Host genetics drives differences in cecal microbiota composition and immune traits of laying hens raised in the same environment

Lecoeur, Alexandre; Blanc, Fany; Gourichon, David; Bruneau, Nicolas; Burlot, Thierry; Pinard-van der Laan, Marie-Hélène; Calenge, Fanny

doi:10.1016/j.psj.2024.103609

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Cited by 3 publications

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Microbiota but not immune modulation by a pro- and postbiotic was associated with the diet-additive interaction in broilers

Jansseune,

Blanc,

Lammers

et al. 2024

Poultry Science

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Microbiota but not immune modulation by a pro- and postbiotic was associated with the diet-additive interaction in broilers

Jansseune,

Blanc,

Lammers

et al. 2024

Poultry Science

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Co-evolution of the humoral immune and serotonergic systems in chickens selected for high or low blood antibody titer response to sheep red blood cells

Lyte,

Assumpcao,

Caputi

et al. 2025

Poultry Science

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Estimating the heritability of gut microbiota relative abundance in rabbits based on single- step genomic BLUP with accounting for the interdependencies

Chen,

Zhou,

Tian

et al. 2024

Preprint

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Background It has been well-known that animal gut microbiota is extensively involved in regulating host growth and health. Conversely, we still know less about the host genetic determination on gut microbiota composition. In the quantitative genetic framework, host genetic contribution to inter-individual variation of microbiota composition can be estimated using best linear unbiased prediction (BLUP) approaches and hence termed the microbial heritability. However, the BLUP estimates of microbial heritability may be biased as the taxonomic abundances are always expressed as relative proportions, which will lead to the interdependencies with each other. Results We used single-step genomic BLUP for estimating the heritability of gut microbiota relative abundance in rabbits that consisted of 1528 amplicon sequence variants (ASVs) of 16S rRNA gene. To address the interdependencies between the focal taxon and all remaining members, we directly fitted the background community as a random effect into the mixed linear model. Our results indicated the better fitting after including this random background community effect, which explained about 30% of the phenotype variance on average. Before and after including the background effect, 161 and 45 ASVs had the estimates of heritability greater than 0.05, respectively. Multiple of the 45 relatively high heritable ASVs were enriched in orders Bacteroidales (n = 11) and Oscillospirales (n = 9). Furthermore, there was no correlation between the heritability estimates of ASVs and their mean relative abundances. Conclusions We revealed some gut microbes in rabbits that are heritable on the compositional abundance, and provided a promising method to address the intrinsic interdependencies of relative abundance data for estimating heritability.

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Host genetics drives differences in cecal microbiota composition and immune traits of laying hens raised in the same environment

Cited by 3 publications

References 66 publications

Microbiota but not immune modulation by a pro- and postbiotic was associated with the diet-additive interaction in broilers

Microbiota but not immune modulation by a pro- and postbiotic was associated with the diet-additive interaction in broilers

Co-evolution of the humoral immune and serotonergic systems in chickens selected for high or low blood antibody titer response to sheep red blood cells

Estimating the heritability of gut microbiota relative abundance in rabbits based on single- step genomic BLUP with accounting for the interdependencies

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