Integration of SNP genotyping and 16S rRNA amplicon sequencing to identify heritable gut microbes in chickens

The effect of host genetics on the gut microbiota is not fully understood. Here, we introduce a protocol that describes the steps necessary to analyze the SNP genotyping and amplicon sequencing data to identify heritable microbes in chicken gut. We apply this protocol to infer the cecal heritable taxa and their associated SNPs in chicken genome sequence. This will be beneficial for the identification of gut microbes that are influenced by host genetics in both humans and animals. For complete details on the use and execution of this protocol, please refer to Feng et al. (2022).¹.