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Ecological and Evolutionary Science

  • Open Access
    Emergence of Metabolite Provisioning as a By-Product of Evolved Biological Functions
    Opinion/Hypothesis | Ecological and Evolutionary Science
    Emergence of Metabolite Provisioning as a By-Product of Evolved Biological Functions

    Microbes commonly use metabolites produced by other organisms to compete effectively with others in their environment. As a result, microbial communities are composed of networks of metabolically interdependent organisms. How these networks evolve and shape population diversity, stability, and community function is a subject of active research. But how did these metabolic interactions develop initially? In particular, how and why are...

    Sebastian Gude, Gordon J. Pherribo, Michiko E. Taga
  • Open Access
    Coupling Bacterial Community Assembly to Microbial Metabolism across Soil Profiles
    Research Article | Ecological and Evolutionary Science
    Coupling Bacterial Community Assembly to Microbial Metabolism across Soil Profiles

    We have provided a framework to better understand the mechanisms governing the balance between stochastic and deterministic processes and to integrate the shifts in community assembly processes with microbial carbon metabolism. Our study reinforced that environmental filtering and bacterial cooccurrence patterns influence the stochastic/deterministic continuum of soil bacterial community assembly and that stochasticity may act through...

    Lu Luan, Chao Liang, Lijun Chen, Haotian Wang, Qinsong Xu, Yuji Jiang, Bo Sun
  • Open Access
    The Gut Microbiota Communities of Wild Arboreal and Ground-Feeding Tropical Primates Are Affected Differently by Habitat Disturbance
    Research Article | Ecological and Evolutionary Science
    The Gut Microbiota Communities of Wild Arboreal and Ground-Feeding Tropical Primates Are Affected Differently by Habitat Disturbance

    Gut microbiota diversity has become the subject of extensive research in human and nonhuman animals, linking diversity and composition to gut function and host health. Because wild primates are good indicators of tropical ecosystem health, we developed the idea that they are a suitable model to observe the consequences of advancing global change (e.g., habitat degradation) on gut microbiota. So far, most of the studies focus mainly on...

    Claudia Barelli, Davide Albanese, Rebecca M. Stumpf, Abigail Asangba, Claudio Donati, Francesco Rovero, Heidi C. Hauffe
  • Open Access
    Space Is More Important than Season when Shaping Soil Microbial Communities at a Large Spatial Scale
    Research Article | Ecological and Evolutionary Science
    Space Is More Important than Season when Shaping Soil Microbial Communities at a Large Spatial Scale

    Both space and time are key factors that regulate microbial community, but microbial temporal variation is often ignored at a large spatial scale. In this study, we compared spatial and seasonal effects on bacterial and fungal diversity variation across an 878-km transect and found direct evidence that space is far more important than season in regulating the soil microbial community. Partitioning the effect of season, space and...

    Kaoping Zhang, Manuel Delgado-Baquerizo, Yong-Guan Zhu, Haiyan Chu
  • Open Access
    Phages Actively Challenge Niche Communities in Antarctic Soils
    Editor's Pick Research Article | Ecological and Evolutionary Science
    Phages Actively Challenge Niche Communities in Antarctic Soils

    In Antarctic environments, the combination of both abiotic and biotic stressors results in simple trophic levels dominated by microbiomes. Although the past two decades have revealed substantial insights regarding the diversity and structure of microbiomes, we lack mechanistic insights regarding community interactions and how phages may affect these. By providing the first evidence of widespread antiphage innate immunity, we shed light...

    Oliver K. I. Bezuidt, Pedro Humberto Lebre, Rian Pierneef, Carlos León-Sobrino, Evelien M. Adriaenssens, Don A. Cowan, Yves Van de Peer, Thulani P. Makhalanyane
  • Open Access
    Deciphering the Structural Diversity and Classification of the Mobile Tigecycline Resistance Gene <em>tet</em>(X)-Bearing Plasmidome among Bacteria
    Research Article | Ecological and Evolutionary Science
    Deciphering the Structural Diversity and Classification of the Mobile Tigecycline Resistance Gene tet(X)-Bearing Plasmidome among Bacteria

    Tigecycline is an expanded-spectrum tetracycline used as a last-resort antimicrobial for treating infections caused by superbugs such as carbapenemase-producing or colistin-resistant pathogens. Emergence of the plasmid-mediated mobile tigecycline resistance gene tet(X4) created a great public health concern. However, the diversity of tet(X4)-bearing plasmids and bacteria remains largely uninvestigated. To cover this...

    Ruichao Li, Xiaoyu Lu, Kai Peng, Ziyi Liu, Yan Li, Yuan Liu, Xia Xiao, Zhiqiang Wang
  • Open Access
    Soil Microbial Biogeography in a Changing World: Recent Advances and Future Perspectives
    Sponsored Content Minireview | Ecological and Evolutionary Science
    Soil Microbial Biogeography in a Changing World: Recent Advances and Future Perspectives

    Soil microbial communities are fundamental to maintaining key soil processes associated with litter decomposition, nutrient cycling, and plant productivity and are thus integral to human well-being. Recent technological advances have exponentially increased our knowledge concerning the global ecological distributions of microbial communities across space and time and have provided evidence for their contribution to ecosystem functions...

    Haiyan Chu, Gui-Feng Gao, Yuying Ma, Kunkun Fan, Manuel Delgado-Baquerizo
  • Open Access
    Selection Is a Significant Driver of Gene Gain and Loss in the Pangenome of the Bacterial Genus <em>Sulfurovum</em> in Geographically Distinct Deep-Sea Hydrothermal Vents
    Editor's Pick Research Article | Ecological and Evolutionary Science
    Selection Is a Significant Driver of Gene Gain and Loss in the Pangenome of the Bacterial Genus Sulfurovum in Geographically Distinct Deep-Sea Hydrothermal Vents

    Microbes can alter their gene content through the gain and loss of genes. However, there is some debate as to whether natural selection or neutral processes play a stronger role in molding the gene content of microbial genomes. In this study, we examined variation in gene content for the Epsilonbacteraeota genus Sulfurovum from deep-sea hydrothermal vents, which are dynamic habitats known for extensive horizontal gene transfer...

    Alief Moulana, Rika E. Anderson, Caroline S. Fortunato, Julie A. Huber
  • Open Access
    Linking Light-Dependent Life History Traits with Population Dynamics for <em>Prochlorococcus</em> and Cyanophage
    Research Article | Ecological and Evolutionary Science
    Linking Light-Dependent Life History Traits with Population Dynamics for Prochlorococcus and Cyanophage

    The cyanobacterium Prochlorococcus is an essential member of global ocean ecosystems. Light rhythms drive Prochlorococcus photosynthesis, ecology, and interactions with potentially lethal viruses. At present, the impact of light on Prochlorococcus-virus interactions is not well understood. Here, we analyzed Prochlorococcus and virus population dynamics with a light-driven population model and compared...

    David Demory, Riyue Liu, Yue Chen, Fangxin Zhao, Ashley R. Coenen, Qinglu Zeng, Joshua S. Weitz
  • Open Access
    Genetic Determinants Enabling Medium-Dependent Adaptation to Nafcillin in Methicillin-Resistant <span class="named-content genus-species" id="named-content-1">Staphylococcus aureus</span>
    Research Article | Ecological and Evolutionary Science
    Genetic Determinants Enabling Medium-Dependent Adaptation to Nafcillin in Methicillin-Resistant Staphylococcus aureus

    The ability of pathogens such as Staphylococcus aureus to evolve resistance to antibiotics used in the treatment of infections has been an important concern in the last decades. Resistant acquisition usually translates into treatment failure and puts patients at risk of unfavorable outcomes. Furthermore, the laboratory testing of antibiotic resistance does not account...

    Michael J. Salazar, Henrique Machado, Nicholas A. Dillon, Hannah Tsunemoto, Richard Szubin, Samira Dahesh, Joseph Pogliano, George Sakoulas, Bernhard O. Palsson, Victor Nizet, Adam M. Feist

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