Investigation of ancestral alleles in the Bovinae subfamily

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MetadadosDescriçãoIdioma
Autor(es): dc.contributorUniversity of Natural Resources and Life Sciences (BOKU)-
Autor(es): dc.contributorUniversidade Estadual Paulista (Unesp)-
Autor(es): dc.contributorInternational Atomic Energy Agency (IAEA) Collaborating Centre on Animal Genomics and Bioinformatics-
Autor(es): dc.contributorAgroPartners Consulting. R. Floriano Peixoto-
Autor(es): dc.contributorPersonal-PEC. R. Sebastiao Lima-
Autor(es): dc.contributorAgricultural Research Service USDA-
Autor(es): dc.creatorNaji, Maulana M.-
Autor(es): dc.creatorUtsunomiya, Yuri T. [UNESP]-
Autor(es): dc.creatorSölkner, Johann-
Autor(es): dc.creatorRosen, Benjamin D.-
Autor(es): dc.creatorMészáros, Gábor-
Data de aceite: dc.date.accessioned2022-02-22T00:45:40Z-
Data de disponibilização: dc.date.available2022-02-22T00:45:40Z-
Data de envio: dc.date.issued2021-06-25-
Data de envio: dc.date.issued2021-06-25-
Data de envio: dc.date.issued2021-11-30-
Fonte completa do material: dc.identifierhttp://dx.doi.org/10.1186/s12864-021-07412-9-
Fonte completa do material: dc.identifierhttp://hdl.handle.net/11449/205912-
Fonte: dc.identifier.urihttp://educapes.capes.gov.br/handle/11449/205912-
Descrição: dc.descriptionBackground: In evolutionary theory, divergence and speciation can arise from long periods of reproductive isolation, genetic mutation, selection and environmental adaptation. After divergence, alleles can either persist in their initial state (ancestral allele - AA), co-exist or be replaced by a mutated state (derived alleles -DA). In this study, we aligned whole genome sequences of individuals from the Bovinae subfamily to the cattle reference genome (ARS.UCD-1.2) for defining ancestral alleles necessary for selection signatures study. Results: Accommodating independent divergent of each lineage from the initial ancestral state, AA were defined based on fixed alleles on at least two groups of yak, bison and gayal-gaur-banteng resulting in ~ 32.4 million variants. Using non-overlapping scanning windows of 10 Kb, we counted the AA observed within taurine and zebu cattle. We focused on the extreme points, regions with top 0. 1% (high count) and regions without any occurrence of AA (null count). High count regions preserved gene functions from ancestral states that are still beneficial in the current condition, while null counts regions were linked to mutated ones. For both cattle, high count regions were associated with basal lipid metabolism, essential for survival of various environmental pressures. Mutated regions were associated to productive traits in taurine, i.e. higher metabolism, cell development and behaviors and in immune response domain for zebu. Conclusions: Our findings suggest that retaining and losing AA in some regions are varied and made it species-specific with possibility of overlapping as it depends on the selective pressure they had to experience.-
Descrição: dc.descriptionUniversity of Natural Resources and Life Sciences (BOKU)-
Descrição: dc.descriptionSão Paulo State University (Unesp) School of Veterinary Medicine Department of Production and Animal Health-
Descrição: dc.descriptionInternational Atomic Energy Agency (IAEA) Collaborating Centre on Animal Genomics and Bioinformatics-
Descrição: dc.descriptionAgroPartners Consulting. R. Floriano Peixoto, 120-Sala 43A-Centro-
Descrição: dc.descriptionPersonal-PEC. R. Sebastiao Lima, 1336-Centro-
Descrição: dc.descriptionAgricultural Research Service USDA-
Descrição: dc.descriptionSão Paulo State University (Unesp) School of Veterinary Medicine Department of Production and Animal Health-
Idioma: dc.languageen-
Relação: dc.relationBMC Genomics-
???dc.source???: dc.sourceScopus-
Palavras-chave: dc.subjectAncestral allele-
Palavras-chave: dc.subjectBovinae-
Palavras-chave: dc.subjectGene ontology-
Palavras-chave: dc.subjectWhole genome sequences-
Título: dc.titleInvestigation of ancestral alleles in the Bovinae subfamily-
Tipo de arquivo: dc.typelivro digital-
Aparece nas coleções:Repositório Institucional - Unesp

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