Genomic diversity landscape of the honey bee gut microbiota

Abstract

The structure and distribution of genomic diversity in natural microbial communities is largely unexplored. Here, we used shotgun metagenomics to assess the diversity of the honey bee gut microbiota, a community consisting of few bacterial phylotypes. Our results show that most phylotypes are composed of sequence-discrete populations, which co-exist in individual bees and show age-specific abundance profiles. In contrast, strains present within these sequence-discrete populations were found to segregate into individual bees. Consequently, despite a conserved phylotype composition, each honey bee harbors a distinct community at the functional level. While ecological differentiation seems to facilitate coexistence at higher taxonomic levels, our findings suggest that, at the level of strains, priority effects during community assembly result in individualized profiles, despite the social lifestyle of the host. Our study underscores the need to move beyond phylotype-level characterizations to understand the function of this community, and illustrates its potential for strain-level analysis.

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Cited by papers we hold 3

• Niche partitioning facilitates coexistence of closely related honey bee gut bacteria · 2021
  Corrected
• Honey bee ( Apis mellifera ) gut microbiota promotes host endogenous detoxification capability via regulation of P450 gene expression in the digestive tract · 2020
  No notice
• Gut microbiota structure differs between honeybees in winter and summer · 2019
  No notice

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