Shotgun metagenomics reveals interkingdom association between intestinal bacteria and fungi involving competition for nutrients.

ABSTRACT:

Background

The accuracy of internal-transcribed-spacer (ITS) and shotgun metagenomics has not been robustly evaluated, and the effect of diet on the composition and function of the bacterial and fungal gut microbiome in a longitudinal setting has been poorly investigated. Here we compared two approaches to study the fungal community (ITS and shotgun metagenomics), proposed an enrichment protocol to perform a reliable mycobiome analysis using a comprehensive in-house fungal database, and correlated dietary data with both bacterial and fungal communities.

Results

We found that shotgun DNA sequencing after a new enrichment protocol combined with the most comprehensive and novel fungal databases provided a cost-effective approach to perform gut mycobiome profiling at the species

SUBMITTER: Xie Z 

PROVIDER: S-EPMC10720197 | biostudies-literature | 2023 Dec

REPOSITORIES: biostudies-literature