Genomic integration to identify molecular biomarkers associated with indicator traits of gastrointestinal nematode resistance in sheep

Detalhes bibliográficos
Autor(a) principal: Berton, Mariana Piatto [UNESP]
Data de Publicação: 2022
Outros Autores: Silva, Rosiane Pereira da, Banchero, Georgget, Mourão, Gerson Barreto, Ferraz, Jose Bento Sterman, Schenkel, Flavio Schramm, Baldi, Fernando [UNESP]
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Institucional da UNESP
Texto Completo: http://dx.doi.org/10.1111/jbg.12682
http://hdl.handle.net/11449/240953
Resumo: This study aimed to integrate GWAS and structural variants to propose possible molecular biomarkers related to gastrointestinal nematode resistance traits in Santa Inês sheep. The phenotypic records FAMACHA, haematocrit, white blood cell count, red blood cell count, haemoglobin, platelets and egg counts per gram of faeces were collected from 700 naturally infected animals, belonging to four Brazilian flocks. A total of 576 animals were genotyped using the Ovine SNP12k BeadChip and were imputed using a reference population with Ovine SNP50 BeadChip. The GWAS approaches were based on SNPs, haplotypes, CNVs and ROH. The overlapping between the significant genomic regions detected from all approaches was investigated, and the results were integrated using a network analysis. Genes related to the immune system were found, such as ABCB1, IL6, WNT5A and IRF5. Genomic regions containing candidate genes and metabolic pathways involved in immune responses, inflammatory processes and immune cells affecting parasite resistance traits were identified. The genomic regions, biological processes and candidate genes uncovered could lead to biomarkers for selecting more resilient sheep and improving herd welfare and productivity. The results obtained are the start point to identify molecular biomarkers related to indicator traits of gastrointestinal nematode resistance in Santa Inês sheep.
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spelling Genomic integration to identify molecular biomarkers associated with indicator traits of gastrointestinal nematode resistance in sheepcopy number variantGWAShaplotypeintegration analysesrun of homozygositysystem biologyThis study aimed to integrate GWAS and structural variants to propose possible molecular biomarkers related to gastrointestinal nematode resistance traits in Santa Inês sheep. The phenotypic records FAMACHA, haematocrit, white blood cell count, red blood cell count, haemoglobin, platelets and egg counts per gram of faeces were collected from 700 naturally infected animals, belonging to four Brazilian flocks. A total of 576 animals were genotyped using the Ovine SNP12k BeadChip and were imputed using a reference population with Ovine SNP50 BeadChip. The GWAS approaches were based on SNPs, haplotypes, CNVs and ROH. The overlapping between the significant genomic regions detected from all approaches was investigated, and the results were integrated using a network analysis. Genes related to the immune system were found, such as ABCB1, IL6, WNT5A and IRF5. Genomic regions containing candidate genes and metabolic pathways involved in immune responses, inflammatory processes and immune cells affecting parasite resistance traits were identified. The genomic regions, biological processes and candidate genes uncovered could lead to biomarkers for selecting more resilient sheep and improving herd welfare and productivity. The results obtained are the start point to identify molecular biomarkers related to indicator traits of gastrointestinal nematode resistance in Santa Inês sheep.Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)Departamento de Zootecnia Faculdade de Ciências Agrárias e Veterinárias Universidade Estadual PaulistaFaculdade de Zootecnia e Engenharia de Alimentos Universidade de São PauloInstituto Nacional de Investigación Agropecuária (INIA)Departamento de Zootecnia Escola Superior de Agricultura “Luiz de Queiroz” Universidade de São Paulo/ESALQCentre for Genetic Improvement of Livestock University of GuelphDepartamento de Zootecnia Faculdade de Ciências Agrárias e Veterinárias Universidade Estadual PaulistaFAPESP: 2014/07566-FAPESP: 2018/25247-2Universidade Estadual Paulista (UNESP)Universidade de São Paulo (USP)Instituto Nacional de Investigación Agropecuária (INIA)University of GuelphBerton, Mariana Piatto [UNESP]Silva, Rosiane Pereira daBanchero, GeorggetMourão, Gerson BarretoFerraz, Jose Bento StermanSchenkel, Flavio SchrammBaldi, Fernando [UNESP]2023-03-01T20:40:18Z2023-03-01T20:40:18Z2022-09-01info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article502-516http://dx.doi.org/10.1111/jbg.12682Journal of Animal Breeding and Genetics, v. 139, n. 5, p. 502-516, 2022.1439-03880931-2668http://hdl.handle.net/11449/24095310.1111/jbg.126822-s2.0-85129667821Scopusreponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPengJournal of Animal Breeding and Geneticsinfo:eu-repo/semantics/openAccess2024-06-07T18:45:07Zoai:repositorio.unesp.br:11449/240953Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462024-08-05T23:54:19.035149Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)false
dc.title.none.fl_str_mv Genomic integration to identify molecular biomarkers associated with indicator traits of gastrointestinal nematode resistance in sheep
title Genomic integration to identify molecular biomarkers associated with indicator traits of gastrointestinal nematode resistance in sheep
spellingShingle Genomic integration to identify molecular biomarkers associated with indicator traits of gastrointestinal nematode resistance in sheep
Berton, Mariana Piatto [UNESP]
copy number variant
GWAS
haplotype
integration analyses
run of homozygosity
system biology
title_short Genomic integration to identify molecular biomarkers associated with indicator traits of gastrointestinal nematode resistance in sheep
title_full Genomic integration to identify molecular biomarkers associated with indicator traits of gastrointestinal nematode resistance in sheep
title_fullStr Genomic integration to identify molecular biomarkers associated with indicator traits of gastrointestinal nematode resistance in sheep
title_full_unstemmed Genomic integration to identify molecular biomarkers associated with indicator traits of gastrointestinal nematode resistance in sheep
title_sort Genomic integration to identify molecular biomarkers associated with indicator traits of gastrointestinal nematode resistance in sheep
author Berton, Mariana Piatto [UNESP]
author_facet Berton, Mariana Piatto [UNESP]
Silva, Rosiane Pereira da
Banchero, Georgget
Mourão, Gerson Barreto
Ferraz, Jose Bento Sterman
Schenkel, Flavio Schramm
Baldi, Fernando [UNESP]
author_role author
author2 Silva, Rosiane Pereira da
Banchero, Georgget
Mourão, Gerson Barreto
Ferraz, Jose Bento Sterman
Schenkel, Flavio Schramm
Baldi, Fernando [UNESP]
author2_role author
author
author
author
author
author
dc.contributor.none.fl_str_mv Universidade Estadual Paulista (UNESP)
Universidade de São Paulo (USP)
Instituto Nacional de Investigación Agropecuária (INIA)
University of Guelph
dc.contributor.author.fl_str_mv Berton, Mariana Piatto [UNESP]
Silva, Rosiane Pereira da
Banchero, Georgget
Mourão, Gerson Barreto
Ferraz, Jose Bento Sterman
Schenkel, Flavio Schramm
Baldi, Fernando [UNESP]
dc.subject.por.fl_str_mv copy number variant
GWAS
haplotype
integration analyses
run of homozygosity
system biology
topic copy number variant
GWAS
haplotype
integration analyses
run of homozygosity
system biology
description This study aimed to integrate GWAS and structural variants to propose possible molecular biomarkers related to gastrointestinal nematode resistance traits in Santa Inês sheep. The phenotypic records FAMACHA, haematocrit, white blood cell count, red blood cell count, haemoglobin, platelets and egg counts per gram of faeces were collected from 700 naturally infected animals, belonging to four Brazilian flocks. A total of 576 animals were genotyped using the Ovine SNP12k BeadChip and were imputed using a reference population with Ovine SNP50 BeadChip. The GWAS approaches were based on SNPs, haplotypes, CNVs and ROH. The overlapping between the significant genomic regions detected from all approaches was investigated, and the results were integrated using a network analysis. Genes related to the immune system were found, such as ABCB1, IL6, WNT5A and IRF5. Genomic regions containing candidate genes and metabolic pathways involved in immune responses, inflammatory processes and immune cells affecting parasite resistance traits were identified. The genomic regions, biological processes and candidate genes uncovered could lead to biomarkers for selecting more resilient sheep and improving herd welfare and productivity. The results obtained are the start point to identify molecular biomarkers related to indicator traits of gastrointestinal nematode resistance in Santa Inês sheep.
publishDate 2022
dc.date.none.fl_str_mv 2022-09-01
2023-03-01T20:40:18Z
2023-03-01T20:40:18Z
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
format article
status_str publishedVersion
dc.identifier.uri.fl_str_mv http://dx.doi.org/10.1111/jbg.12682
Journal of Animal Breeding and Genetics, v. 139, n. 5, p. 502-516, 2022.
1439-0388
0931-2668
http://hdl.handle.net/11449/240953
10.1111/jbg.12682
2-s2.0-85129667821
url http://dx.doi.org/10.1111/jbg.12682
http://hdl.handle.net/11449/240953
identifier_str_mv Journal of Animal Breeding and Genetics, v. 139, n. 5, p. 502-516, 2022.
1439-0388
0931-2668
10.1111/jbg.12682
2-s2.0-85129667821
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv Journal of Animal Breeding and Genetics
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv 502-516
dc.source.none.fl_str_mv Scopus
reponame:Repositório Institucional da UNESP
instname:Universidade Estadual Paulista (UNESP)
instacron:UNESP
instname_str Universidade Estadual Paulista (UNESP)
instacron_str UNESP
institution UNESP
reponame_str Repositório Institucional da UNESP
collection Repositório Institucional da UNESP
repository.name.fl_str_mv Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)
repository.mail.fl_str_mv
_version_ 1808129563520139264

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