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https://www.readbyqxmd.com/read/28330250/deciphering-the-evolutionary-affiliations-among-bacterial-strains-pseudomonas-and-frankia-sp-inhabiting-same-ecological-niche-using-virtual-rflp-and-simulation-based-approaches
#1
Meenakshi Srivastava, Manish Singh Kaushik, Amrita Srivastava, Anumeha Singh, Ekta Verma, Arun Kumar Mishra
To decipher an evolutionary lineage between two different but important bacterial groups, i.e., Pseudomonas strain (γ-Proteobacteria) and Frankia strain (actinobacteria) growing in the same ecological niche in and around of an actinorhizal plant Hippophae salicifolia D. Don, genetic diversity and comparative molecular phylogeny have been investigated using 16S rRNA gene sequences and computer-simulated and virtually directed restriction fragment length polymorphism (RFLP) through 10 restriction enzymes. Bayesian and coalescent analyses on the basis of 16S rRNA gene sequences suggested three major groups with close proximity between Pseudomonas and Frankia isolates...
December 2016: 3 Biotech
https://www.readbyqxmd.com/read/28329141/frequent-spread-of-plasmodium-vivax-malaria-maintains-high-genetic-diversity-at-the-myanmar-china-border-without-distance-and-landscape-barriers
#2
Eugenia Lo, Nancy Lam, Elizabeth Hemming-Schroeder, Jennifer Nguyen, Guofa Zhou, Ming-Chieh Lee, Zhaoqing Yang, Liwang Cui, Guiyun Yan
Background.: In Myanmar, civil unrest and the establishment of internally displaced persons (IDP) settlements along the Myanmar-China border have impacted malaria transmission. Methods.: Microsatellite markers were used to examine source-sink dynamics for Plasmodium vivax between IDP and surrounding villages in the border region. Genotypic structure and diversity were compared across the three years following the establishment of IDP in order to infer demographic history...
March 3, 2017: Journal of Infectious Diseases
https://www.readbyqxmd.com/read/28327643/anthropogenic-shift-of-planktonic-food-web-structure-in-a-coastal-lagoon-by-freshwater-flow-regulation
#3
Deevesh A Hemraj, A Hossain, Qifeng Ye, Jian G Qin, Sophie C Leterme
Anthropogenic modification of aquatic systems has diverse impacts on food web interactions and ecosystem states. To reverse the adverse effects of modified freshwater flow, adequate management of discharge is required, especially due to higher water requirements and abstractions for human use. Here, we look at the effects of anthropogenically controlled freshwater flow regimes on the planktonic food web of a Ramsar listed coastal lagoon that is under recovery from degradation. Our results show shifts in water quality and plankton community interactions associated to changes in water flow...
March 22, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28327578/partial-support-for-the-central-marginal-hypothesis-within-a-population-reduced-genetic-diversity-but-not-increased-differentiation-at-the-range-edge-of-an-island-endemic-bird
#4
K M Langin, T S Sillett, W C Funk, S A Morrison, C K Ghalambor
Large-scale population comparisons have contributed to our understanding of the evolution of geographic range limits and species boundaries, as well as the conservation value of populations at range margins. The central-marginal hypothesis (CMH) predicts a decline in genetic diversity and an increase in genetic differentiation toward the periphery of species' ranges due to spatial variation in genetic drift and gene flow. Empirical studies on a diverse array of taxa have demonstrated support for the CMH. However, nearly all such studies come from widely distributed species, and have not considered if the same processes can be scaled down to single populations...
March 22, 2017: Heredity
https://www.readbyqxmd.com/read/28327527/emerging-interaction-patterns-in-the-emiliania-huxleyi-ehv-system
#5
Eliana Ruiz, Monique Oosterhof, Ruth-Anne Sandaa, Aud Larsen, António Pagarete
Viruses are thought to be fundamental in driving microbial diversity in the oceanic planktonic realm. That role and associated emerging infection patterns remain particularly elusive for eukaryotic phytoplankton and their viruses. Here we used a vast number of strains from the model system Emiliania huxleyi/Emiliania huxleyi Virus to quantify parameters such as growth rate (µ), resistance (R), and viral production (Vp) capacities. Algal and viral abundances were monitored by flow cytometry during 72-h incubation experiments...
March 22, 2017: Viruses
https://www.readbyqxmd.com/read/28325897/energy-use-and-carbon-footprints-differ-dramatically-for-diverse-wastewater-derived-carbonaceous-substrates-an-integrated-exploration-of-biokinetics-and-life-cycle-assessment
#6
Yanbo Li, Xu Wang, David Butler, Junxin Liu, Jiuhui Qu
Energy neutrality and reduction of carbon emissions are significant challenges to the enhanced sustainability of wastewater treatment plants (WWTPs). Harvesting energy from wastewater carbonaceous substrates can offset energy demands and enable net power generation; yet, there is limited research about how carbonaceous substrates influence energy and carbon implications of WWTPs with integrated energy recovery at systems-level. Consequently, this research uses biokinetics modelling and life cycle assessment philology to explore this notion, by tracing and assessing the quantitative flows of energy embodied or captured, and by exploring the carbon footprint throughout an energy-intensive activated sludge process with integrated energy recovery facilities...
March 21, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28325831/landscape-genomic-insights-into-the-historic-migration-of-mountain-hemlock-in-response-to-holocene-climate-change
#7
Jeremy S Johnson, Keith D Gaddis, David M Cairns, Kranti Konganti, Konstantin V Krutovsky
PREMISE OF THE STUDY: Untangling alternative historic dispersal pathways in long-lived tree species is critical to better understand how temperate tree species may respond to climatic change. However, disentangling these alternative pathways is often difficult. Emerging genomic technologies and landscape genetics techniques improve our ability to assess these pathways in natural systems. We address the question to what degree have microrefugial patches and long-distance dispersal been responsible for the colonization of mountain hemlock (Tsuga mertensiana) on the Alaskan Kenai Peninsula...
March 21, 2017: American Journal of Botany
https://www.readbyqxmd.com/read/28325295/aptamers-for-cd-antigens-from-cell-profiling-to-activity-modulation
#8
REVIEW
Amin Nozari, Maxim V Berezovski
Nucleic acid-based aptamers are considered to be a promising alternative to antibodies because of their strong and specific binding to diverse targets, fast and inexpensive chemical synthesis, and easy labeling with a fluorescent dye or therapeutic agent. Cluster of differentiation (CD) proteins are among the most popular antigens for aptamers on the cell surface. These anti-CD aptamers could be used in cell biology and biomedicine, from simple cell phenotyping by flow cytometry or fluorescent microscopy to diagnosis and treatment of HIV/AIDS to cancer and immune therapies...
March 17, 2017: Molecular Therapy. Nucleic Acids
https://www.readbyqxmd.com/read/28324630/morphological-and-neurochemical-differences-in-peptidergic-nerve-fibres-of-the-mouse-vagina
#9
Christine Barry, Esther Ji, Harman Sharma, Lara Beukes, Pat Vilimas, Yvette DeGraaf, Dusan Matusica, Rainer V Haberberger
The vagina is innervated by a complex arrangement of sensory, sympathetic and parasympathetic nerve fibres that contain classical transmitters plus an array of neuropeptides and enzymes known to regulate diverse processes including blood flow and nociception. The neurochemical characteristics and distributions of peptide-containing nerves in the mouse vagina are unknown. This study used multiple labelling immunohistochemistry, confocal imaging and analysis to investigate the presence and colocalization of the peptides vasoactive intestinal polypeptide (VIP), calcitonin-gene related peptide (CGRP), substance P (SP), neuropeptide tyrosine (NPY) and the nitric oxide synthesizing enzyme neuronal nitric oxide synthase (nNOS) in nerve fibres of the murine vaginal wall...
March 21, 2017: Journal of Comparative Neurology
https://www.readbyqxmd.com/read/28323882/mir-181-interacts-with-signaling-adaptor-molecule-denn-madd-and-enhances-tnf-induced-cell-death
#10
Samira Ghorbani, Farideh Talebi, Sedigheh Ghasemi, Ali Jahanbazi Jahan Abad, Mohammed Vojgani, Farshid Noorbakhsh
MicroRNAs are small noncoding RNAs, which regulate the expression of protein coding transcripts through mRNA degradation or translational inhibition. Numerous reports have highlighted the role of miRNAs in regulating cell death pathways including the expression of genes involved in the induction of apoptosis. Tumor necrosis factor alpha (TNF-α) is a proinflammatory cytokine which can send pro-death signals through its receptor TNFR1. Diverse adaptor molecules including DENN/MADD adaptor protein have been shown to modulate TNF-α pro-death signaling via recruitment of MAP kinases to TNFR1 and activation of pro-survival NFκB signaling...
2017: PloS One
https://www.readbyqxmd.com/read/28323864/population-genetic-structure-of-eelgrass-zostera-marina-on-the-korean-coast-current-status-and-conservation-implications-for-future-management
#11
Jae Hwan Kim, Ji Hyoun Kang, Ji Eun Jang, Sun Kyeong Choi, Min Ji Kim, Sang Rul Park, Hyuk Je Lee
Seagrasses provide numerous ecosystem services for coastal and estuarine environments, such as nursery functions, erosion protection, pollution filtration, and carbon sequestration. Zostera marina (common name "eelgrass") is one of the seagrass bed-forming species distributed widely in the northern hemisphere, including the Korean Peninsula. Recently, however, there has been a drastic decline in the population size of Z. marina worldwide, including Korea. We examined the current population genetic status of this species on the southern coast of Korea by estimating the levels of genetic diversity and genetic structure of 10 geographic populations using eight nuclear microsatellite markers...
2017: PloS One
https://www.readbyqxmd.com/read/28323048/comparison-of-lamiaceae-medicinal-uses-in-eastern-morocco-and-eastern-andalusia-and-in-ibn-al-baytar-s-compendium-of-simple-medicaments-13th-century-ce
#12
Asmae El-Gharbaoui, Guillermo Benítez, M Reyes González-Tejero, Joaquín Molero-Mesa, Abderrahmane Merzouki
ETHNOPHARMACOLOGICAL RELEVANCE: Transmission of traditional knowledge over time and across culturally and historically related territories is an important topic in ethnopharmacology. Here, we contribute to this knowledge by analysing data on medicinal uses in two neighbouring areas of the Western Mediterranean in relation to a historical text that has been scarcely mentioned in historical studies despite its interest. AIM OF THE STUDY: This paper discusses the sharing of popular knowledge on the medicinal uses of plants between eastern Morocco and eastern Andalusia (Spain), focusing on one of the most useful plant families in the Mediterranean area: Lamiaceae...
March 16, 2017: Journal of Ethnopharmacology
https://www.readbyqxmd.com/read/28322867/bile-acid-analysis-in-human-disorders-of-bile-acid-biosynthesis
#13
REVIEW
Frédéric M Vaz, Sacha Ferdinandusse
Bile acids facilitate the absorption of lipids in the gut, but are also needed to maintain cholesterol homeostasis, induce bile flow, excrete toxic substances and regulate energy metabolism by acting as signaling molecules. Bile acid biosynthesis is a complex process distributed across many cellular organelles and requires at least 17 enzymes in addition to different metabolite transport proteins to synthesize the two primary bile acids, cholic acid and chenodeoxycholic acid. Disorders of bile acid synthesis can present from the neonatal period to adulthood and have very diverse clinical symptoms ranging from cholestatic liver disease to neuropsychiatric symptoms and spastic paraplegias...
March 17, 2017: Molecular Aspects of Medicine
https://www.readbyqxmd.com/read/28318115/microbial-players-and-processes-involved-in-phytoplankton-bloom-utilization-in-the-water-column-of-a-fast-flowing-river-dominated-estuary
#14
Maria W Smith, Lydie Herfort, Caroline S Fortunato, Byron C Crump, Holly M Simon
Fueled by seasonal phytoplankton blooms, the Columbia River estuary is a natural bioreactor for organic matter transformations. Prior metagenome analyses indicated high abundances of diverse Bacteroidetes taxa in estuarine samples containing phytoplankton. To examine the hypothesis that Bacteroidetes taxa have important roles in phytoplankton turnover, we further analyzed metagenomes from water collected along a salinity gradient at 0, 5, 15, 25, and 33 PSU during bloom events. Size fractions were obtained by using a 3-μm prefilter and 0...
March 20, 2017: MicrobiologyOpen
https://www.readbyqxmd.com/read/28317542/overlap-of-latent-pathogens-in-the-botryosphaeriaceae-on-a-native-and-agricultural-host
#15
James W M Mehl, Bernard Slippers, Jolanda Roux, Michael J Wingfield
Some species of the Botryosphaeriaceae are capable of infecting a broad range of host plants. We studied the species diversity of Botryosphaeriaceae associated with marula (Sclerocarya birrea subsp. caffra, Anacardiaceae) trees in South Africa over two seasons, as well as species common to both S. birrea and adjacent mango (Mangifera indica, Anacardiaceae) trees in a subset of sites. Gene flow amongst populations of Botryosphaeriaceae shared on these tree species was tested using microsatellite markers. Twelve species were identified from S...
April 2017: Fungal Biology
https://www.readbyqxmd.com/read/28316235/evaluation-of-nanobody-conjugates-and-protein-fusions-as-bioanalytical-reagents
#16
Virginia J Bruce, Brian R McNaughton
Enzyme-linked immunosorbent assay (ELISA), flow cytometry, and Western blot are common bioanalytical techniques. Successful execution traditionally requires the use of one or more commercially available antibody-small-molecule dye, or antibody-reporter protein conjugates that recognize relatively short peptide tags (<15 amino acids). However, the size of antibodies, and their molecular complexity (by virtue of post-translational disulfide formation and glycosylation) typically requires either expression in mammalian cells or purification from immunized mammals...
March 20, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28316049/structure-and-function-of-the-bacterial-communities-during-rhizoremediation-of-hexachlorobenzene-in-constructed-wetlands
#17
Cuiping Zhang, Bei Wang, Xiaoyan Dai, Shuying Li, Guangqiu Lu, Yuanqing Zhou
Vertical flow constructed wetlands (VF CWs) are considered to be effective for treating organic pollutants. The rhizosphere of macrophytes such as Phragmites sp., Typha sp. serves as an active and dynamic zone for the microbial degradation of organic pollutants. However, it is still not clear how soil bacterial communities respond to macrophytes and pollutants during the process. For this purpose, the seedlings of Phragmites australis and Typha angustifolia were planted respectively in the VF CWs added with HCB at a dose of 2 mg/kg...
March 18, 2017: Environmental Science and Pollution Research International
https://www.readbyqxmd.com/read/28303732/mitochondrial-dna-sequence-variation-in-iranian-native-dogs
#18
Zeinab Amiri Ghanatsaman, Adeniyi C Adeola, Masood Asadi Fozi, Ya-Ping Ma, Min-Sheng Peng, Guo-Dong Wang, Ali Esmailizadeh, Ya-Ping Zhang
The dog mtDNA diversity picture from wide geographical sampling but from a small number of individuals per region or breed, displayed little geographical correlation and high degree of haplotype sharing between very distant breeds. For a clear picture, we extensively surveyed Iranian native dogs (n = 305) in comparison with published European (n = 443) and Southwest Asian (n = 195) dogs. Twelve haplotypes related to haplogroups A, B and C were shared by Iranian, European, Southwest Asian and East Asian dogs...
March 17, 2017: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://www.readbyqxmd.com/read/28301470/pleistocene-refugia-and-genetic-diversity-patterns-in-west-africa-insights-from-the-liana-chasmanthera-dependens-menispermaceae
#19
Andrew Chibuzor Iloh, Marco Schmidt, Alexandra Nora Muellner-Riehl, Oluwatoyin Temitayo Ogundipe, Juraj Paule
Processes shaping the African Guineo-Congolian rain forest, especially in the West African part, are not well understood. Recent molecular studies, based mainly on forest tree species, confirmed the previously proposed division of the western African Guineo-Congolian rain forest into Upper Guinea (UG) and Lower Guinea (LG) separated by the Dahomey Gap (DG). Here we studied nine populations in the area of the DG and the borders of LG and UG of the widespread liana species, Chasmanthera dependens (Menispermaceae) by amplified fragment length polymorphism (AFLP), a chloroplast DNA sequence marker, and modelled the distribution based on current as well as paleoclimatic data (Holocene Climate Optimum, ca...
2017: PloS One
https://www.readbyqxmd.com/read/28300407/dynamic-succession-of-groundwater-sulfate-reducing-communities-during-prolonged-reduction-of-uranium-in-a-contaminated-aquifer
#20
Ping Zhang, Zhili He, Joy D Van Nostrand, Yujia Qin, Ye Deng, Liyou Wu, Qichao Tu, Jianjun Wang, Christopher W Schadt, Matthew W Fields, Terry C Hazen, Adam P Arkin, David A Stahl, Jizhong Zhou
To further understand the diversity and dynamics of SRB in response to substrate amendment, we sequenced genes coding for the dissimilatory sulfite reductase (dsrA) in groundwater samples collected after an emulsified vegetable oil (EVO) amendment, which sustained U(VI)-reducing conditions for one year in a fast-flowing aquifer. EVO amendment significantly altered the composition of groundwater SRB communities. Sequences having no closely related-described species dominated (80%) the indigenous SRB communities in nonamended wells...
March 16, 2017: Environmental Science & Technology
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