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Latest Articles

  • Biphasic Metabolism and Host Interaction of a Chlamydial Symbiont
    Editor's Pick Research Article | Host-Microbe Biology
    Biphasic Metabolism and Host Interaction of a Chlamydial Symbiont

    Chlamydiae are known as major bacterial pathogens of humans, causing the ancient disease trachoma, but they are also frequently found in the environment where they infect ubiquitous protists such as amoebae. All known chlamydiae require a eukaryotic host cell to thrive. Using the environmental chlamydia Protochlamydia amoebophila within its natural host, Acanthamoeba castellanii, we investigated gene expression...

    Lena König, Alexander Siegl, Thomas Penz, Susanne Haider, Cecilia Wentrup, Julia Polzin, Evelyne Mann, Stephan Schmitz-Esser, Daryl Domman, Matthias Horn
    30 May 2017
  • Significant Impacts of Increasing Aridity on the Arid Soil Microbiome
    Research Article | Applied and Environmental Science
    Significant Impacts of Increasing Aridity on the Arid Soil Microbiome

    We identify key environmental and geochemical factors that shape the arid soil microbiome along aridity and vegetation gradients spanning over 300 km of the Atacama Desert, Chile. Decreasing average soil relative humidity and increasing temperature explain significant reductions in the diversity and connectivity of these desert soil microbial communities and lead to significant reductions in the abundance of key taxa typically...

    Julia W. Neilson, Katy Califf, Cesar Cardona, Audrey Copeland, Will van Treuren, Karen L. Josephson, Rob Knight, Jack A. Gilbert, Jay Quade, J. Gregory Caporaso, Raina M. Maier
    30 May 2017
  • Quantitative Proteomics Shows Extensive Remodeling Induced by Nitrogen Limitation in <span class="named-content genus-species" id="named-content-1">Prochlorococcus marinus</span> SS120
    Editor's Pick Research Article | Molecular Biology and Physiology
    Quantitative Proteomics Shows Extensive Remodeling Induced by Nitrogen Limitation in Prochlorococcus marinus SS120

    Prochlorococcus is the most abundant photosynthetic organism on Earth, contributing significantly to global primary production and playing a prominent role in biogeochemical cycles. Here we study the effects of extreme nitrogen limitation, a feature of the oligotrophic oceans inhabited by this organism. Quantitative proteomics allowed an accurate quantification of the Prochlorococcus proteome, finding three main...

    Maria Agustina Domínguez-Martín, Guadalupe Gómez-Baena, Jesús Díez, Maria José López-Grueso, Robert J. Beynon, José Manuel García-Fernández
    30 May 2017
  • Comparative Genomic Analysis Reveals Habitat-Specific Genes and Regulatory Hubs within the Genus <em>Novosphingobium</em>
    Research Article | Ecological and Evolutionary Science
    Comparative Genomic Analysis Reveals Habitat-Specific Genes and Regulatory Hubs within the Genus Novosphingobium

    This study highlights the significant role of the genetic repertoire of a microorganism in the similarity between Novosphingobium strains. The results suggest that the phylogenetic relationships were mostly influenced by metabolic trait enrichment, which is possibly governed by the microenvironment of each microbe’s respective niche. Using core genome analysis, the enrichment of a certain set of genes specific to a particular...

    Roshan Kumar, Helianthous Verma, Shazia Haider, Abhay Bajaj, Utkarsh Sood, Kalaiarasan Ponnusamy, Shekhar Nagar, Mallikarjun N. Shakarad, Ram Krishan Negi, Yogendra Singh, J. P. Khurana, Jack A. Gilbert, Rup Lal
    23 May 2017
  • Meta-analysis To Define a Core Microbiota in the Swine Gut
    Research Article | Host-Microbe Biology
    Meta-analysis To Define a Core Microbiota in the Swine Gut

    The results of this meta-analysis demonstrate that “study” and GI sample location are the most significant factors in shaping the swine gut microbiota. However, in comparisons of results from different studies, some biological factors may be obscured by technical variation among studies. Nonetheless, there are some bacterial taxa that appear to form a core microbiota within the swine GI tract regardless of country of origin, diet, age,...

    Devin B. Holman, Brian W. Brunelle, Julian Trachsel, Heather K. Allen
    23 May 2017
  • The Microbiome-Mitochondrion Connection: Common Ancestries, Common Mechanisms, Common Goals
    Perspective | Host-Microbe Biology
    The Microbiome-Mitochondrion Connection: Common Ancestries, Common Mechanisms, Common Goals

    Lynn Margulis in the 1960s elegantly proposed a shared phylogenetic history between bacteria and mitochondria; this relationship has since become a cornerstone of modern cellular biology. Yet, an interesting facet of the interaction between the microbiome and mitochondria has been mostly ignored, that of the systems biology relationship that underpins host health and longevity.

    Alfredo Franco-Obregón, Jack A. Gilbert
    9 May 2017
  • A Genome-Scale Model of <em>Shewanella piezotolerans</em> Simulates Mechanisms of Metabolic Diversity and Energy Conservation
    Research Article | Molecular Biology and Physiology
    A Genome-Scale Model of Shewanella piezotolerans Simulates Mechanisms of Metabolic Diversity and Energy Conservation

    The well-studied nature of the metabolic diversity of Shewanella bacteria makes species from this genus a promising platform for investigating the evolution of carbon metabolism and energy conservation. The Shewanella phylogeny is diverged into two major branches, referred to as group 1 and group 2. While the genotype-phenotype connections of group 2 species have been extensively studied with metabolic modeling, a...

    Keith Dufault-Thompson, Huahua Jian, Ruixue Cheng, Jiefu Li, Fengping Wang, Ying Zhang
    28 Mar 2017
  • Metatranscriptomics Supports the Mechanism for Biocathode Electroautotrophy by “<em>Candidatus</em> Tenderia electrophaga”
    Research Article | Molecular Biology and Physiology
    Metatranscriptomics Supports the Mechanism for Biocathode Electroautotrophy by “Candidatus Tenderia electrophaga”

    Bacteria that directly use electrodes as metabolic electron donors (biocathodes) have been proposed for applications ranging from microbial electrosynthesis to advanced bioelectronics for cellular communication with machines. However, just as we understand very little about oxidation of analogous natural insoluble electron donors, such as iron oxide, the organisms and extracellular electron transfer (EET) pathways underlying the...

    Brian J. Eddie, Zheng Wang, W. Judson Hervey, IV, Dagmar H. Leary, Anthony P. Malanoski, Leonard M. Tender, Baochuan Lin, Sarah M. Strycharz-Glaven
    28 Mar 2017
  • Genome Reduction and Microbe-Host Interactions Drive Adaptation of a Sulfur-Oxidizing Bacterium Associated with a Cold Seep Sponge
    Research Article | Host-Microbe Biology
    Genome Reduction and Microbe-Host Interactions Drive Adaptation of a Sulfur-Oxidizing Bacterium Associated with a Cold Seep Sponge

    Sponges and their symbionts are important players in the biogeochemical cycles of marine environments. As a unique habitat within marine ecosystems, cold seeps have received considerable interest in recent years. This study explores the lifestyle of a new symbiotic SOB in a cold seep sponge. The results demonstrate that both this sponge symbiont and endosymbionts in deep-sea clams employ similar strategies of genome reduction. However,...

    Ren-Mao Tian, Weipeng Zhang, Lin Cai, Yue-Him Wong, Wei Ding, Pei-Yuan Qian
    21 Mar 2017
  • Health and Disease Imprinted in the Time Variability of the Human Microbiome
    Editor's Pick Research Article | Host-Microbe Biology
    Health and Disease Imprinted in the Time Variability of the Human Microbiome

    The human microbiota correlates closely with the health status of its host. This article analyzes the microbial composition of several subjects under different conditions over time spans that ranged from days to months. Using the Langevin equation as the basis of our mathematical framework to evaluate microbial temporal stability, we proved that stable microbiotas can be distinguished from unstable microbiotas. This initial step will...

    Jose Manuel Martí, Daniel Martínez-Martínez, Teresa Rubio, César Gracia, Manuel Peña, Amparo Latorre, Andrés Moya, Carlos P. Garay
    21 Mar 2017

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