Function and functional redundancy in microbial systems

S Louca, MF Polz, F Mazel, MBN Albright… - Nature ecology & …, 2018 - nature.com
Microbial communities often exhibit incredible taxonomic diversity, raising questions
regarding the mechanisms enabling species coexistence and the role of this diversity in …

Analysis of microbial compositions: a review of normalization and differential abundance analysis

H Lin, SD Peddada - NPJ biofilms and microbiomes, 2020 - nature.com
Increasingly, researchers are discovering associations between microbiome and a wide
range of human diseases such as obesity, inflammatory bowel diseases, HIV, and so on …

MiDAS 4: A global catalogue of full-length 16S rRNA gene sequences and taxonomy for studies of bacterial communities in wastewater treatment plants

MKD Dueholm, M Nierychlo, KS Andersen… - Nature …, 2022 - nature.com
Microbial communities are responsible for biological wastewater treatment, but our
knowledge of their diversity and function is still poor. Here, we sequence more than 5 million …

Stochastic community assembly: does it matter in microbial ecology?

J Zhou, D Ning - Microbiology and molecular biology reviews, 2017 - Am Soc Microbiol
Understanding the mechanisms controlling community diversity, functions, succession, and
biogeography is a central, but poorly understood, topic in ecology, particularly in microbial …

Diversity-triggered deterministic bacterial assembly constrains community functions

W Xun, W Li, W Xiong, Y Ren, Y Liu, Y Miao… - Nature …, 2019 - nature.com
A growing body of evidence suggests that microbial α-diversity (local species richness) may
have positive effects on ecosystem function. However, less attention has been paid to β …

The biomass and biodiversity of the continental subsurface

C Magnabosco, LH Lin, H Dong, M Bomberg… - Nature …, 2018 - nature.com
Despite accounting for a significant portion of the Earth's prokaryotic biomass, controls on
the abundance and biodiversity of microorganisms residing in the continental subsurface …

Normalization and microbial differential abundance strategies depend upon data characteristics

S Weiss, ZZ Xu, S Peddada, A Amir, K Bittinger… - Microbiome, 2017 - Springer
Background Data from 16S ribosomal RNA (rRNA) amplicon sequencing present
challenges to ecological and statistical interpretation. In particular, library sizes often vary …

Scaling laws predict global microbial diversity

KJ Locey, JT Lennon - … of the National Academy of Sciences, 2016 - National Acad Sciences
Scaling laws underpin unifying theories of biodiversity and are among the most predictively
powerful relationships in biology. However, scaling laws developed for plants and animals …

Dynamic microbiome evolution in social bees

WK Kwong, LA Medina, H Koch, KW Sing, EJY Soh… - Science …, 2017 - science.org
The highly social (eusocial) corbiculate bees, comprising the honey bees, bumble bees, and
stingless bees, are ubiquitous insect pollinators that fulfill critical roles in ecosystem services …

Drivers of microbiome biodiversity: a review of general rules, feces, and ignorance

AT Reese, RR Dunn - MBio, 2018 - Am Soc Microbiol
The alpha diversity of ecologic communities is affected by many biotic and abiotic drivers
and, in turn, affects ecosystem functioning. Yet, patterns of alpha diversity in host-associated …