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Volume 10Issue 6June 2025
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EDITOR IN CHIEF: Dr. Jack A. Gilbert

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Publishing Companion Articles in Microbiology Resource Announcements (MRA)

Editor in Chief

mSystems EiC Gilbert
Dr. Jack A. Gilbert

Editor in Chief (2025) | University of California San Diego

Jack A. Gilbert is a Professor in Pediatrics and the Scripps Institution of Oceanography. Dr. Gilbert uses molecular tools to test fundamental hypotheses in microbial ecology. He cofounded the Earth Microbiome Project and has authored more than 350 peer-reviewed publications and book chapters on microbial ecology.

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Open AccessResearch ArticlemSystemsArticle
American Gut: an Open Platform for Citizen Science Microbiome Research
Open AccessMethods and ProtocolsmSystemsArticle
Improved Bacterial 16S rRNA Gene (V4 and V4-5) and Fungal Internal Transcribed Spacer Marker Gene Primers for Microbial Community Surveys

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mSystems Thinking Series

  • Critical Concepts in Dormancy Part II: Discriminating States of Microbial Activity
    March 7, 2025
    Dormancy is a critical strategy microorganisms can use to persist in unfavorable conditions. However, many cells regularly fluctuate in activity intensity from very low (e.g., spores) to very high (e.g., replicating cells). Outside of controlled cultures in the laboratory, it remains technically challenging to discriminate different states of microbial activity. Yet, this discrimination is fundamental to first assessing and then understanding the consequences of dormancy and re-activation within biological systems. This webinar will feature 4 experts who will discuss the cutting-edge approaches they use to quantify the activity of microbial cells, populations and communities and share their collective insights across a breadth of biological complexity, from cellular to environmental systems.
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mSystems Author Videos

  • Genome scale metabolic model of Staphylococcus epidermidis ATCC 12228 matches in vitro conditions
    June 11, 2025
    Staphylococcus epidermidis, a bacterium commonly found on human skin, has shown probiotic effects in the nasal microbiome and is a notable causative agent of hospital-acquired infections. While these infections are typically non-life-threatening, their economic impact is considerable, with annual costs reaching billions of dollars in the United States. To better understand its opportunistic nature, we employed genome-scale metabolic modeling to construct a detailed network of S. epidermidis’s metabolic capabilities. This model, comprising over a thousand reactions, metabolites, and genes, adheres to established standards and demonstrates solid benchmarking performance. Following the findable, accessible, interoperable, and reusable (FAIR) data principles, the model provides a valuable resource for future research. Growth simulations and predictions closely match experimental data, underscoring the model’s predictive accuracy. Overall, this work lays a solid foundation for future studies aimed at leveraging the beneficial properties of S. epidermidis while mitigating its pathogenic potential.
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