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 ta...

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Autores principales: Zhang, Jinxin, Feng, Yuqing, Hu, Yongfei
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier 2023
Materias:
Protocol
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9922956/
https://www.ncbi.nlm.nih.gov/pubmed/36853671
http://dx.doi.org/10.1016/j.xpro.2023.102071
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author Zhang, Jinxin
Feng, Yuqing
Hu, Yongfei
author_facet Zhang, Jinxin
Feng, Yuqing
Hu, Yongfei
author_sort Zhang, Jinxin
collection PubMed
description 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)
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spelling pubmed-99229562023-02-14 Integration of SNP genotyping and 16S rRNA amplicon sequencing to identify heritable gut microbes in chickens Zhang, Jinxin Feng, Yuqing Hu, Yongfei STAR Protoc Protocol 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) Elsevier 2023-01-27 /pmc/articles/PMC9922956/ /pubmed/36853671 http://dx.doi.org/10.1016/j.xpro.2023.102071 Text en © 2023 The Author(s) https://creativecommons.org/licenses/by-nc-nd/4.0/This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
spellingShingle Protocol
Zhang, Jinxin
Feng, Yuqing
Hu, Yongfei
Integration of SNP genotyping and 16S rRNA amplicon sequencing to identify heritable gut microbes in chickens
title Integration of SNP genotyping and 16S rRNA amplicon sequencing to identify heritable gut microbes in chickens
title_full Integration of SNP genotyping and 16S rRNA amplicon sequencing to identify heritable gut microbes in chickens
title_fullStr Integration of SNP genotyping and 16S rRNA amplicon sequencing to identify heritable gut microbes in chickens
title_full_unstemmed Integration of SNP genotyping and 16S rRNA amplicon sequencing to identify heritable gut microbes in chickens
title_short Integration of SNP genotyping and 16S rRNA amplicon sequencing to identify heritable gut microbes in chickens
title_sort integration of snp genotyping and 16s rrna amplicon sequencing to identify heritable gut microbes in chickens
topic Protocol
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9922956/
https://www.ncbi.nlm.nih.gov/pubmed/36853671
http://dx.doi.org/10.1016/j.xpro.2023.102071
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AT huyongfei integrationofsnpgenotypingand16srrnaampliconsequencingtoidentifyheritablegutmicrobesinchickens

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