Sequencing-based analysis of microbiomes

Y Pinto, AS Bhatt - Nature Reviews Genetics, 2024 - nature.com
Microbiomes occupy a range of niches and, in addition to having diverse compositions, they
have varied functional roles that have an impact on agriculture, environmental sciences, and …

[HTML][HTML] Hierarchical eco-evo dynamics mediated by the gut microbiome

E Decaestecker, B Van de Moortel, S Mukherjee… - Trends in Ecology & …, 2024 - cell.com
The concept of eco-evolutionary (eco-evo) dynamics, stating that ecological and
evolutionary processes occur at similar time scales and influence each other, has …

Microbial-derived tryptophan metabolites and their role in neurological disease: anthranilic acid and anthranilic acid derivatives

C Shaw, M Hess, BC Weimer - Microorganisms, 2023 - mdpi.com
The gut microbiome provides the host access to otherwise indigestible nutrients, which are
often further metabolized by the microbiome into bioactive components. The gut microbiome …

Eco-evolutionary feedbacks in the human gut microbiome

BH Good, LB Rosenfeld - Nature Communications, 2023 - nature.com
Gut microbiota can evolve within their hosts on human-relevant timescales, but little is
known about how these changes influence (or are influenced by) the composition of their …

Predicting the first steps of evolution in randomly assembled communities

J McEnany, BH Good - Nature Communications, 2024 - nature.com
Microbial communities can self-assemble into highly diverse states with predictable
statistical properties. However, these initial states can be disrupted by rapid evolution of the …

The costs and benefits of a dynamic host microbiome

MAF Gillingham, H Prüter, BK Montero… - Trends in Ecology & …, 2024 - cell.com
All species host a rich community of microbes. This microbiome is dynamic, and displays
seasonal, daily, and even hourly changes, but also needs to be resilient to fulfill important …

Investigating macroecological patterns in coarse-grained microbial communities using the stochastic logistic model of growth

WR Shoemaker, J Grilli - Elife, 2024 - elifesciences.org
The structure and diversity of microbial communities are intrinsically hierarchical due to the
shared evolutionary history of their constituents. This history is typically captured through …

From wolves to humans: oral microbiome resistance to transfer across mammalian hosts

NA Podar, AA Carrell, KA Cassidy, DM Klingeman… - Mbio, 2024 - Am Soc Microbiol
The mammalian mouth is colonized by complex microbial communities, adapted to specific
niches, and in homeostasis with the host. Individual microbes interact metabolically and rely …

A macroecological perspective on genetic diversity in the human gut microbiome

WR Shoemaker - PLoS One, 2023 - journals.plos.org
While the human gut microbiome has been intensely studied, we have yet to obtain a
sufficient understanding of the genetic diversity that it harbors. Research efforts have …

Parallel evolution of alternate morphotypes of Chryseobacterium gleum during experimental evolution with Caenorhabditis elegans

M Duckett, MN Taylor, C Bowman… - FEMS Microbiology …, 2024 - academic.oup.com
Microbial evolution within polymicrobial communities is a complex process. Here, we report
within-species diversification within multispecies microbial communities during experimental …