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Gene environment interactions

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https://www.readbyqxmd.com/read/28211847/syntrophic-linkage-between-predatory-carpediemonas-and-specific-prokaryotic-populations
#1
Emmo Hamann, Halina E Tegetmeyer, Dietmar Riedel, Sten Littmann, Soeren Ahmerkamp, Jianwei Chen, Philipp F Hach, Marc Strous
Most anoxic environments are populated by small (<10 μm) heterotrophic eukaryotes that prey on different microbial community members. How predatory eukaryotes engage in beneficial interactions with other microbes has rarely been investigated so far. Here, we studied an example of such an interaction by cultivating the anerobic marine flagellate, Carpediemonas frisia sp. nov. (supergroup Excavata), with parts of its naturally associated microbiome. This microbiome consisted of so far uncultivated members of the Deltaproteobacteria, Bacteroidetes, Firmicutes, Verrucomicrobia and Nanoarchaeota...
February 17, 2017: ISME Journal
https://www.readbyqxmd.com/read/28209775/evidence-for-environmental-and-ecological-selection-in-a-microbe-with-no-geographic-limits-to-gene-flow
#2
Kerry A Whittaker, Tatiana A Rynearson
The ability for organisms to disperse throughout their environment is thought to strongly influence population structure and thus evolution of diversity within species. A decades-long debate surrounds processes that generate and support high microbial diversity, particularly in the ocean. The debate concerns whether diversification occurs primarily through geographic partitioning (where distance limits gene flow) or through environmental selection, and remains unresolved due to lack of empirical data. Here we show that gene flow in a diatom, an ecologically important eukaryotic microbe, is not limited by global-scale geographic distance...
February 16, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28208108/dietary-administration-of-edc-mixtures-a-focus-on-fish-lipid-metabolism
#3
O Carnevali, V Notarstefano, I Olivotto, M Graziano, P Gallo, I Di Marco Pisciottano, L Vaccari, A Mandich, E Giorgini, F Maradonna
Many man-made chemical compounds are recognized as endocrine disruptors and once released into the environment are likely to spread and bioaccumulate in wild species. Due to their lipophilic nature, these substances pass through the cell membrane or bind to specific receptors activating physiological responses that in the long run can cause reproductive impairment, physiological disorders, including the occurrence of metabolic syndromes. One significant source of contamination is represented by the consumption of polluted food...
February 6, 2017: Aquatic Toxicology
https://www.readbyqxmd.com/read/28203149/gene-gene-environment-interactions-of-serotonin-transporter-monoamine-oxidase-a-and-childhood-maltreatment-predict-aggressive-behavior-in-chinese-adolescents
#4
Yun Zhang, Qing-Sen Ming, Jin-Yao Yi, Xiang Wang, Qiao-Lian Chai, Shu-Qiao Yao
Gene-environment interactions that moderate aggressive behavior have been identified independently in the serotonin transporter (5-HTT) gene and monoamine oxidase A gene (MAOA). The aim of the present study was to investigate epistasis interactions between MAOA-variable number tandem repeat (VNTR), 5-HTTlinked polymorphism (LPR) and child abuse and the effects of these on aggressive tendencies in a group of otherwise healthy adolescents. A group of 546 Chinese male adolescents completed the Child Trauma Questionnaire and Youth self-report of the Child Behavior Checklist...
2017: Frontiers in Behavioral Neuroscience
https://www.readbyqxmd.com/read/28199342/meta-qtl-for-resistance-to-white-mold-in-common-bean
#5
Renato C C Vasconcellos, O Blessing Oraguzie, Alvaro Soler, Haidar Arkwazee, James R Myers, Juan J Ferreira, Qijian Song, Phil McClean, Phillip N Miklas
White mold, caused by the fungus Sclerotinia sclerotiorum (Lib.) de Bary, is a major disease that limits common bean production and quality worldwide. The host-pathogen interaction is complex, with partial resistance in the host inherited as a quantitative trait with low to moderate heritability. Our objective was to identify meta-QTL conditioning partial resistance to white mold from individual QTL identified across multiple populations and environments. The physical positions for 37 individual QTL were identified across 14 recombinant inbred bi-parental populations (six new, three re-genotyped, and five from the literature)...
2017: PloS One
https://www.readbyqxmd.com/read/28199172/behavioral-phenotyping-assays-for-genetic-mouse-models-of-neurodevelopmental-neurodegenerative-and-psychiatric-disorders
#6
Stacey J Sukoff Rizzo, Jacqueline N Crawley
Animal models offer heuristic research tools to understand the causes of human diseases and to identify potential treatments. With rapidly evolving genetic engineering technologies, mutations identified in a human disorder can be generated in the mouse genome. Phenotypic outcomes of the mutation are then explicated to confirm hypotheses about causes and to discover effective therapeutics. Most neurodevelopmental, neurodegenerative, and psychiatric disorders are diagnosed primarily by their prominent behavioral symptoms...
February 8, 2017: Annual Review of Animal Biosciences
https://www.readbyqxmd.com/read/28198090/succession-and-dynamics-of-pristionchus-nematodes-and-their-microbiome-during-decomposition-of-oryctes-borbonicus-on-la-r%C3%A3-union-island
#7
Jan M Meyer, Praveen Baskaran, Christian Quast, Vladislav Susoy, Christian Rödelsperger, Frank O Glöckner, Ralf J Sommer
Insects and nematodes represent the most species-rich animal taxa and they occur together in a variety of associations. Necromenic nematodes of the genus Pristionchus are found on scarab beetles with more than 30 species known from worldwide samplings. However, little is known about the dynamics and succession of nematodes and bacteria during the decomposition of beetle carcasses. Here, we study nematode and bacterial succession of the decomposing rhinoceros beetle Oryctes borbonicus on La Réunion Island. We show that Pristionchus pacificus exits the arrested dauer stage seven days after the beetles' deaths...
February 15, 2017: Environmental Microbiology
https://www.readbyqxmd.com/read/28194762/commentary-fundamental-problems-with-candidate-gene-by-environment-interaction-studies-reflections-on-moore-and-thoemmes-2016
#8
Richard Border, Matthew C Keller
Moore and Thoemmes elaborate on one particular source of difficulty in the study of candidate gene-by-environment interactions (cG × E): how different biologically plausible configurations of gene-environment covariation can bias estimates of cG × E when not explicitly modeled. However, even if cG × E investigators were able to account for the sources of bias Moore and Thoemmes elaborate, it is unlikely that conventional approaches would yield reliable results. Published cG × E findings to date have generally employed inadequate analytic procedures, have relied on samples orders of magnitude too small to detect plausible effects, and have relied on a particular candidate gene approach that has been unfruitful and largely jettisoned in mainstream genetic analyses of complex traits...
March 2017: Journal of Child Psychology and Psychiatry, and Allied Disciplines
https://www.readbyqxmd.com/read/28194760/developmental-psychopathology-in-the-post-genomics-era-substantial-challenges-but-reasons-for-hope
#9
EDITORIAL
Jeffrey M Halperin
One only has to quickly look through the Table of Contents for this issue of JCPP to gain an appreciation of the ever-increasing influence of genetic research in the field of developmental psychopathology. Among the 13 articles in this issue that follow this editorial: two employ large family and/or twin studies to provide compelling behavioral genetic findings bolstering the importance of genes in the emergence of ADHD (Chen, Brikell, Lichtenstein, Serlachius, Kuja-Halkola, Sandin, and Larsson) and level of educational achievement in adolescents (Lewis, Asbury, and Plomin); one paper focuses on cortical development in patients with 22q11...
March 2017: Journal of Child Psychology and Psychiatry, and Allied Disciplines
https://www.readbyqxmd.com/read/28194740/potential-of-burkholderia-seminalis-tc3-4-2r3-as-biocontrol-agent-against-fusarium-oxysporum-evaluated-by-mass-spectrometry-imaging
#10
Francisca Diana da Silva Araújo, Welington Luiz Araújo, Marcos Nogueira Eberlin
Species of genus Burkholderia display different interaction profiles in the environment, causing either several diseases in plants and animals or being beneficial to some plants, promoting their growth, and suppressing phytopathogens. Burkholderia spp. also produce many types of biomolecules with antimicrobial activity, which may be commercially used to protect crops of economic interest, mainly against fungal diseases. Herein we have applied matrix-assisted laser desorption/ionization mass spectrometry imaging (MALDI-MSI) to investigate secondary metabolites produced by B...
February 13, 2017: Journal of the American Society for Mass Spectrometry
https://www.readbyqxmd.com/read/28193730/mismatch-repair-incompatibilities-in-diverse-yeast-populations
#11
Duyen T Bui, Anne Friedrich, Najla Al-Sweel, Gianni Liti, Joseph Schacherer, Charles F Aquadro, Eric Alani
An elevated mutation rate can provide cells with a source of mutations to adapt to changing environments. We identified a negative-epistatic interaction involving naturally occurring variants in the MLH1 and PMS1 mismatch repair (MMR) genes of Saccharomyces cerevisiae We hypothesized that this MMR incompatibility, created through mating between divergent S. cerevisiae, yields mutator progeny that can rapidly but transiently adapt to an environmental stress. Here we analyzed the MLH1 and PMS1 genes across 1,010 S...
February 13, 2017: Genetics
https://www.readbyqxmd.com/read/28193573/structure-and-function-of-hwe-hiska2-family-sensor-histidine-kinases
#12
REVIEW
Julien Herrou, Sean Crosson, Aretha Fiebig
Sensor histidine kinases regulate adaptive cellular responses to changes in the chemical or physical state of the environment. HWE/HisKA2-family kinases comprise a subset of histidine kinases that is defined by unique sequence motifs in both the catalytic and non-catalytic regions. Recent crystal structures have defined conserved intramolecular interactions that inform models of kinase regulation that are unique to the HWE/HisKA2 superfamily. Emerging genetic, biochemical and genomic data indicate that, unlike typical histidine kinases, HWE/HisKA2 kinases do not generally signal via classical DNA-binding response regulators...
February 10, 2017: Current Opinion in Microbiology
https://www.readbyqxmd.com/read/28193177/anopheline-salivary-protein-genes-and-gene-families-an-evolutionary-overview-after-the-whole-genome-sequence-of-sixteen-anopheles-species
#13
Bruno Arcà, Fabrizio Lombardo, Claudio J Struchiner, José M C Ribeiro
BACKGROUND: Mosquito saliva is a complex cocktail whose pharmacological properties play an essential role in blood feeding by counteracting host physiological response to tissue injury. Moreover, vector borne pathogens are transmitted to vertebrates and exposed to their immune system in the context of mosquito saliva which, in virtue of its immunomodulatory properties, can modify the local environment at the feeding site and eventually affect pathogen transmission. In addition, the host antibody response to salivary proteins may be used to assess human exposure to mosquito vectors...
February 13, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28191904/n-terminomics-identifies-prli42-as-a-membrane-miniprotein-conserved-in-firmicutes-and-critical-for-stressosome-activation-in-listeria-monocytogenes
#14
Francis Impens, Nathalie Rolhion, Lilliana Radoshevich, Christophe Bécavin, Mélodie Duval, Jeffrey Mellin, Francisco García Del Portillo, M Graciela Pucciarelli, Allison H Williams, Pascale Cossart
To adapt to changing environments, bacteria have evolved numerous pathways that activate stress response genes. In Gram-positive bacteria, the stressosome, a cytoplasmic complex, relays external cues and activates the sigma B regulon. The stressosome is structurally well-characterized in Bacillus, but how it senses stress remains elusive. Here, we report a genome-wide N-terminomic approach in Listeria that strikingly led to the discovery of 19 internal translation initiation sites and 6 miniproteins, among which one, Prli42, is conserved in Firmicutes...
February 13, 2017: Nature Microbiology
https://www.readbyqxmd.com/read/28191858/impact-of-the-pde4d-gene-polymorphism-and-additional-snp-snp-and-gene-smoking-interaction-on-ischemic-stroke-risk-in-chinese-han-population
#15
Xianxiang Wang, Zhongwu Sun, Yiquan Zhang, Xuefeng Tian, Qingxin Li, Jing Luo
AIMS: To investigate the association between phosphodiesterase 4D gene (PDE4D) gene single nucleotide polymorphisms (SNPs) and ischemic stroke (IS) risk, and impact of additional SNP- SNP and gene- smoking interaction on IS risk in Chinese population. METHODS: A total of 1228 subjects (666 males, 562 females) were selected, including 610 IS patients and 618 control subjects. Logistic regression model was used to examine the association between SNPs in PDE4D gene and IS risk...
February 13, 2017: Neurological Research
https://www.readbyqxmd.com/read/28187242/maintenance-of-polygenic-sex-determination-in-a-fluctuating-environment-an-individual-based-model
#16
Andrew W Bateman, Bradley R Anholt
R. A. Fisher predicted that individuals should invest equally in offspring of both sexes, and that the proportion of males and females produced (the primary sex ratio) should evolve towards 1:1 when unconstrained. For many species, sex determination is dependent on sex chromosomes, creating a strong tendency for balanced sex ratios, but in other cases multiple autosomal genes interact to determine sex. In such cases, the maintenance of multiple sex-determining alleles at multiple loci and the consequent between-family variability in sex ratios presents a puzzle, as theory predicts that such systems should be unstable...
February 10, 2017: Journal of Evolutionary Biology
https://www.readbyqxmd.com/read/28187134/metabolic-regulation-is-sufficient-for-global-and-robust-coordination-of-glucose-uptake-catabolism-energy-production-and-growth-in-escherichia-coli
#17
Pierre Millard, Kieran Smallbone, Pedro Mendes
The metabolism of microorganisms is regulated through two main mechanisms: changes of enzyme capacities as a consequence of gene expression modulation ("hierarchical control") and changes of enzyme activities through metabolite-enzyme interactions. An increasing body of evidence indicates that hierarchical control is insufficient to explain metabolic behaviors, but the system-wide impact of metabolic regulation remains largely uncharacterized. To clarify its role, we developed and validated a detailed kinetic model of Escherichia coli central metabolism that links growth to environment...
February 10, 2017: PLoS Computational Biology
https://www.readbyqxmd.com/read/28185903/the-thermodynamics-of-protein-aggregation-reactions-may-underpin-the-enhanced-metabolic-efficiency-associated-with-heterosis-some-balancing-selection-and-the-evolution-of-ploidy-levels
#18
REVIEW
B R Ginn
Identifying the physical basis of heterosis (or "hybrid vigor") has remained elusive despite over a hundred years of research on the subject. The three main theories of heterosis are dominance theory, overdominance theory, and epistasis theory. Kacser and Burns (1981) identified the molecular basis of dominance, which has greatly enhanced our understanding of its importance to heterosis. This paper aims to explain how overdominance, and some features of epistasis, can similarly emerge from the molecular dynamics of proteins...
February 6, 2017: Progress in Biophysics and Molecular Biology
https://www.readbyqxmd.com/read/28184370/metaproteomics-as-a-complementary-approach-to-gut-microbiota-in-health-and-disease
#19
REVIEW
Bernardo A Petriz, Octávio L Franco
Classic studies on phylotype profiling are limited to the identification of microbial constituents, where information is lacking about the molecular interaction of these bacterial communities with the host genome and the possible outcomes in host biology. A range of OMICs approaches have provided great progress linking the microbiota to health and disease. However, the investigation of this context through proteomic mass spectrometry-based tools is still being improved. Therefore, metaproteomics or community proteogenomics has emerged as a complementary approach to metagenomic data, as a field in proteomics aiming to perform large-scale characterization of proteins from environmental microbiota, such as the human gut...
2017: Frontiers in Chemistry
https://www.readbyqxmd.com/read/28184229/bnsip1-1-a-trihelix-family-gene-mediates-abiotic-stress-tolerance-and-aba-signaling-in-brassica-napus
#20
Junling Luo, Shaohua Tang, Fengling Mei, Xiaojue Peng, Jun Li, Xiaofei Li, Xiaohong Yan, Xinhua Zeng, Fang Liu, Yuhua Wu, Gang Wu
The trihelix family genes have important functions in light-relevant and other developmental processes, but their roles in response to adverse environment are largely unclear. In this study, we identified a new gene, BnSIP1-1, which fell in the SIP1 (6b INTERACTING PROTEIN1) clade of the trihelix family with two trihelix DNA binding domains and a fourth amphipathic α-helix. BnSIP1-1 protein specifically targeted to the nucleus, and its expression can be induced by abscisic acid (ABA) and different stresses...
2017: Frontiers in Plant Science
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