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    • Latest Articles
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Ecological and Evolutionary Science

  • Open Access
    Sex Bias in Gut Microbiome Transmission in Newly Paired Marmosets (<span class="named-content genus-species" id="named-content-1">Callithrix jacchus</span>)
    Research Article | Ecological and Evolutionary Science
    Sex Bias in Gut Microbiome Transmission in Newly Paired Marmosets (Callithrix jacchus)

    In this controlled study, we collected longitudinal fecal samples from 16 male and female marmoset monkeys for 2 weeks prior to and for 8 weeks after pairing in male-female dyads. We report for the first time that marmoset monkeys undergo significant changes to the gut microbiome following pairing and that these changes are sex-biased; i.e., females transmit more microbes to their social partners than males do. Marmosets exhibit pair...

    Lifeng Zhu, Jonathan B. Clayton, Mallory J. Suhr Van Haute, Qinnan Yang, Haley R. Hassenstab, Aaryn C. Mustoe, Dan Knights, Andrew K. Benson, Jeffrey A. French
  • Open Access
    Horizontal Plasmid Transfer Promotes the Dissemination of Asian Acute Hepatopancreatic Necrosis Disease and Provides a Novel Mechanism for Genetic Exchange and Environmental Adaptation
    Research Article | Ecological and Evolutionary Science
    Horizontal Plasmid Transfer Promotes the Dissemination of Asian Acute Hepatopancreatic Necrosis Disease and Provides a Novel Mechanism for Genetic Exchange and Environmental Adaptation

    Global outbreaks of shrimp acute hepatopancreatic necrosis disease (AHPND) caused by V. parahaemolyticus represent an urgent issue for the shrimp industry. This study revealed that the transmission mode of AHPND consists of two steps, the transregional dissemination of V. parahaemolyticus and the...

    Songzhe Fu, Dawei Wei, Qian Yang, Guosi Xie, Bo Pang, Yongjie Wang, Ruiting Lan, Qingyao Wang, Xuan Dong, Xiaojun Zhang, Jie Huang, Jie Feng, Ying Liu
  • Open Access
    Genomic and Transcriptomic Evidence Supports Methane Metabolism in <em>Archaeoglobi</em>
    Research Article | Ecological and Evolutionary Science
    Genomic and Transcriptomic Evidence Supports Methane Metabolism in Archaeoglobi

    Current understanding of the diversity, biology, and ecology of Archaea is very limited, especially considering how few of the known phyla have been cultured or genomically explored. The reconstruction of “Ca. Methanomixophus” MAGs not only expands the known range of metabolic versatility of the members of Archaeoglobi but also suggests that the phylogenetic distribution of MCR and MTR complexes is even wider...

    Yi-Fan Liu, Jing Chen, Livia S. Zaramela, Li-Ying Wang, Serge Maurice Mbadinga, Zhao-Wei Hou, Xiao-Lin Wu, Ji-Dong Gu, Karsten Zengler, Bo-Zhong Mu
  • Open Access
    Ecological Assembly Processes Are Coordinated between Bacterial and Viral Communities in Fractured Shale Ecosystems
    Research Article | Ecological and Evolutionary Science
    Ecological Assembly Processes Are Coordinated between Bacterial and Viral Communities in Fractured Shale Ecosystems

    Interactions between viral communities and their microbial hosts have been the subject of many recent studies in a wide range of ecosystems. The degree of coordination between ecological assembly processes influencing viral and microbial communities, however, has been explored to a much lesser degree. By using a combined null modeling approach, this study investigated the ecological assembly processes influencing both viral and...

    R. E. Danczak, R. A. Daly, M. A. Borton, J. C. Stegen, S. Roux, K. C. Wrighton, M. J. Wilkins
  • Open Access
    Complementary Metagenomic Approaches Improve Reconstruction of Microbial Diversity in a Forest Soil
    Research Article | Ecological and Evolutionary Science
    Complementary Metagenomic Approaches Improve Reconstruction of Microbial Diversity in a Forest Soil

    Microbial ecologists have historically used cultivation-based approaches as well as amplicon sequencing and shotgun metagenomics to characterize microbial diversity in soil. However, challenges persist in the study of microbial diversity, including the recalcitrance of the majority of microorganisms to laboratory cultivation and limited sequence assembly from highly complex samples. The uncultivated majority thus remains a reservoir of...

    L. V. Alteio, F. Schulz, R. Seshadri, N. Varghese, W. Rodriguez-Reillo, E. Ryan, D. Goudeau, S. A. Eichorst, R. R. Malmstrom, R. M. Bowers, L. A. Katz, J. L. Blanchard, T. Woyke
  • Open Access
    Indigenous Ammonia-Oxidizing Archaea in Oxic Subseafloor Oceanic Crust
    Research Article | Ecological and Evolutionary Science
    Indigenous Ammonia-Oxidizing Archaea in Oxic Subseafloor Oceanic Crust

    Ridge flanks represent the major avenue of chemical and heat exchange between the Earth’s oceans and the lithosphere and are thought to harbor an enormous and understudied biosphere. However, little is known about the diversity and functionality of the crustal biosphere. Here, we report an indigenous community of archaea specialized in ammonia oxidation (i.e., AOA) in the oxic oceanic crust at North Pond. These AOA are the dominant...

    Rui Zhao, Håkon Dahle, Gustavo A. Ramírez, Steffen L. Jørgensen
  • Open Access
    Carbon Assimilation Strategies in Ultrabasic Groundwater: Clues from the Integrated Study of a Serpentinization-Influenced Aquifer
    Research Article | Ecological and Evolutionary Science
    Carbon Assimilation Strategies in Ultrabasic Groundwater: Clues from the Integrated Study of a Serpentinization-Influenced Aquifer

    This study describes the potential metabolic pathways by which microbial communities in a serpentinite-influenced aquifer may produce biomass from the products of serpentinization. Serpentinization is a widespread geochemical process, taking place over large regions of the seafloor and at continental margins, where ancient seafloor has accreted onto the continents. Because of the difficulty in delineating abiotic and biotic processes in...

    Lauren M. Seyler, William J. Brazelton, Craig McLean, Lindsay I. Putman, Alex Hyer, Michael D. Y. Kubo, Tori Hoehler, Dawn Cardace, Matthew O. Schrenk
  • Open Access
    Long-Term Phytoremediation of Coastal Saline Soil Reveals Plant Species-Specific Patterns of Microbial Community Recruitment
    Research Article | Ecological and Evolutionary Science
    Long-Term Phytoremediation of Coastal Saline Soil Reveals Plant Species-Specific Patterns of Microbial Community Recruitment

    Despite knowing that phytoremediation by salt-tolerant plants is an effective technology for ameliorating saline soils and that microorganisms contribute significantly to plant stress tolerance and soil fertility, we still lack a comprehensive understanding of how microbes respond to the growth of salt-tolerant plants and the subsequent decline in soil salinity. The results of this study revealed different response patterns among...

    Xiaogai Wang, Ruibo Sun, Yinping Tian, Kai Guo, Hongyong Sun, Xiaojing Liu, Haiyan Chu, Binbin Liu
  • Open Access
    Prophage-Mediated Disruption of Genetic Competence in <span class="named-content genus-species" id="named-content-1">Staphylococcus pseudintermedius</span>
    Research Article | Ecological and Evolutionary Science
    Prophage-Mediated Disruption of Genetic Competence in Staphylococcus pseudintermedius

    Staphylococcus pseudintermedius is a bacterium responsible for clinically important infections in dogs and can infect humans. In this study, we performed genomic analysis of 371 S. pseudintermedius isolates to understand the evolution of antibiotic resistance and virulence in this organism. The...

    Michael R. Brooks, Lyan Padilla-Vélez, Tarannum A. Khan, Azaan A. Qureshi, Jason B. Pieper, Carol W. Maddox, Md Tauqeer Alam
  • Open Access
    The Remarkable Dual-Level Diversity of Prokaryotic Flagellins
    Research Article | Ecological and Evolutionary Science
    The Remarkable Dual-Level Diversity of Prokaryotic Flagellins

    Bacterial and archaeal flagellins are remarkable in having a shared region with variation in housekeeping proteins and a region with extreme diversity, perhaps greater than for any other protein. Analysis of the 113,285 available full-gene sequences of flagellin genes from published bacterial and archaeal sequences revealed the nature and enormous extent of flagellin diversity. There were 35,898 unique amino acid sequences that were...

    Dalong Hu, Peter R. Reeves

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