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    • Latest Articles
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Latest Articles

  • Nonadditive Transcriptomic Signatures of Genotype-by-Genotype Interactions during the Initiation of Plant-Rhizobium Symbiosis
    Research Article | Host-Microbe Biology
    Nonadditive Transcriptomic Signatures of Genotype-by-Genotype Interactions during the Initiation of Plant-Rhizobium Symbiosis

    A sustainable way for meeting the need of an increased global food demand should be based on a holobiont perspective, viewing crop plants as intimately associated with their microbiome, which helps improve plant nutrition, tolerance to pests, and adverse climate conditions. However, the genetic repertoire needed for efficient association with plants by the microbial symbionts is still poorly understood.

    Camilla Fagorzi, Giovanni Bacci, Rui Huang, Lisa Cangioli, Alice Checcucci, Margherita Fini, Elena Perrin, Chiara Natali, George Colin diCenzo, Alessio Mengoni
    12 Jan 2021
  • Gradient Internal Standard Method for Absolute Quantification of Microbial Amplicon Sequencing Data
    Research Article | Applied and Environmental Science
    Gradient Internal Standard Method for Absolute Quantification of Microbial Amplicon Sequencing Data

    To solve the problem of amplicon sequencing cannot discern the microbiota absolute abundance, we proposed a gradient internal standard absolute quantification method. We used Chinese liquor fermentation as a model system to demonstrate the reliability and accuracy of the method.

    Shilei Wang, Qun Wu, Ying Han, Rubing Du, Xiaoyong Wang, Yao Nie, Xiaowei Du, Yan Xu
    12 Jan 2021
  • National Prevalence of <span class="named-content genus-species" id="named-content-1">Salmonella enterica</span> Serotype Kentucky ST198 with High-Level Resistance to Ciprofloxacin and Extended-Spectrum Cephalosporins in China, 2013 to 2017
    Research Article | Clinical Science and Epidemiology
    National Prevalence of Salmonella enterica Serotype Kentucky ST198 with High-Level Resistance to Ciprofloxacin and Extended-Spectrum Cephalosporins in China, 2013 to 2017

    Ciprofloxacin and extended-spectrum cephalosporins are the choice for treatment of severe nontyphoidal S. enterica infections in adults. S. enterica serotype Kentucky ST198 has gained epidemiological importance globally, because the clone is frequently resistant to both of these high-level-...

    Honghu Chen, Jingjie Song, Xianying Zeng, Dandan Chen, Rongchang Chen, Chen Qiu, Kai Zhou
    12 Jan 2021
  • FADU: a Quantification Tool for Prokaryotic Transcriptomic Analyses
    Research Article | Host-Microbe Biology
    FADU: a Quantification Tool for Prokaryotic Transcriptomic Analyses

    Most currently available quantification tools for transcriptomics analyses have been designed for human data sets, in which full-length transcript sequences, including the untranslated regions, are well annotated. In most prokaryotic systems, full-length transcript sequences have yet to be characterized, leading to prokaryotic transcriptomics analyses being performed based on only the coding sequences.

    Matthew Chung, Ricky S. Adkins, John S. A. Mattick, Katie R. Bradwell, Amol C. Shetty, Lisa Sadzewicz, Luke J. Tallon, Claire M. Fraser, David A. Rasko, Anup Mahurkar, Julie C. Dunning Hotopp
    12 Jan 2021
  • Associations of Genetic Variants Contributing to Gut Microbiota Composition in Immunoglobin A Nephropathy
    Research Article | Host-Microbe Biology
    Associations of Genetic Variants Contributing to Gut Microbiota Composition in Immunoglobin A Nephropathy

    The gut microbiota and host genetics are implicated in the pathogenesis of IgAN. Recent studies have confirmed that microbial compositions are heritable (microbiome quantitative trait loci [QTL]).

    Jia-Wei He, Xu-Jie Zhou, Ya-Feng Li, Yan-Na Wang, Li-Jun Liu, Su-Fang Shi, Xiao-Hong Xin, Rong-Shan Li, Mario Falchi, Ji-Cheng Lv, Hong Zhang
    12 Jan 2021
  • Distribution of Mixotrophy and Desiccation Survival Mechanisms across Microbial Genomes in an Arid Biological Soil Crust Community
    Research Article | Applied and Environmental Science
    Distribution of Mixotrophy and Desiccation Survival Mechanisms across Microbial Genomes in an Arid Biological Soil Crust Community

    This study represents a comprehensive community-wide genome-centered metagenome analysis of biological soil crust (BSC) communities in arid environments, providing insights into the distribution of genes encoding different energy generation mechanisms, as well as survival strategies, among populations in an arid soil ecosystem. It reveals the metabolic potential of several uncultured and previously unsequenced microbial genera, families...

    Dimitri V. Meier, Stefanie Imminger, Osnat Gillor, Dagmar Woebken
    12 Jan 2021
  • Transcription Inhibitors with XRE DNA-Binding and Cupin Signal-Sensing Domains Drive Metabolic Diversification in <em>Pseudomonas</em>
    Research Article | Molecular Biology and Physiology
    Transcription Inhibitors with XRE DNA-Binding and Cupin Signal-Sensing Domains Drive Metabolic Diversification in Pseudomonas

    Bacteria of the Pseudomonas genus, including the major human pathogen Pseudomonas aeruginosa, are known for their complex regulatory networks and high number of transcription factors, which contribute to their impressive adaptive ability. However, even in the most studied species, most of the regulators are still uncharacterized.

    Julian Trouillon, Michel Ragno, Victor Simon, Ina Attrée, Sylvie Elsen
    12 Jan 2021
  • <span class="named-content genus-species" id="named-content-1">Dinoroseobacter shibae</span> Outer Membrane Vesicles Are Enriched for the Chromosome Dimer Resolution Site <em>dif</em>
    Research Article | Molecular Biology and Physiology
    Dinoroseobacter shibae Outer Membrane Vesicles Are Enriched for the Chromosome Dimer Resolution Site dif

    Gram-negative bacteria continually form vesicles from their outer membrane (outer membrane vesicles [OMVs]) during normal growth. OMVs frequently contain DNA, and it is unclear how DNA can be shuffled from the cytoplasm to the OMVs.

    Hui Wang, Nicole Beier, Christian Boedeker, Helena Sztajer, Petra Henke, Meina Neumann-Schaal, Johannes Mansky, Manfred Rohde, Jörg Overmann, Jörn Petersen, Frank Klawonn, Martin Kucklick, Susanne Engelmann, Jürgen Tomasch, Irene Wagner-Döbler
    12 Jan 2021
  • Heritable Gut Microbiome Associated with <em>Salmonella enterica</em> Serovar Pullorum Infection in Chickens
    Research Article | Host-Microbe Biology
    Heritable Gut Microbiome Associated with Salmonella enterica Serovar Pullorum Infection in Chickens

    The present study investigated the association among the host genome, the gut microbiome, and S. Pullorum infection in chickens. The results suggested that the gut microbial structure is altered in S. Pullorum-infected chickens.

    Jinmei Ding, Hao Zhou, Lingxiao Luo, Lu Xiao, Kaixuan Yang, Lingyu Yang, Yuming Zheng, Ke Xu, Chuan He, Chengxiao Han, Huaixi Luo, Chao Qin, Fisayo T. Akinyemi, Caiju Gu, Zhenxiang Zhou, Qizhong Huang, He Meng
    5 Jan 2021
  • Fungal Communities Are Important Determinants of Bacterial Community Composition in Deadwood
    Research Article | Ecological and Evolutionary Science
    Fungal Communities Are Important Determinants of Bacterial Community Composition in Deadwood

    Understanding the interactive dynamics between fungal and bacterial communities is important to gain predictive knowledge on ecosystem functioning. However, little is known about the mechanisms behind fungal-bacterial associations and the directionality of species interactions.

    Iñaki Odriozola, Nerea Abrego, Vojtěch Tláskal, Petra Zrůstová, Daniel Morais, Tomáš Větrovský, Otso Ovaskainen, Petr Baldrian
    5 Jan 2021

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