TY - JOUR

T1 - Trait-Based Method of Quantitative Assessment of Ecological Functional Groups in the Human Intestinal Microbiome

AU - Kropochev, Andrew I

AU - Lashin, Sergey A

AU - Matushkin, Yury G

AU - Klimenko, Alexandra I

N1 - Funding: The study was financially supported by Russian presidential grant for support of young scientists No. MK-3363.2022.1.4.

PY - 2023/1/11

Y1 - 2023/1/11

N2 - We propose the trait-based method for quantifying the activity of functional groups in the human gut microbiome based on metatranscriptomic data. It allows one to assess structural changes in the microbial community comprised of the following functional groups: butyrate-producers, acetogens, sulfate-reducers, and mucin-decomposing bacteria. It is another way to perform a functional analysis of metatranscriptomic data by focusing on the ecological level of the community under study. To develop the method, we used published data obtained in a carefully controlled environment and from a synthetic microbial community, where the problem of ambiguity between functionality and taxonomy is absent. The developed method was validated using RNA-seq data and sequencing data of the 16S rRNA amplicon on a simplified community. Consequently, the successful verification provides prospects for the application of this method for analyzing natural communities of the human intestinal microbiota.

AB - We propose the trait-based method for quantifying the activity of functional groups in the human gut microbiome based on metatranscriptomic data. It allows one to assess structural changes in the microbial community comprised of the following functional groups: butyrate-producers, acetogens, sulfate-reducers, and mucin-decomposing bacteria. It is another way to perform a functional analysis of metatranscriptomic data by focusing on the ecological level of the community under study. To develop the method, we used published data obtained in a carefully controlled environment and from a synthetic microbial community, where the problem of ambiguity between functionality and taxonomy is absent. The developed method was validated using RNA-seq data and sequencing data of the 16S rRNA amplicon on a simplified community. Consequently, the successful verification provides prospects for the application of this method for analyzing natural communities of the human intestinal microbiota.

UR - https://www.scopus.com/record/display.uri?eid=2-s2.0-85146817554&origin=inward&txGid=adacb9c31742c06c7e708b2e22d4f4cf

UR - https://www.mendeley.com/catalogue/14fed7ae-48f7-3128-b606-cc1a98839397/

U2 - 10.3390/biology12010115

DO - 10.3390/biology12010115

M3 - Article

C2 - 36671807

VL - 12

JO - Biology

JF - Biology

SN - 2079-7737

IS - 1

M1 - 115

ER -