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Applied and Environmental Science

  • Open Access
    Temperature-Induced Annual Variation in Microbial Community Changes and Resulting Metabolome Shifts in a Controlled Fermentation System
    Research Article | Applied and Environmental Science
    Temperature-Induced Annual Variation in Microbial Community Changes and Resulting Metabolome Shifts in a Controlled Fermentation System

    We used Chinese liquor fermentation as a model system to show that microbiome composition changes more dramatically across seasons than throughout the fermentation process within seasons. These changes translate to differences in the metabolome as the ultimate functional outcome of microbial activity, suggesting that temporal changes in microbiome composition are translating into functional changes. This result is striking as it...

    Shilei Wang, Wu Xiong, Yuqiao Wang, Yao Nie, Qun Wu, Yan Xu, Stefan Geisen
  • Open Access
    Long-Term Chemical-Only Fertilization Induces a Diversity Decline and Deep Selection on the Soil Bacteria
    Research Article | Applied and Environmental Science
    Long-Term Chemical-Only Fertilization Induces a Diversity Decline and Deep Selection on the Soil Bacteria

    Chemical-only fertilization is ubiquitous in contemporary conventional agriculture despite the fact that sustainability of this agricultural practice is increasingly being questioned because of the current observed soil degradation. We explored how long-term chemical-only versus organic-only fertilizations impacted the soil microbiota reservoir in terms of both diversity and induced assembly processes. The results showed that long-term...

    Qicheng Xu, Ning Ling, Huan Chen, Yinghua Duan, Shuang Wang, Qirong Shen, Philippe Vandenkoornhuyse
  • Open Access
    Soil Carbon, Nitrogen, and Phosphorus Cycling Microbial Populations and Their Resistance to Global Change Depend on Soil C:N:P Stoichiometry
    Research Article | Applied and Environmental Science
    Soil Carbon, Nitrogen, and Phosphorus Cycling Microbial Populations and Their Resistance to Global Change Depend on Soil C:N:P Stoichiometry

    To be effective in predicting future stability of soil functions in the context of various external disturbances, it is necessary to follow the effects of global change on functionally specialized microbes related to C and nutrient cycling. Our study represents an exploratory effort to couple the stoichiometric drivers to microbial populations related with main C, N, and P cycling and their resistances to global change. The abundance of...

    Gongwen Luo, Chao Xue, Qianhong Jiang, Yan Xiao, Fengge Zhang, Shiwei Guo, Qirong Shen, Ning Ling
  • Open Access
    Differential Ecosystem Function Stability of Ammonia-Oxidizing Archaea and Bacteria following Short-Term Environmental Perturbation
    Research Article | Applied and Environmental Science
    Differential Ecosystem Function Stability of Ammonia-Oxidizing Archaea and Bacteria following Short-Term Environmental Perturbation

    Physiological and ecological studies have provided evidence for pH-driven niche specialization of ammonia oxidizers in terrestrial ecosystems. However, the functional stability of ammonia oxidizers following pH change has not been investigated, despite its importance in understanding the maintenance of ecosystem processes following environmental perturbation. This is particularly true after anthropogenic perturbation, such as the...

    Jun Zhao, Yiyu Meng, Julia Drewer, Ute M. Skiba, James I. Prosser, Cécile Gubry-Rangin
  • Open Access
    Protections against the Risk of Airborne SARS-CoV-2 Infection
    Letter to the Editor | Applied and Environmental Science
    Protections against the Risk of Airborne SARS-CoV-2 Infection
    Clement J. McDonald
  • Open Access
    Reply to McDonald, “Protections against the Risk of Airborne SARS-CoV-2 Infection”
    Author Reply | Applied and Environmental Science
    Reply to McDonald, “Protections against the Risk of Airborne SARS-CoV-2 Infection”
    Leslie Dietz, Patrick F. Horve, David A. Coil, Mark Fretz, Jonathan A. Eisen, Kevin Van Den Wymelenberg
  • Open Access
    Roles of Organohalide-Respiring <em>Dehalococcoidia</em> in Carbon Cycling
    Perspective | Applied and Environmental Science
    Roles of Organohalide-Respiring Dehalococcoidia in Carbon Cycling

    The class Dehalococcoidia within the Chloroflexi phylum comprises the obligate organohalide-respiring genera Dehalococcoides, Dehalogenimonas, and “Candidatus Dehalobium.” Knowledge of the unique ecophysiology and biochemistry of Dehalococcoidia has been largely derived from studies with enrichment cultures and isolates from sites impacted with chlorinated pollutants; however,...

    Yi Yang, Robert Sanford, Jun Yan, Gao Chen, Natalie L. Cápiro, Xiuying Li, Frank E. Löffler
  • Open Access
    Shifts in the Bacterial Population and Ecosystem Functions in Response to Vegetation in the Yellow River Delta Wetlands
    Research Article | Applied and Environmental Science
    Shifts in the Bacterial Population and Ecosystem Functions in Response to Vegetation in the Yellow River Delta Wetlands

    Vegetation probably represents the most crucial step for the ecosystem functions of wetlands, but it is unclear how microbial populations and functions shift in pace with the colonization and succession of vegetation. In this study, we found that a Cyanobacteria monospecies genus and a Gemmatimonadetes multispecies genus are fastidiously predominant in the bare and vegetative wetlands of the Yellow River Delta,...

    Jianing Wang, Jingjing Wang, Zheng Zhang, Zhifeng Li, Zhiguo Zhang, Decun Zhao, Lidong Wang, Feng Lu, Yue-zhong Li
  • Open Access
    Nitrogen Source Governs Community Carbon Metabolism in a Model Hypersaline Benthic Phototrophic Biofilm
    Research Article | Applied and Environmental Science
    Nitrogen Source Governs Community Carbon Metabolism in a Model Hypersaline Benthic Phototrophic Biofilm

    Anthropogenic inputs of nitrogen into aquatic ecosystems, and especially those of agricultural origin, involve a mix of chemical species. Although it is well-known in general that nitrogen eutrophication markedly influences the metabolism of aquatic phototrophic communities, relatively little is known regarding whether the specific chemical form of nitrogen inputs matter. Our data suggest that the nitrogen form alters the rate of...

    Christopher R. Anderton, Jennifer M. Mobberley, Jessica K. Cole, Jamie R. Nunez, Robert Starke, Amy A. Boaro, Yasemin Yesiltepe, Beau R. Morton, Alexandra B. Cory, Hayley C. Cardamone, Kirsten S. Hofmockel, Mary S. Lipton, James J. Moran, Ryan S. Renslow, James K. Fredrickson, Stephen R. Lindemann
  • Open Access
    <em>In Silico</em> Analysis Highlights the Diversity and Novelty of Circular Bacteriocins in Sequenced Microbial Genomes
    Research Article | Applied and Environmental Science
    In Silico Analysis Highlights the Diversity and Novelty of Circular Bacteriocins in Sequenced Microbial Genomes

    Circular bacteriocins are promising biopreservatives, and it is important to identify more novel circular bacteriocins to enhance the current arsenal of antimicrobials. In this study, we used an in silico approach to identify a large number of novel circular bacteriocins and classified these bacteriocins into 28 groups rather than the 2 groups that were described in previous studies. Nineteen groups were novel and had low...

    Bingyue Xin, Hualin Liu, Jinshui Zheng, Chuanshuai Xie, Ying Gao, Dadong Dai, Donghai Peng, Lifang Ruan, Huanchun Chen, Ming Sun

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