cow; S. aureus; genotypes; virulence genes
Online: 25 April 2018 (08:04:51 CEST)
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Staphylococcus aureus (S. aureus) is recognized worldwide as one of the major agents of dairy cow intra-mammary infections. This microorganism can express a wide spectrum of pathogenic factors used to attach, colonize, invade and infect the host. The present study evaluated 120 isolates from eight different countries that were genotyped by RS-PCR and investigated for 26 different virulence factors to increase the knowledge on the circulating genetic lineages among the cow population with mastitis. New genotypes were observed for South African strains while for all the other countries new variants of existing genotypes were detected. For each country, a specific genotypic pattern was found. Among the virulence factors, fmtB, cna, clfA and leucocidins genes were the most frequent. The sea and sei genes were present in seven out of eight countries; seh showed high frequency in South American countries (Brazil, Colombia, Argentina), while sel was harboured especially in one Mediterranean country (Tunisia). The etb, seb and see genes were not detected in any of the isolates, while only two isolates were MRSA (Germany and Italy) confirming the low diffusion of methicillin resistance microorganism among bovine mastitis isolates. This work demonstrated the wide variety of S. aureus genotypes found in dairy cattle worldwide. This condition suggests that considering the region of interest might help to formulate strategies for reducing the infection spreading.
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Biology, Physiology; obesity; plant secondary compound; Clinacanthus nutans; gene expression
Online: 24 April 2018 (10:04:11 CEST)
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Obesity is a universal health concern that can lead to serious diseases. The side effects of synthetic anti-obesity drugs necessitate the finding of suitable natural/herbal alternatives. Mother nature offers a wide range of plants with medicinal properties that include crude extracts and isolated compounds which are effective for controlling and reducing weight gain. Obesity was induced in 60, 3-week-old male ICR mice, using high-fat diet (60% dietary energy from fat) for 16-week. The mice were divided at random into six groups with 10 mice: mice fed with high-fat diet (HFD) only, mice fed normal diet only (NC), and orlistat at 15.9 mg/kg (HFD+Orlistat), and mice in three other high-fat diet groups treated with methanolic leaf extract of Clinacanthus nutans (MECN) at 500, 1000 and 1500 mg/kg. After 21-day of the treatment, MECN significantly reduced (P<0.05) the body weight, visceral fat and muscle saturated fatty acid compositions. There was also significant downregulation of HSL, PPAR α and PPAR γ and SCD genes expressions in the obese mice treated with 1500 mg/kg MECN compared to the HFD group. Therefore, MECN is a potentially useful natural supplement for alleviating obesity and obesity-mediated metabolic diseases.
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Biology, Ecology; wilderness study areas; light pollution; noise pollution; wildness; protected areas
Online: 24 April 2018 (06:25:12 CEST)
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Wildlands are increasingly lost to human development. Conservation scientists repeatedly call for protecting the remaining wildlands and expanding the land area protected in reserves. Despite these calls, conservation reserves can be eliminated through legislation that demotes their conservation status. For example, legislation introduced to the Congress of the United States recently would demote 29 Wilderness Study Areas (WSAs) from the protections afforded by their existing status. The legislation suggests that the 29 areas are not suitable for a promotion and future inclusion in the National Wilderness Preservation System based on decades-old local evaluations. Local evaluations, notwithstanding, it may be important to consider the value of lands from a national perspective. Without a national perspective, local evaluations alone may overlook the national significance of lands. With this in mind, I used five qualities of wildland value (wildness, light pollution, noise pollution, intactness of mammals, and intactness mammal carnivores of conservation concern) to compare the 29 WSAs to all national parks and wilderness areas located within the contiguous United States. The pool of 29 WSAs were similar to the pool of national parks and wilderness with respect to the five qualities assessed, and some of the WSAs were characterized by higher values than most of national parks and wilderness areas. This analysis demonstrates the national significance of the WSAs targeted for conservation status demotion. Such an approach could be used in future land management legislation and planning to ensure that a national perspective on conservation value is brought to bear on decisions facing federally-managed lands.
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Biology, Other; maximum entropy production; mass action kinetics; statistical thermodynamics; metabolism
Online: 23 April 2018 (10:53:06 CEST)
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We report the application of a recently proposed approach for modeling biological systems using a maximum entropy production rate principle in lieu of having in vivo rate constants. The method is applied in four steps: (1) a new ODE-based optimization approach based on Marcelin’s 1910 mass action equation is used to obtain the maximum entropy distribution, (2) the predicted metabolite concentrations are compared to those generally expected from experiment using a loss function from which post-translational regulation of enzymes is inferred, (3) the system is re-optimized with the inferred regulation from which rate constants are determined from the metabolite concentrations and reaction fluxes, and finally (4) a full ODE-based, mass action simulation with rate parameters and allosteric regulation is obtained. From the last step, the power characteristics and resistance of each reaction can be determined. The method is applied to the central metabolism of Neurospora crassa and the flow of material through the three competing pathways of upper glycolysis, the non-oxidative pentose phosphate pathway, and the oxidative pentose phosphate pathway are evaluated as a function of the NADP/NADPH ratio. It is predicted that regulation of phosphofructokinase (PFK) and flow through the pentose phosphate pathway are essential for preventing an extreme level of fructose 1, 6-bisphophate accumulation. Such an extreme level of fructose 1,6-bisphophate would otherwise result in a glassy cytoplasm with limited diffusion, dramatically decreasing the entropy and energy production rate and, consequently, biological competitiveness.
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Biology, Other; Fitness, Natural selection
Online: 20 April 2018 (14:51:02 CEST)
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A review of the concept of "fitness" as it is used in evolutionary theory.
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Biology, Plant Sciences; gas exchange; leaf canopy temperature; life forms; thermography; woody vines
Online: 20 April 2018 (11:55:08 CEST)
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Leaf temperature (Tleaf) influences photosynthesis and respiration. Currently, there is a growing interest on including lianas in productivity models due to their increasing abundance, and their detrimental effects on net primary productivity in tropical environments. Therefore, understanding the differences of Tleaf between lianas and trees is important for future of forest on whole ecosystem productivity. Here we determined the displayed leaf temperature (Td= Tleaf – ambient temperature) of several species of lianas and their host trees during ENSO and non-ENSO years to evaluate if the presence of lianas affects the Td of their host trees, and if leaves of lianas and their host trees exhibit differences in Td. Our results suggest that close to midday, the presence of lianas does not affect the Td of their host trees; however, lianas tend to have higher values of Td than their hosts across seasons, in both ENSO and non-ENSO years. Although lianas and trees tend to have similar physiological-temperature responses, differences in Td could lead to significant differences in rates of photosynthesis and respiration based temperature response curves. Future models should thus consider differences in leaf temperature between these life forms to achieve robust predictions of productivity.
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Biology, Anatomy & Morphology; molecular profile; extracellular matrix; osmotic pressure; depth articular cartilage; spheroidal organoid; cartilage regeneration
Online: 18 April 2018 (08:48:06 CEST)
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Articular chondrocytes are surrounded by chondroitin sulfate proteoglycan, which attracts an abundant volume of interstitial water. The articular cartilage is compressed with joint-loading and weight-bearing stresses, followed by a bulging of the tissue during times of off-loading. Thus, osmotic pressure in articular cartilage is higher than in other tissues due to the fixed charged density and altered between loading and off-loading due to change in water content. Another unique characteristic of the articular cartilage is that it has longitudinal depth: surface, middle, and deep zones. Since each zone composes unique components of extracellular matrices, each zone has a various level of the osmotic pressure. It was unclear how changes in osmotic pressure affected chondrocyte homeostasis and matrix accumulation in specific longitudinal zone. We hypothesized that change in extrinsic osmotic pressure alters metabolic functions and histogenesis of extracellular matrix by zone-specific chondrocytes. We compared the gene expression of matrix related typical anabolic and catabolic molecules produced by zone specific articular chondrocytes and the immunohistology of these corresponding genes. Since the newly synthesized matrix needed a space to accumulate, we used a chondrocyte-spheroid model formed by longitudinal depth zone-derived cells and altered extrinsic osmotic pressure by changing media containing different osmotic pressures. Anabolic molecules upregulated continuously at high osmotic pressure and transiently by switching back the osmotic pressure from high to low. Each zone derived chondrocytes showed zone specific level of the gene expression. The spheroids once exposed to the high osmotic pressure accumulated extracellular matrices with empty spaces.
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Biology, Ecology; multilevel factors; sit-and-wait foraging; active foraging
Online: 12 April 2018 (06:19:14 CEST)
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Pheidole oxyops Forel, 1908 is a generalist ant, which forages actively for plant debris to dead arthropods. In addition, its nest has an entrance that allows the ants gather resources passively by capturing falling preys into the nest. Our objective was to verify if different day periods, temperature and residual soil accumulation (ground pile in the side of nest entrance) could influence the patterns of foraging activity. Foraging activities were registered in the morning, afternoon and twilight. We measured direction and vector of trails, air temperature and humidity during foraging events. Our results showed that foraging routes are independent of residual soil accumulation and other nearby nests. However, air temperature and the time daily period are significant factors to foragers’ exits. Higher air temperatures influenced negatively the exits. In the period of the afternoon, the ants do not show any preference for routes, different from the morning and twilight. In addition, foraging activities were significantly more frequent during twilight period. Leaving the nest at twilight could allow ants foraging in an environment with less exposition to potential predators and competitors. Moreover, it may be also related to opportunism to hunt other nocturnal insects.
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Biology, Ecology; species richness; latitudinal gradients; water-energy; habitat; animal richness
Online: 11 April 2018 (11:24:46 CEST)
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Species data of 249 National Nature Reserves in China was used to identify potential underlying drivers of latitudinal gradients in plant diversity. We used generalized linear models (GLMs) to assess the correlations between predictor and response variables. We also used SAM (Spatial Analysis in Macroecology) to eliminate autocorrelation along each of the 249 studied locations. We used the Akaike information criterion (AICc; Montoya et al. 2007) to select the independent variables were those included in the best models from different combinations of climate, habitat and animal variables. Variance partitioning was used to decompose the variation in plant richness across different taxonomic levels among the three groups of predictors. We found that: Total plant species, gymnosperms, angiosperms and ferns showed significant latitudinal trends in richness (p < 0.001). Water-energy and habitat variables generally explained more variation in richness across different plant groups than did animal richness. Annual precipitation was selected as the best water-energy variable across different taxonomic plants groups, soil PH and elevation range were selected as the best habitat variables across different taxonomic plant groups. The independent effects of habitatvariables were higher than that of water-energy and animal variables across different taxonomic plants groups. Water-energy, habitat heterogeneity, and animal variables explain 48.8% of the variation in total species richness, 28.2% in gymnosperm richness, 44.2% in angiosperm richness, and 38.9% in fern richness.Plants showed significant latitudinal trends in richness (p < 0.001). Water-energy and habitat variables generally explained more variation in richness across different taxonomic plants groups than did animal variables. The independent effects of habitat variables were higher than those of water-energy and animal variables across different taxonomic plants groups.
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Biology, Plant Sciences; bacterial artificial chromosomes; RNAseq; genetic map; transposable element; gene density
Online: 10 April 2018 (10:49:41 CEST)
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Many dioecious plants have sex chromosomes that are cytologically heteromorphic, but about half of species lack cytological differences between males and females and are thus homomorphic. Very little is known about the size and content of the non-recombining sex-determining region (SDR) in these species. Here, we assess the size and content of the SDR of the diploid dioecious herb Mercurialis annua, which has homomorphic sex chromosomes and shows signatures of mild Y-chromosome degeneration. We used RNAseq to identify new Y-linked markers for M. annua. Twelve of 24 transcripts with male-specific and male-biased expression could only be PCR-amplified from males and are thus Y-linked. We found a further six Y-linked sequences that were present in males but not females using genome capture data from multiple populations. We used the Y-linked sequences to identify and sequence 17 sex-linked bacterial artificial chromosomes (BACs), which form 11 groups of non-overlapping sequence, covering a total sequence length of about 1.5 Mb. Content analysis of this region suggests it is enriched for repeats, has a low gene density and contains few candidate sex-determining genes. The BACs map to a subset of the sex-linked region of the genetic map, which is estimated to be at least 14.5 Mb. This is substantially larger than estimates for other dioecious plants with homomorphic sex chromosomes, especially given the small genome size of M. annua. Our data provide a rare, high-resolution view of the homomorphic Y chromosome of a dioecious plant.
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Biology, Agricultural Sciences & Agronomy; conservation agriculture; soil greenhouse gas (GHG) fluxes; soil tillage
Online: 10 April 2018 (10:02:25 CEST)
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Conservation Agriculture (CA) alters soil properties and microbial processes compared to conventional agriculture. These changes can affect soil-atmosphere greenhouse gas (GHG) fluxes. In this overview, we summarized the results of global literature and the gaps in measuring and understanding of GHG fluxes in CA systems and conventional agriculture. Some studies compared soil carbon sequestration and soil respiration in conservation agriculture and no-tillage system with conventional agriculture and the results were not consistent in all experiments. Interactions between CA pillars and soil factors such as soil moisture, temperature, texture can determine the rate of respiration rate and soil-atmosphere CO2 fluxes. The majority of studies reported larger N2O emissions in no-tillage treatment compared with conventional tillage while some other studies reported no difference between no-tillage and conventional tillage systems. In the majority of CA studies, there is lack of required information which is necessary to understand the mechanisms and processes that affect soil GHG fluxes. Determining factors like climate, amount of plant residues, soil type, crop types included in crop rotation and cover crops and duration of the study are not considered. Static chamber method was used for measuring soil-atmosphere GHG fluxes in the majority of studies. Spatial and temporal changes in GHG flux rates are high and missing part of highly episodic events by using static chamber method may result over- or under-estimation in flux balance calculation. Applying standard techniques for measuring continuous fluxes can help to calculating accurate GHG balance.
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Saeed Karbin,
Hossein Ali Alikhani,
Pramod Sahu,
Bharat Mogare,
Bhaskar Mitra,
Sandeep Viswakarma,
Jitendra Singh,
RamKrishna Mahajan,
Sunil Malviya,
Pankaj Badole,
Naveen Patidar,
Amir Kassam
Biology, Agricultural Sciences & Agronomy; conservation agriculture; greenhouse gases; soil health
Online: 10 April 2018 (06:30:15 CEST)
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Conservation Agriculture (CA) is capable of improving soil health and ecosystem functions. Soil carbon sequestration is one of the ecosystem processes that is of importance in sustainable land management involving reduction in greenhouse gas emissions and adaptation to climate change. In this study, we wanted to determine, during the first year of the process of establishing a CA cropping system in rain-fed areas in Madhya Pradesh state of India, which soil health indicators show measurable signs of improvement. Four field trials were selected, each comprising two neighboring plots. One plot (15×15 m) was managed conventionally under farmer practice and was tilled before sowing seeds, and in the adjacent plot Conservation Agriculture practices were applied. No mineral fertilizers or pesticides were applied in both treatments. Soil health indicators of soil aggregate stability, soil-atmosphere CO2 fluxes, water infiltration, soil moisture, potentially mineralizable nitrogen, soil organic content and bulk density were measured. Results demonstrate that soil CO2 emissions in CA soils decreased and soil aggregates stability improved in the first year. Generally, in CA soils, there were measurable improvements in all soil health indicators but only some of them were statistically significant.
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Biology, Plant Sciences; Hippophae rhamnoides L.; dioecious; sex determination; RAPD; SCAR
Online: 9 April 2018 (10:48:47 CEST)
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The dioecious property of sea buckthorn (Hippophae rhamnoides L.) prevents sex recognition via traditional observation at the juvenile stage, thus impeding breeding and economic cropping; RAPD and SCAR markers were used to identify the sexes. A total of 45 random decamer primers were used to screen genomic DNA pools of staminate and pistillate genotypes for genetic polymorphisms. One female sex-linked marker was identified. D15 (5′-CATCCGTGCT-3′) amplified a particular band of 885 bp, which showed polymorphism among staminate and pistillate genotype plants. The SCAR marker Hrcx-15 was obtained by sequencing the fragment. The alleles of 140 pistillate genotypes were examined but not of the 140 staminate genotypes discerned via taxonomy. Staminate and pistillate genotypes of sea buckthorn plants can be distinguished, using Hrcx-15 as a genetic marker for sex identification and for expediting cultivation for commercial applications.
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Biology, Plant Sciences; Clematis; chloroplast genome; rearrangement; inversion; IR expansion; synonymous substitution rate
Online: 9 April 2018 (10:34:28 CEST)
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Genus Clematis is one of the largest within Ranunculaceae. Here we report the chloroplast genome of two Clematis species, C. brachyura and C. trichotoma endemic to Korea. The chloroplast genome lengths of C. brachyura and C. trichotoma are 159,532 bp and 159,170 bp, respectively. Gene contents in the complete chloroplast genomes of these two Clematis species are identical to that of most Ranunculaceae and other angiosperms. However, our data results demonstrated that genus Clematis has inversion and rearrangement events concerning gene rps4 gene, rps16 to trnH region, and trnL to ndhC region, and IR regions expansion. Comparison of IR regions among Ranunculaceae species revealed that Clematis species contained six protein coding genes (infA, rps8, rpl14, rpl16, rps3, and rpl22) usually found in the long single copy (LSC) region of other species. Phylogenetic analysis demonstrated that genus Clematis is closely related to genus Ranunculus. Differences in repeat structure, substitution rates, and IR expansion in genera Clematis and Ranunculus, explained their relationship. Clematis species showed slightly higher tandem repeats content than Ranunculus species. The six protein-coding genes showed lower synonymous substitution rates in the IR of Clematis species than in the LSC of Ranunculus species. Overall, the chloroplast genomes and results presented here provide important information on the evolution of Ranunculaceae.
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Biology, Entomology; immune response; lectin; Mirabilis jalapa; phagocytic activity; phenoloxidase; Spodoptera litura
Online: 8 April 2018 (09:39:35 CEST)
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Biological control provides a safer alternative to reduce the population of agricultural pest. Mirabilis jalapa is one of biopesticides containing chemical substances that have a feeding deterrent property against Spodoptera litura as folifagus insect pest. This study aimed to analyze the humoral and cellular immunes responses of S. litura after exposure to biopesticide extracted from M. jalapa. The measured indicator immune responses were activity of hemocyte, lectin, phenoloxidase (PO), and phagocytic activity. The results showed that the average total hemocyte was different significantly depending on the treatment. Exposure to 0.1% and 0.2% (w/v) of M. jalapa extract increased the total number of hemocytes as much as 38.08% and 64.15%, respectively. Lectin was quickly formed at 0.1% and 0.2% (w/v) concentrations. The amount of PO enzymes was significantly different at sublethal concentrations compared with control samples (P < 0.05). The highest increase in PO activity occurred at 2 h post-treatment and at M. jalapa extract concentrations of 0.2% (592.33 IU/mg) and 0.1% (521.33 IU/mg), whereas the highest concentration of the extract (0.8% w/v) caused a decrease in lectin and PO activities. In terms of phagocytic activity, the proportion of phagocytosis cells were 47.62% in control group, and decreased significanlty in both concentrations exposure.
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Biology, Animal Sciences & Zoology; Mongolian oak cups; ethanol crude extract (ECE); ellagic acid- and kaempferol-derivatives; alloxan-induced rats; type 1 diabetes; hypoglycemic effect
Online: 8 April 2018 (08:45:39 CEST)
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Our previous in vitro reports showed that crude extract prepared with 50% ethanol (ethanol crude extract, ECE) from Mongolian oak cups possessed excellent antioxidant capacities as well as inhibitory activities against α-glucosidase, α-amylase and protein glycation caused by its enrichment in phenolics, including mainly ellagic acid, kaempferol and their derivatives. Nevertheless, few in vivo studies on antidiabetic activities of these phenolics were conducted. The present study investigated hypoglycemic effects with normal and diabetic rats being administrated orally without or with ECE at 200 and 800 mg/kg for 15 days. In normal rats, no significant differences were exhibited after ECE administration in body weight, fasting blood glucose level, levels of chelesterol, triglyceride, LDL and AST in serum, organ indexes, and levels of GSH and MDA in organs. In diabetic rats, the fasting blood glucose level, indexes of heart and liver, and levels of chelesterol and triglyceride in serum and MDA in heart tissue were significantly decreased. Moreover, HDL levels in serum and SOD activities in the four organs of diabetic rats were significantly improved after ECE administration at 800 mg/kg. Thus, in addition to inhibiting α-glucosidase, α-amylase and protein glycation reported previously, oak cups might contain novel dietary phytonutrients in preventing abnormal changes in blood glucose and lipid profile and attenuating oxidant stress in vivo. The results also implied that it is ellagic acid, kaempferol and their derivatives enriched in ECE that might play vital roles in managing type 1 as well as type 2 diabetes.
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Biology, Other; BLAST; DNA, open source; phylogenetics; R; sequence orthology.
Online: 4 April 2018 (06:00:40 CEST)
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The exceptional increase in molecular DNA sequence data in open repositories is mirrored by an ever-growing interest among evolutionary biologists to harvest and use those data for phylogenetic inference. Many quality issues, however, are known and the sheer amount and complexity of data available can pose considerable barriers to their usefulness. A key issue in this domain is the high frequency of sequence mislabelling encountered when searching for suitable sequences for phylogenetic analysis. These issues include the incorrect identification of sequenced species, non-standardised and ambiguous sequence annotation, and the inadvertent addition of paralogous sequences by users, among others. Taken together, these issues likely add considerable noise, error or bias to phylogenetic inference, a risk that is likely to increase with the size of phylogenies or the molecular datasets used to generate them. Here we present a software package, phylotaR, that bypasses the above issues by using instead an alignment search tool to identify orthologous sequences. Our package builds on the framework of its predecessor, PhyLoTa, by providing a modular pipeline for identifying overlapping sequence clusters using up-to-date GenBank data and providing new features, improvements and tools. We demonstrate our pipeline’s effectiveness by presenting trees generated from phylotaR clusters for two large taxonomic clades: palms and primates. Given the versatility of this package, we hope that it will become a standard tool for any research aiming to use GenBank data for phylogenetic analysis.
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Biology, Animal Sciences & Zoology; galectins; goats; periparturient
Online: 3 April 2018 (06:03:13 CEST)
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Galectins constitute an evolutionarily conserved family of β-galactoside-binding proteins. They regulate innate and adaptive immunity and homeostasis. Expression of Galectins may regulate periparturient immune suppression. Galectin gene expression was studied in goat blood during the periparturient period. Body weight, body condition and FAMACHA scores, and fecal and blood samples were collected from Five BoerXSpanish goats at 14 days and 7 days after parturition. Fecal samples were used to assess parasite load. Total RNA was isolated from blood using Trizol and converted to cDNA for real-time PCR using specific primers for goat LGALs-1, -2, -3, -4, -7, -8, -9, -11, -12, -14, -15, -16, and ligand Gal3bp, T-cell immunoglobulin domain, and mucin domain 3(TIM-3). Beta-actin and GAPDH housekeeping genes were used as internal controls. Fold changes in transcript abundance were compared to non-pregnant goats and calculated using the Livak method. Secretion of GALS-1, -3 and -9 in plasma was detected using ELISA. Data were analyzed using SAS 9.4 and Pearson correlations (p<0.05). Galectins were expressed and correlated to changes in leukocytes and fecal egg counts. Secreted GALS-1 decreased and GALS-3 and -9 increased (p<0.05) postpartum. Differential expression of Gal may have functional implications in animal health and homeostasis and needs further study.
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Biology, Other; thymidylate synthase (TYMS); dimer; octamer; biochemical reconstitution; overexpression and purification
Online: 2 April 2018 (09:37:29 CEST)
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Thymidylate synthase (TYMS) is an essential enzyme for the de novo synthesis of dTMP and has been a primary target for cancer chemotherapy. Although the physical structure of TYMS and the molecular mechanisms of TYMS catalyzing the conversion of dUMP to dTMP have been conducted thorough studies, oligomeric structure remains unclear. Here, we show that human TYMS not only exists in dimer but also octamer by intermolecular Cys43-disulfide formation. We optimize the expression condition of recombinant human TYMS using Escherichia coli system. Using HPLC-MS/MS, we show that purified TYMS has catalytic activity for producing dTMP. In the absence of reductant β-mercaptoethanol, SDS-PAGE and size exclusion chromatography (SEC) showed size of TYMS protein is about 35 KDa, 70 KDa, and 280 KDa. While the Cys43 was mutated to Gly, the band of ~280 KDa and the peak of octamer disappeared. Therefore, TYMS was determined to form octamer, dependent on the presence of Cys43-disulfide. By measuring Steady-State Parameters for monomer, dimer and octamer, we found the kcat of octamer is increased slightly than monomer. On the basis of these findings, we suggest that octamer in the active state might have a potential influence on the design of new drug targets.
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Biology, Animal Sciences & Zoology; feline immunodeficiency virus; FIV; human immunodeficiency virus; HIV; animal models, opportunistic disease, lentiviral pathogenesis; molecular biology
Online: 2 April 2018 (07:54:28 CEST)
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Feline immunodeficiency virus (FIV) is a naturally-occurring retrovirus that infects domestic and non-domestic feline species, producing progressive immune depletion that results in an acquired immunodeficiency syndrome (AIDS). Much has been learned about FIV since it was first described in 1987, particularly in regard to its application as a model to study the closely related lentivirus, human immunodeficiency virus (HIV). In particular, FIV and HIV share remarkable structure and sequence organization, utilize parallel modes of receptor-mediated entry, and result in a similar spectrum of immunodeficiency-related diseases due to analogous modes of immune dysfunction. This review summarizes current knowledge of FIV infection kinetics and mechanisms of immune dysfunction in relation to opportunistic disease, specifically in regard to studying HIV pathogenesis. Furthermore, we present data which highlight changes in the oral microbiota and oral immune system during FIV infection, and outline the potential for the feline model of oral AIDS manifestations to elucidate pathogenic mechanisms of HIV-induced oral disease. Finally, we discuss advances in molecular biology, vaccine development, neurologic dysfunction, and the ability to apply pharmacologic interventions and sophisticated imaging technologies to study experimental and naturally occurring FIV, which provide an excellent, but often overlooked resource for advancing therapies and management of HIV/AIDS.
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Biology, Plant Sciences; Idaeovirus; Blackcurrant leaf chlorosis associated virus; next-generation sequencing (NGS); bridge reads; abutting primers; RNase R digestion; circular RNA; concatenated RNA
Online: 30 March 2018 (11:40:46 CEST)
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Blackcurrant leaf chlorosis associated virus (BCLCaV) was detected recently by next-generation sequencing (NGS) and proposed as a new and distinct species in the genus Idaeovirus. Genomic components of BCLCaV that were detected and confirmed include: 1) RNA-1 that is monocistronic and encodes the replicase complex; 2) a bicistronic RNA-2 that encodes a movement protein (MP) and the coat protein (CP) of the virus, with open reading frames (ORF) that overlap by a single adenine (A) nucleotide (nt) representing the third position of an opal stop codon of the MP ORF2a and the first position of the start codon of the CP ORF2b; 3) a subgenomic form of RNA-2 (RNA-3) that contains ORF2b; and 4) a concatenated form of RNA-2 that consists of a complementary and inverted RNA-3 conjoined to the full-length RNA-2. Analysis of NGS-derived paired-end reads revealed the existence of bridge reads encompassing the 3’-terminus and 5’-terminus of RNA-2 or RNA-3 of BCLCaV. The full RNA-2 or RNA-3 could be amplified using outward facing or abutting primers; also RNA-2/RNA-3 could be detected even after three consecutive RNase R enzyme treatments with denaturation at 95 oC preceding each digestion. Evidence was obtained indicating that there are circular forms of BCLCaV RNA-2 and RNA-3.
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Biology, Physiology; TMEM16A, CLCA1, Cl- channels, Ca2+, Ca2+-activated Cl- channels, Epithelium
Online: 30 March 2018 (11:04:55 CEST)
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Calcium-activated chloride secretion in epithelial tissues described for many years. However, the molecular identity of the channel responsible for the Ca2+-activated Cl− secretion in epithelial tissues has remained a mystery. More recently, TMEM16A has been identified as a new putative Ca2 -activated Cl- channel (CaCC),. The primary goal of this article will be to review the characterization of TMEM16A, as it relates to the physical structure of the channel, as well as, important residues that confer voltage and Ca2+-sensitivity of the channel. This review will also discuss the role of TMEM16A in epithelial physiology and potential associated-pathophysiology. This will include discussion of developed knockout models that have provided much needed insight on the functional localization of TMEM16A in several epithelial tissues. Finally, this review will examine the implications of the identification of TMEM16A as it pertains to potential novel therapies in several pathologies.
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Biology, Entomology; Curculionidae; Cossoninae; Rhyncolini; Rhyncolina; taxonomy; new species; mature larva; morphology; host plant; Cape Verde; biogeography; microclimate; species competition
Online: 29 March 2018 (14:53:47 CEST)
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The genus Aphanommata in the Old World is reviewed. Aphanommata kuscheli sp. nov. from São Nicolau and A. strakai sp. nov. from Fogo (both Cape Verde islands) are described. Aphanommata euphorbiarum (Wollaston, 1867) from Santo Antão in the Cape Verde islands is redescribed and its lectotype is designated. All three Aphanommata species from the Cape Verde islands as well as A. filum (Mulsant & Rey, 1859) from Old World are diagnosed, illustrated, and keyed. Mature larva of A. kuscheli sp. nov. is described, larval morphology is discussed and the current state of knowledge about immature stages of Cossoninae is summarized. Vertical and inter-insular distributional pattern of Cape Verde Aphanommata and Pselactus is reviewed and discussed.
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Biology, Plant Sciences; Keywords: TMV, plant vaccine, génital herpes, HSV-2, gD, VP16, GFP, mouse model genital herpes
Online: 28 March 2018 (09:18:30 CEST)
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A B S T R A C T Genital herpes disease is caused mainly by herpes simplex virus type 2 (HSV-2), which is sexually transmitted with a high prevalence in both developed and developing countries. No vaccine is currently available against genital herpes. In this study, we introduced and expressed two genes encoding HSV-2 glycoprotein D (gD) and VP16 protein and a GFP marker gene (control) in tobacco seedlings. Positive plant infection was assessed through characteristic tobacco mosaic virus disease symptoms on leaves and by monitoring the fluorescence emitted by the expressed GFP protein. Expression of the HSV-gD2 and VP16 antigens was verified by RT-PCR, ELISA and Western blot. As a proof of concept, the immunogenicity and the protection ability of the plant produced gD antigen was tested in a mouse model of genital herpes and compared to gD antigen produced in a mammalian expression system. This showed that the plant-gD preparation, when used in combination with a CpG oligodeoxynucleotide as adjuvant, was highly immunogenic and capable of inducing complete immunity to lethal vaginal HSV-2 challenge in mice. Thus, the data presented here may have implications for the development of a production system for highly immunogenic plant-based HSV-2 vaccine antigens.
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Biology, Agricultural Sciences & Agronomy; wild chili pepper; domestication; seed germination; capsaicinoids content; halopriming; gibberellic acid
Online: 26 March 2018 (08:51:45 CEST)
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The effects of different priming techniques were evaluated to improve the dormancy and germination of wild seeds of “Piquín” chili pepper. Three experiments were designed for pre-sowing treatment of seeds: a) chemical seeds digestion; b) halopriming (with K+ or NH4+ of NO3-, SO42- or Cl-) at different priming times (24, 48 or 72 h) and osmotic potential (-5, -10 or -15 atm) and c) previously selected halopriming (KNO3 and NH4NO3) + Gibberellic acid (GA3, at 100 or 200 ppm) were tested. Digestion treatments did show a negative effect on seed germination. Recommended values of osmotic potential (Ψs), to improve Piquín chili seed germination, must be between -10 and -15 atm (-1.0 and -1.5 MPa) and the priming time must be between 48 and 72 hours. Priming techniques can considerably reduce Capsaicinoids content on seeds, improve dormancy, seed germination performance, and increase the rate and uniformity of seedling establishment. KNO3 and secondly GA3 treatments may improve rapid and uniform germination and seedling emergence. The results provide basic information to develop guidelines for commercial establishment of Piquín pepper crops.
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Biology, Ecology; above-ground carbon stock; below-ground carbon stock; soil nutrients; exclosure
Online: 26 March 2018 (08:17:48 CEST)
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Exclosures are used to regenerate native vegetation as a way to reduce soil erosion, increase rain water infiltration and provide fodder and woody biomass in degraded grazing lands. Therefore, this study assessed the impact of grazing exclosure on vegetation biomass, carbon sequestration and soil nutrients under five and ten years of grazing exclosures and freely grazed areas in Tigray, northern Ethiopia. Vegetation biomass, carbon stocks and soil nutrients increased with increasing grazing exclusion. However, open grazing lands and five years of grazing exclosure did not differ in aboveground biomass, above-and-belowground carbon stocks. Moreover, ten years of grazing exclosure had a higher (P<0.01) grass, herb and litter carbon stocks compared to five years exclosure and open grazing lands. The total carbon stock was higher for ten years exclosure (193.3 t C ha-1) than the five years exclosure (154.0 t C ha-1) and in open grazing areas (146.6 t C ha-1). Grazing lands closed for ten years had a higher SOC, organic matter, total N, available P, and exchangeable K+ and Na+ compared to five year’s exclosure and open grazing lands. Therefore, establishment of grazing exclosures had a positive effect in restoring degraded grazing lands, thus improving vegetation biomass, carbon sequestration potentials and soil nutrients under the changing climate and global warming.
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Biology, Anatomy & Morphology; Gilbertella persicaria; Pilobolus crystallinus; mucoralean fungi; phylogeny; morphology; undiscovered taxa
Online: 26 March 2018 (05:37:04 CEST)
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The order Mucorales, the largest in number of species within the Mucoromycotina, comprises typically fast-growing saprotrophic fungi. During a study of the fungal diversity of undiscovered taxa in Korea, two mucoralean strains, CNUFC-GWD3-9 and CNUFC-EGF1-4, were isolated from specific habitats including freshwater and fecal samples, respectively, in Korea. The strains were analyzed both for morphology and phylogeny based on the internal transcribed spacer (ITS) and large subunit (LSU) of 28S ribosomal DNA regions. On the basis of their morphological characteristics and sequence analyses, isolates CNUFC-GWD3-9 and CNUFC-EGF1-4 were confirmed to be Gilbertella persicaria and Pilobolus crystallinus, respectively.To the best of our knowledge, there are no published literature records of these two genera in Korea.
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Biology, Animal Sciences & Zoology; cyclophosphamide; cytoprotective; hepatotoxicity; hematotoxicity; Hypericum triquetrifolium turra.; myelotoxicity; rat
Online: 19 March 2018 (08:53:25 CET)
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The aim of this study was to investigate in-vitro antioxidant properties and in-vivo protective effects of different concentrations of Hypericum triquetrifolium Turra. (HT) seed methanol extracts against acute hepatotoxicity, myelotoxicity and hematotoxicity in rats exposed to overdose of cyclophosphamide (CP). HT seed methanol extracts were tested in view of its in-vitro antioxidant activities as total phenolic contents and DPPH free radical-scavenging activity. To investigate in-vivo protective effects of HT seed methanol extracts on rat tissues; tested animals were divided into nine groups. Three groups only were treated with HT extracts (25, 50 and 100 mg/kg HT) for 6 days. Three groups were pre-treated with the extract of HT (25, 50 and 100 mg/kg HT) for 6 days and on the last day they were injected with single dose of CP (150-mg/kg body weight). Two groups were used as control groups and one group was only treated with CP (150 mg/kg) on the 6th day. The toxic effects of CP and protective effects of HT extracts on the nucleated cells which were produced by bone marrow and serum alanine transaminase (ALT), alkaline phosphatase (ALP), lactate dehydrogenase (LDH), oxidative stress index (OSI) levels were investigated biochemically. Additionally, liver tissue samples were examined histopathologically. Our results show that HT seed methanol extract has high total phenolic content and antioxidant activity. Over dose CP administration caused hepatotoxicity, myelotoxicity and hematotoxicity on rat. Whereas, 25, 50 and 100 mg/kg HT plus CP administered groups showed significant protective effects on nucleated cells. And 25, 50, 100 mg/kg HT plus CP treated groups showed an important decrease on serum ALT, ALP, LDH and OSI levels when compared with CP treated group. Our results showed that the administration of different HT doses with high doses of CP significantly reduced hepatotoxicity, myelotoxicity and hematoxicity on rats.
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Biology, Physiology; syntrophic acetate oxidation; energy conservation; methane production; hydrogen production; anaerobic digestion process
Online: 19 March 2018 (07:23:17 CET)
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Syntrophic acetate oxidation operates close to the thermodynamic equilibrium and very little is known about the participating organisms and their metabolism. Clostridium ultunense is one of the most abundant syntrophic acetate-oxidising bacteria (SAOB) found in engineered biogas processes operating with high ammonia concentrations. It has been proven to oxidise acetate in cooperation with hydrogenotrophic methanogens. There is evidence that the Wood-Ljungdahl (WL) pathway plays an important role in acetate oxidation. In this study we analysed the physiological and metabolic capacities of C. ultunense on genome scale and conducted a comparative study of all known characterised SAOB, namely Syntrophaceticus schinkii, Thermacetogenium phaeum, Tepidanaerobacter acetatoxydans and Pseudothermotoga lettingae. The results clearly indicated physiological robustness beneficial for anaerobic digestion environments and revealed unexpected metabolic diversity with respect to acetate oxidation and energy conservation systems., Unlike S. schinkii and Th. phaeum, C. ultunense clearly does not employ the oxidative WL pathway for acetate oxidation, as its genome (and that of P. lettingae) lack important key genes. In both those species, a proton motive force is likely formed by chemical protons involving putative electron-bifurcating [Fe-Fe] hydrogenases rather than proton pumps. No genes encoding a respiratory Ech hydrogenase, as involved in energy conservation in Th. phaeum and S. schinkii, were identified in C. ultunense and P. lettingae. Moreover, two respiratory complexes sharing similarities to the proton-translocating ferredoxin:NAD+ oxidoreductase (Rnf) and the Na+ pumping NADH:quinone hydrogenase (NQR) were predicted. These might form a respiratory chain involved in reduction of electron acceptors other than protons. However, involvement of these complexes in acetate oxidation in C. ultunense and P. lettingae needs further study. This genome-based comparison provides a solid platform for future meta-proteomics and meta-transcriptomics studies and for metabolic engineering, control and monitoring of SAOB.
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Biology, Entomology; pesticides; native bee; persistency; biomonitoring
Online: 16 March 2018 (06:56:09 CET)
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In this paper we show the results of investigating the presence of organochlorine pesticides in honey and pollen samples from managed colonies of the honey bee, Apis mellifera L. and of the stingless bee Scaptotrigona Mexicana Guérin. We found that 88.44% and 93.33% of honey samples, and 22.22% and 100% of pollen samples of S. mexicana and A. mellifera, respectively, resulted positive to at least one organochlorine. The most abundant pesticides were DDE, DDT, Endrin and heptaclor. Despite the low foraging range of S. mexicana the number of pesticides detected in the honey samples was similar to that of A. mellifera. Paradoxically we a found a small number of organochlorines in pollen samples of S. mexicana, perhaps indicating a rapid turnover of this material as compared to A. mellifera.
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Biology, Other; Oryza sativa; genetic diversity; tidal swamp; breeding and conservation programs
Online: 15 March 2018 (06:50:32 CET)
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Tidal swamp rice has long been cultivated by the local people of the South Kalimantan, Indonesia. This germplasm possess some important traits for adapted to a wide range of abiotic and biotic stresses. In this study, a total of sixteen cultivars of this germplasm, consisting of fifteen of the South Kalimantan Province and one of Sumatera Island, Indonesia (an outgroup) were analyzed, phylogenetically based on the chloroplast trnL-F and nuclear intergenic spacer region (IGS). The results showed that this germplasm has a relatively more extraordinary genetic diversity than other local rice germplasm. In a nucleotide level, this germplasm showed a genetic diversity of 0.61 for nuclear IGS and 0.58 for trnL-F. The phylogenetic reconstruction also exhibited that this germplasm has the unique illustration of phylogenetic trees, particularly for the combined sequence datasets. Thus, the results of our study would provide useful information for further understanding of evolutionary relationships of this germplasm and facilitate the efficient utilization of valuable genes for genetic improvement, particularly in the tidal swamp areas.
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Biology, Physiology; high-intensity functional training; work capacity; performance
Online: 12 March 2018 (05:33:23 CET)
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High-Intensity Functional Training (HIFT) is a novel exercise intervention that may test body systems in a balanced and integrated fashion by challenging individuals’ abilities to complete mechanical work. However, research has not previously determined if physical work capacity is unique to traditional physiologic measures of fitness. Twenty-five healthy men and women completed a six-week HIFT intervention with physical work capacity and various physiologic measures of fitness assessed pre- and post-intervention. At baseline, these physiologic measures of fitness (e.g., aerobic capacity) were significantly associated with physical work capacity and this relationship was even stronger at post-intervention assessment. Further, there were significant improvements across these physiologic measures in response to the delivered intervention. However, the change in these physiologic measures failed to predict the change in physical work capacity induced via HIFT. These findings point to the potential utility of HIFT as a unique challenge to individuals’ physiology beyond traditional resistance or aerobic training. Elucidating the translational impact of increasing work capacity via HIFT may be of great interest to health and fitness practitioners ranging from strength/conditioning coaches to physical therapists.
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Biology, Entomology; Aedes aegypti; insecticide resistance; pyrethroid; permethrin; VGSC gene
Online: 9 March 2018 (05:27:12 CET)
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Aedes aegypti mosquito is a vector that could transmit various pathogens, such as viruses, bacteria, and parasites. Several human diseases transmitted by Ae. aegypti mosquito are dengue fever (DHF), Chikungunya, Yellow Fever and Zika. The occurance of resistance to various insecticides, including pyrethroid, is a current problem faced by various countries. In this research, a WHO bioassay test on Palembang and Jakarta Ae. aegypti was conducted using 0.25% permethrin pyrethroid insecticide. VGSC gene fragments associated with pyrethroid resistance (L982, S989, I1011, L1014, V1016 and F1534) of resistant and sensitive strains were amplified and analyzed. The test showed the presence of resistance in Ae. aegypti isolates from Palembang and Jakarta. From the results of VGSC gene fragment analyses, it was known that there were mutations (S989P and/or V1016G) on isolates from Palembang and (S989P and/or V1016G) on resistant isolates from Jakarta.
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Biology, Anatomy & Morphology; mouse node; Kupffer’s vesicle; primary cilium; asymmetry; symmetry breaking; bilateral symmetry; cell chirality; centriole; centrosome
Online: 6 March 2018 (04:57:46 CET)
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In zebrafish inner ear, hair cell orientation in anterior and posterior maculae of the embryonic otic vesicle is different (about 30–40 degrees): this is rather unusual in planar polarity mechanism of action, instead suggests that kinocilia may be rotationally polarized. In mice node, the innermost monociliated cells generate a left-ward fluid flow sensed by the immotile primary cilia of Left peri-nodal cells: the Nodal signaling pathway is then expressed asymmetrically, in the Left lateral plate mesoderm, breaking symmetry in visceral organs (situs solitus); however, Right peri-nodal cells also, if artificially excited by a right-ward flow, break symmetry and activate the Nodal cascade, though inverting visceral organ asymmetry (situs inversus); surprisingly, peri-nodal cells prove to be adept at distinguishing flow directionality. Recently, in the Kupffer vesicle (the zebrafish laterality organ), chiral primary cilia orientation has been described: primary cilia, in the left and right side, are symmetrically oriented, showing a mirror average divergence of about 15–20 degrees from the midline. This finding, taken together with the mirror behavior of mouse perinodal cells and zebrafish hair cells, champions the idea of primary cilia enantiomerism.
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Biology, Other; gene flow; sympatry; parapatry; simulation model; population genomics; Heliconius;coupling; nonlinear transitions
Online: 1 March 2018 (15:23:13 CET)
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During speciation-with-gene-flow, a transition from single-locus to multi-locus processes can occur, as strong coupling of multiple loci creates a barrier to gene flow. Testing predictions about such transitions with empirical data requires building upon past theoretical work and the continued development of quantitative approaches. We simulated genomes under different evolutionary scenarios of gene flow and divergent selection, extending previous work with the additions of neutral sites and coupling statistics, allowing us to investigate if and how selected and neutral sites differ in the conditions they require for transitions during speciation. As the per-locus strength of selection grew and/or migration decreased, it became easier for selected sites to show divergence – and thus to rise in linkage disequilibrium (LD) with each other as a statistical consequence – farther in advance of the conditions under which neutral sites could diverge. Indeed, even very low rates of gene flow were sufficient to prevent differentiation at neutral sites. However, once strong enough, coupling among selected sites eventually reduced gene flow at neutral sites as well. To explore whether similar transitions might be detectable in empirical data, we used published genome resequencing data from three taxa of Heliconius butterflies. We found that allele-frequency outliers and F ST outliers exhibited stronger patterns of LD than the genomic background, as expected. The statistical characteristics of LD – likely indicative of the strength of coupling of barrier loci – varied between chromosomes and taxonomic comparisons. Broad qualitative agreement between the patterns we observed in the empirical data and our simulations suggests that selection drives rapid genome-wide transitions to multi-locus coupling, illustrating how divergence and gene flow interact along the speciation continuum.
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Biology, Plant Sciences; color tests; thin layer chromatography; chemotaxonomy; secondary metabolites; solvent system
Online: 24 February 2018 (08:28:11 CET)
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Presence and identity of secondary metabolites are two of the main components of lichen taxonomy. Aromatic compounds formed via the acetyl-polymalonate pathway are the most studied lichen substances. In addition, compounds derived from the mevalonic acid pathway (e.g., terpenes and steroids) are sometimes detected in the medulla. However, their identity and value as diagnostic characters in the genus Usnea are yet poorly understood despite the fact that they were mentioned in several taxonomical papers. We conclude that i) aside from the previously recognized polyphenolic compounds, carbohydrates and steroids are also detected in the medulla of some Usnea species; ii) the use of sulfuric anisaldehyde reagent greatly improves the detection of terpenes, carbohydrates and steroids compared with the sulfuric acid reagent routinely used in thin layer chromatography; iii) among carbohydrates, we detected arabitol and sucrose in the medulla; iv) steroids and terpenes remain unidentified and deserve further investigations.
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Biology, Ecology; Pinus albicaulis; whitebark pine; blister rust; national park; subalpine; Cascades; mountain pine beetle
Online: 23 February 2018 (11:08:42 CET)
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Whitebark pine (Pinus albicaulis Engelm.) is a key component of subalpine and alpine ecosystems in the northern Cascades. The species survival is threatened by white pine blister rust, mountain pine beetles, fire exclusion, and climate change. Trees were monitored in permanent plots in two national parks three times between 2004 and 2016. The proportion of trees showing signs of blister rust infection increased in North Cascades National Park Service Complex from 32% in 2004 to 51% in 2016 and from 18% to 38% in Mount Rainier National Park. Mortality increased from 7% to 21% in North Cascades National Park Service Complex and 38% to 44% in Mount Rainier National Park. Annual mortality rates were calculated for three time periods: 2004-2009, 2009-2015/2016, and 2004-2015/2016. Mortality rates, annualized across the entire study period, were 1.47% in Mount Rainier National Park and 2.27% in North Cascades National Park Service Complex; these rates decreased between the first time period and the second, which could reflect blister rust resistance. Signs of mountain pine beetle were rare and limited to a few trees in individual plots. Although reproductive trees were found in most stands, densities were low and regeneration was dominated by subalpine fir.
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Biology, Other; myeloperoxidase, leukocytes, inflammation, oxidative stress, chronic diseases, disease biomarker
Online: 15 February 2018 (16:54:25 CET)
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Myeloperoxidase (MPO) belong to the family of heme containing peroxidases, produced mostly from polymorphonuclear neutrophils. The active enzyme (150 kD) is the product of MPO gene located on long arm of chromosome 17. The primary gene product undergoes several modifications like removal of introns and signal peptide and leads to the formation of enzymatically inactive glycosylated apoproMPO which complexes with chaperons, producing active proMPO by the insertion of heme moiety. The active enzyme is a homodimer of heavy and light chain protomers. This enzyme is released into extracellular fluid after oxidative stress and different inflammatory responses. MPO is the only type of peroxidase using H2O2 to oxidize several halides and pseudohalides to form different hypohalous acids. So the antibacterial activities of MPO involve the production of reactive oxygen and reactive nitrogen species. Controlled MPO release at the site of infection is of prime importance for its efficient activities. Any uncontrolled degranulation exaggerates the inflammation that can also lead to tissue damage even in absence of inflammation. Several types of tissue injuries and pathogenesis of several other major chronic diseases like rheumatoid arthritis, cardiovascular diseases, liver diseases, diabetes and cancer have been reported to be linked with myeloperoxidase derived oxidants. So the enhanced level of MPO activity is one of the best diagnostic tool of inflammatory and oxidative stress biomarkers among these commonly occurring diseases.