Redox traits characterize the organization of global microbial communities

Proceedings of the National Academy of Sciences of the United States of America
Salvador Ramírez-FlandesOsvaldo Ulloa

Abstract

The structure of biological communities is conventionally described as profiles of taxonomic units, whose ecological functions are assumed to be known or, at least, predictable. In environmental microbiology, however, the functions of a majority of microorganisms are unknown and expected to be highly dynamic and collectively redundant, obscuring the link between taxonomic structure and ecosystem functioning. Although genetic trait-based approaches at the community level might overcome this problem, no obvious choice of gene categories can be identified as appropriate descriptive units in a general ecological context. We used 247 microbial metagenomes from 18 biomes to determine which set of genes better characterizes the differences among biomes on the global scale. We show that profiles of oxidoreductase genes support the highest biome differentiation compared with profiles of other categories of enzymes, general protein-coding genes, transporter genes, and taxonomic gene markers. Based on oxidoreductases' description of microbial communities, the role of energetics in differentiation and particular ecosystem function of different biomes become readily apparent. We also show that taxonomic diversity is decoupled from functiona...Continue Reading

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Citations

May 20, 2020·Nature Communications·Nicholas D WardLisamarie Windham-Myers
Jul 13, 2019·Trends in Microbiology·Geneviève Lajoie, Steven W Kembel
May 4, 2021·The Science of the Total Environment·Huan-Qin LiJian-Qiang Su
Nov 19, 2021·Frontiers in Microbiology·Huaihai ChenChengjin Chu

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Software Mentioned

PERMANOVA
Gephi
OpenOrd
DIAMOND
R package Pvclust

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