Genomic regions and pathways associated with gastrointestinal parasites resistance in Santa Ines breed adapted to tropical climate
Autor(a) principal: | |
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Data de Publicação: | 2017 |
Outros Autores: | , , , , , , , , , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Institucional da UNESP |
Texto Completo: | http://dx.doi.org/10.1186/s40104-017-0190-4 http://hdl.handle.net/11449/163216 |
Resumo: | Background: The aim of this study was to estimate variance components and to identify genomic regions and pathways associated with resistance to gastrointestinal parasites, particularly Haemonchus contortus, in a breed of sheep adapted to tropical climate. Phenotypes evaluations were performed to verify resistance to gastrointestinal parasites, and were divided into two categories: i) farm phenotypes, assessing body condition score (BCS), degree of anemia assessed by the famacha chart (FAM), fur score (FS) and feces consistency (FC); and ii) lab phenotypes, comprising blood analyses for hematocrit (HCT), white blood cell count (WBC), red blood cell count (RBC), hemoglobin (HGB), platelets (PLT) and transformed (log10) egg per gram of feces (EPG(log)). A total of 576 animals were genotyped with the Ovine SNP12k BeadChip (Illumina, Inc.), that contains 12,785 bialleleic SNP markers. The variance components were estimated using a single trait model by single step genomic BLUP procedure. Results: The overall linkage disequilibrium (LD) mean between pairs of markers measured by r(2) was 0.23. The overall LD mean between markers considering windows up to 10 Mb was 0.07. The mean LD between adjacent SNPs across autosomes ranged from 0.02 to 0.10. Heritability estimates were low for EPG(log) (0.11), moderate for RBC (0.18), PLT (0. 17) HCT (0.20), HGB (0.16) and WBC (0.22), and high for FAM (0.35). A total of 22, 21, 23, 20, 26, 25 and 23 windows for EPGlog for FAM, WBC, RBC, PLT, HCT and HGB traits were identified, respectively. Among the associated windows, 10 were shown to be common to HCT and HGB traits on OAR1, OAR2, OAR3, OAR5, OAR8 and OAR15. Conclusion: The traits indicating gastrointestinal parasites resistance presented an adequate genetic variability to respond to selection in Santa Ines breed, and it is expected a higher genetic gain for FAM trait when compared to the others. The level of LD estimated for markers separated by less than 1 Mb indicated that the Ovine SNP12k BeadChip might be a suitable tool for identifying genomic regions associated with traits related to gastrointestinal parasite resistance. Several candidate genes related to immune system development and activation, inflammatory response, regulation of lymphocytes and leukocytes proliferation were found. These genes may help in the selection of animals with higher resistance to parasites. |
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Genomic regions and pathways associated with gastrointestinal parasites resistance in Santa Ines breed adapted to tropical climateGwasLinkage disequilibriumParasites resistanceSanta Ines breedBackground: The aim of this study was to estimate variance components and to identify genomic regions and pathways associated with resistance to gastrointestinal parasites, particularly Haemonchus contortus, in a breed of sheep adapted to tropical climate. Phenotypes evaluations were performed to verify resistance to gastrointestinal parasites, and were divided into two categories: i) farm phenotypes, assessing body condition score (BCS), degree of anemia assessed by the famacha chart (FAM), fur score (FS) and feces consistency (FC); and ii) lab phenotypes, comprising blood analyses for hematocrit (HCT), white blood cell count (WBC), red blood cell count (RBC), hemoglobin (HGB), platelets (PLT) and transformed (log10) egg per gram of feces (EPG(log)). A total of 576 animals were genotyped with the Ovine SNP12k BeadChip (Illumina, Inc.), that contains 12,785 bialleleic SNP markers. The variance components were estimated using a single trait model by single step genomic BLUP procedure. Results: The overall linkage disequilibrium (LD) mean between pairs of markers measured by r(2) was 0.23. The overall LD mean between markers considering windows up to 10 Mb was 0.07. The mean LD between adjacent SNPs across autosomes ranged from 0.02 to 0.10. Heritability estimates were low for EPG(log) (0.11), moderate for RBC (0.18), PLT (0. 17) HCT (0.20), HGB (0.16) and WBC (0.22), and high for FAM (0.35). A total of 22, 21, 23, 20, 26, 25 and 23 windows for EPGlog for FAM, WBC, RBC, PLT, HCT and HGB traits were identified, respectively. Among the associated windows, 10 were shown to be common to HCT and HGB traits on OAR1, OAR2, OAR3, OAR5, OAR8 and OAR15. Conclusion: The traits indicating gastrointestinal parasites resistance presented an adequate genetic variability to respond to selection in Santa Ines breed, and it is expected a higher genetic gain for FAM trait when compared to the others. The level of LD estimated for markers separated by less than 1 Mb indicated that the Ovine SNP12k BeadChip might be a suitable tool for identifying genomic regions associated with traits related to gastrointestinal parasite resistance. Several candidate genes related to immune system development and activation, inflammatory response, regulation of lymphocytes and leukocytes proliferation were found. These genes may help in the selection of animals with higher resistance to parasites.Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)Univ Estadual Paulista, Fac Ciencias Agra & Vet, Dept Zootecnia, Via Acesso Prof Paulo Donato Castellane S-No, BR-14884900 Jaboticabal, SP, BrazilInst Nacl Invest & Tecnol Agr & Alimentaria INIA, Crta Coruna,Km 7,5, Madrid 28040, SpainUniv Politecn Madrid, Sch Agr Food & Byosyst Engn, Dept Prod Agr, Campus Ciudad Univ Ave Complutense 3, E-28040 Madrid, SpainINIA, Ruta 50 Km 12, Colonia, UruguayUniv Sao Paulo, Nucleo Apoio Pesquisa Melhoramento Anim Biotecnol, Fac Zootecnia & Engn Alimentos, Rua Duque de Caxias Norte 225, BR-13635900 Pirassununga, SP, BrazilUniv Estadual Paulista, Fac Ciencias Agra & Vet, Dept Zootecnia, Via Acesso Prof Paulo Donato Castellane S-No, BR-14884900 Jaboticabal, SP, BrazilFAPESP: 2010/05516-7FAPESP: 2011/00396-6FAPESP: 2014/07566-2Biomed Central LtdUniversidade Estadual Paulista (Unesp)Inst Nacl Invest & Tecnol Agr & Alimentaria INIAUniv Politecn MadridINIAUniversidade de São Paulo (USP)Berton, Mariana Piatto [UNESP]Oliveira Silva, Rafael Medeiros de [UNESP]Peripolli, Elisa [UNESP]Stafuzza, Nedenia Bonvino [UNESP]Martin, Jesus FernandezAlvarez, Maria SauraGavina, Beatriz VillanuevaToro, Miguel AngelBanchero, GeorggetOliveira, Priscila SilvaEler, Joanir PereiraBaldi, Fernando [UNESP]Sterman Ferraz, Jose Bento2018-11-26T17:40:33Z2018-11-26T17:40:33Z2017-09-04info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article16application/pdfhttp://dx.doi.org/10.1186/s40104-017-0190-4Journal Of Animal Science And Biotechnology. London: Biomed Central Ltd, v. 8, 16 p., 2017.2049-1891http://hdl.handle.net/11449/16321610.1186/s40104-017-0190-4WOS:000409543200001WOS000409543200001.pdfWeb of Sciencereponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPengJournal Of Animal Science And Biotechnologyinfo:eu-repo/semantics/openAccess2024-06-07T18:44:01Zoai:repositorio.unesp.br:11449/163216Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462024-08-05T21:49:56.893201Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)false |
dc.title.none.fl_str_mv |
Genomic regions and pathways associated with gastrointestinal parasites resistance in Santa Ines breed adapted to tropical climate |
title |
Genomic regions and pathways associated with gastrointestinal parasites resistance in Santa Ines breed adapted to tropical climate |
spellingShingle |
Genomic regions and pathways associated with gastrointestinal parasites resistance in Santa Ines breed adapted to tropical climate Berton, Mariana Piatto [UNESP] Gwas Linkage disequilibrium Parasites resistance Santa Ines breed |
title_short |
Genomic regions and pathways associated with gastrointestinal parasites resistance in Santa Ines breed adapted to tropical climate |
title_full |
Genomic regions and pathways associated with gastrointestinal parasites resistance in Santa Ines breed adapted to tropical climate |
title_fullStr |
Genomic regions and pathways associated with gastrointestinal parasites resistance in Santa Ines breed adapted to tropical climate |
title_full_unstemmed |
Genomic regions and pathways associated with gastrointestinal parasites resistance in Santa Ines breed adapted to tropical climate |
title_sort |
Genomic regions and pathways associated with gastrointestinal parasites resistance in Santa Ines breed adapted to tropical climate |
author |
Berton, Mariana Piatto [UNESP] |
author_facet |
Berton, Mariana Piatto [UNESP] Oliveira Silva, Rafael Medeiros de [UNESP] Peripolli, Elisa [UNESP] Stafuzza, Nedenia Bonvino [UNESP] Martin, Jesus Fernandez Alvarez, Maria Saura Gavina, Beatriz Villanueva Toro, Miguel Angel Banchero, Georgget Oliveira, Priscila Silva Eler, Joanir Pereira Baldi, Fernando [UNESP] Sterman Ferraz, Jose Bento |
author_role |
author |
author2 |
Oliveira Silva, Rafael Medeiros de [UNESP] Peripolli, Elisa [UNESP] Stafuzza, Nedenia Bonvino [UNESP] Martin, Jesus Fernandez Alvarez, Maria Saura Gavina, Beatriz Villanueva Toro, Miguel Angel Banchero, Georgget Oliveira, Priscila Silva Eler, Joanir Pereira Baldi, Fernando [UNESP] Sterman Ferraz, Jose Bento |
author2_role |
author author author author author author author author author author author author |
dc.contributor.none.fl_str_mv |
Universidade Estadual Paulista (Unesp) Inst Nacl Invest & Tecnol Agr & Alimentaria INIA Univ Politecn Madrid INIA Universidade de São Paulo (USP) |
dc.contributor.author.fl_str_mv |
Berton, Mariana Piatto [UNESP] Oliveira Silva, Rafael Medeiros de [UNESP] Peripolli, Elisa [UNESP] Stafuzza, Nedenia Bonvino [UNESP] Martin, Jesus Fernandez Alvarez, Maria Saura Gavina, Beatriz Villanueva Toro, Miguel Angel Banchero, Georgget Oliveira, Priscila Silva Eler, Joanir Pereira Baldi, Fernando [UNESP] Sterman Ferraz, Jose Bento |
dc.subject.por.fl_str_mv |
Gwas Linkage disequilibrium Parasites resistance Santa Ines breed |
topic |
Gwas Linkage disequilibrium Parasites resistance Santa Ines breed |
description |
Background: The aim of this study was to estimate variance components and to identify genomic regions and pathways associated with resistance to gastrointestinal parasites, particularly Haemonchus contortus, in a breed of sheep adapted to tropical climate. Phenotypes evaluations were performed to verify resistance to gastrointestinal parasites, and were divided into two categories: i) farm phenotypes, assessing body condition score (BCS), degree of anemia assessed by the famacha chart (FAM), fur score (FS) and feces consistency (FC); and ii) lab phenotypes, comprising blood analyses for hematocrit (HCT), white blood cell count (WBC), red blood cell count (RBC), hemoglobin (HGB), platelets (PLT) and transformed (log10) egg per gram of feces (EPG(log)). A total of 576 animals were genotyped with the Ovine SNP12k BeadChip (Illumina, Inc.), that contains 12,785 bialleleic SNP markers. The variance components were estimated using a single trait model by single step genomic BLUP procedure. Results: The overall linkage disequilibrium (LD) mean between pairs of markers measured by r(2) was 0.23. The overall LD mean between markers considering windows up to 10 Mb was 0.07. The mean LD between adjacent SNPs across autosomes ranged from 0.02 to 0.10. Heritability estimates were low for EPG(log) (0.11), moderate for RBC (0.18), PLT (0. 17) HCT (0.20), HGB (0.16) and WBC (0.22), and high for FAM (0.35). A total of 22, 21, 23, 20, 26, 25 and 23 windows for EPGlog for FAM, WBC, RBC, PLT, HCT and HGB traits were identified, respectively. Among the associated windows, 10 were shown to be common to HCT and HGB traits on OAR1, OAR2, OAR3, OAR5, OAR8 and OAR15. Conclusion: The traits indicating gastrointestinal parasites resistance presented an adequate genetic variability to respond to selection in Santa Ines breed, and it is expected a higher genetic gain for FAM trait when compared to the others. The level of LD estimated for markers separated by less than 1 Mb indicated that the Ovine SNP12k BeadChip might be a suitable tool for identifying genomic regions associated with traits related to gastrointestinal parasite resistance. Several candidate genes related to immune system development and activation, inflammatory response, regulation of lymphocytes and leukocytes proliferation were found. These genes may help in the selection of animals with higher resistance to parasites. |
publishDate |
2017 |
dc.date.none.fl_str_mv |
2017-09-04 2018-11-26T17:40:33Z 2018-11-26T17:40:33Z |
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/10.1186/s40104-017-0190-4 Journal Of Animal Science And Biotechnology. London: Biomed Central Ltd, v. 8, 16 p., 2017. 2049-1891 http://hdl.handle.net/11449/163216 10.1186/s40104-017-0190-4 WOS:000409543200001 WOS000409543200001.pdf |
url |
http://dx.doi.org/10.1186/s40104-017-0190-4 http://hdl.handle.net/11449/163216 |
identifier_str_mv |
Journal Of Animal Science And Biotechnology. London: Biomed Central Ltd, v. 8, 16 p., 2017. 2049-1891 10.1186/s40104-017-0190-4 WOS:000409543200001 WOS000409543200001.pdf |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
Journal Of Animal Science And Biotechnology |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.format.none.fl_str_mv |
16 application/pdf |
dc.publisher.none.fl_str_mv |
Biomed Central Ltd |
publisher.none.fl_str_mv |
Biomed Central Ltd |
dc.source.none.fl_str_mv |
Web of Science 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_ |
1808129363157188608 |