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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...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Elsevier
2023
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Materias: | |
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) |
format | Online Article Text |
id | pubmed-9922956 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Elsevier |
record_format | MEDLINE/PubMed |
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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