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  1. Research: Rapid evolution and strain turnover in the infant gut microbiome
    • Daisy W. Chen and
    • Nandita R. Garud
    Genome Res. June 2022 32: 1124-1136; Published in Advance May 11, 2022, doi:10.1101/gr.276306.121
    ...in infant gut microbiomes differ substantially from those of adults. Compared with adults, microbes in infants confront unique selective pressures. For example, infants have a relatively immature immune system compared to adults (Sjögren et al. 2009) and a vastly simpler diet composed primarily of milk...
  2. Research: Longitudinal linked-read sequencing reveals ecological and evolutionary responses of a human gut microbiome during antibiotic treatment
    • Morteza Roodgar,
    • Benjamin H. Good,
    • Nandita R. Garud,
    • Stephen Martis,
    • Mohan Avula,
    • Wenyu Zhou,
    • Samuel M. Lancaster,
    • Hayan Lee,
    • Afshin Babveyh,
    • Sophia Nesamoney,
    • Katherine S. Pollard,
    • and Michael P. Snyder
    Genome Res. August 2021 31: 1433-1446; Published in Advance July 22, 2021, doi:10.1101/gr.265058.120
    ...genetic forces that shape individual microbiomes on therapeutically relevant timescales, with potential implications for personalized health and disease.The composition of the gut microbiome varies among human populations and individuals, and it is thought to play a key role in maintaining health...
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  3. Research: Time series community genomics analysis reveals rapid shifts in bacterial species, strains, and phage during infant gut colonization
    • Itai Sharon,
    • Michael J. Morowitz,
    • Brian C. Thomas,
    • Elizabeth K. Costello,
    • David A. Relman,
    • and Jillian F. Banfield
    Genome Res. January 2013 23: 111-120; Published in Advance August 30, 2012, doi:10.1101/gr.142315.112
    ...at the species and strain level in the gut microbiome, can maintain or enhance ecosystem functioning in the face of environmental change (Backhed et al. 2005). Several studies published in recent years have demonstrated the significant functional differences associated with strain variation in medically relevant...
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