Linkage Disequilibrium-Based Inference of Genome Homology and Chromosomal Rearrangements Between Species

Registro completo de metadados
MetadadosDescriçãoIdioma
Autor(es): dc.contributorUniversity of Maryland-
Autor(es): dc.contributorUniversidade Estadual Paulista (Unesp)-
Autor(es): dc.contributorInstituto Federal Goiano-
Autor(es): dc.creatorde Abreu Santos, Daniel Jordan-
Autor(es): dc.creatorFerreira de Camargo, Gregório Miguel-
Autor(es): dc.creatorCardoso, Diercles Francisco-
Autor(es): dc.creatorBuzanskas, Marcos Eli [UNESP]-
Autor(es): dc.creatorAspilcueta-Borquis, Rusbel Raul-
Autor(es): dc.creatorHurtado-Lugo, Naudin Alejandro-
Autor(es): dc.creatorde Araújo Neto, Francisco Ribeiro-
Autor(es): dc.creatorGalvão de Albuquerque, Lúcia-
Autor(es): dc.creatorMa, Li-
Autor(es): dc.creatorTonhati, Humberto-
Data de aceite: dc.date.accessioned2022-02-22T00:26:31Z-
Data de disponibilização: dc.date.available2022-02-22T00:26:31Z-
Data de envio: dc.date.issued2020-12-11-
Data de envio: dc.date.issued2020-12-11-
Data de envio: dc.date.issued2020-07-07-
Fonte completa do material: dc.identifierhttp://dx.doi.org/10.1534/g3.120.401090-
Fonte completa do material: dc.identifierhttp://hdl.handle.net/11449/199126-
Fonte: dc.identifier.urihttp://educapes.capes.gov.br/handle/11449/199126-
Descrição: dc.descriptionThe aim of this study was to analyze the genomic homology between cattle (Bos taurus) and buffaloes (Bubalus bubalis) and to propose a rearrangement of the buffalo genome through linkage disequilibrium analyses of buffalo SNP markers referenced in the cattle genome assembly and also compare it to the buffalo genome assembly. A panel of bovine SNPs (single nucleotide polymorphisms) was used for hierarchical, non-hierarchical and admixture cluster analyses. Thus, the linkage disequilibrium information between markers of a specific panel of buffalo was used to infer chromosomal rearrangement. Haplotype diversity and imputation accuracy of the submetacentric chromosomes were also analyzed. The genomic homology between the species enabled us to use the bovine genome assembly to recreate a buffalo genomic reference by rearranging the submetacentric chromosomes. The centromere of the submetacentric chromosomes exhibited high linkage disequilibrium and low haplotype diversity. It allowed hypothesizing about chromosome evolution. It indicated that buffalo submetacentric chromosomes are a centric fusion of ancestral acrocentric chromosomes. The chronology of fusions was also suggested. Moreover, a linear regression between buffalo and cattle rearranged assembly and the imputation accuracy indicated that the rearrangement of the chromosomes was adequate. When using the bovine reference genome assembly, the rearrangement of the buffalo submetacentric chromosomes could be done by SNP BTA (chromosome of Bos taurus) calculations: shorter BTA (shorter arm of buffalo chromosome) was given as [(shorter BTA length - SNP position in shorter BTA)] and larger BTA length as [shorter BTA length + (larger BTA length - SNP position in larger BTA)]. Finally, the proposed linkage disequilibrium-based method can be applied to elucidate other chromosomal rearrangement events in other species with the possibility of better understanding the evolutionary relationship between their genomes.-
Descrição: dc.descriptionDepartamento de Zootecnia-
Descrição: dc.descriptionDepartment of Animal and Avian Sciences University of Maryland, College Park-
Descrição: dc.descriptionDepartamento de Ciências Exatas Universidade Estadual Paulista (Unesp)-
Descrição: dc.descriptionInstituto Federal Goiano, Campus Rio Verde-
Descrição: dc.descriptionDepartamento de Ciências Exatas Universidade Estadual Paulista (Unesp)-
Formato: dc.format2327-2343-
Idioma: dc.languageen-
Relação: dc.relationG3 (Bethesda, Md.)-
???dc.source???: dc.sourceScopus-
Palavras-chave: dc.subjectBuffalo-
Palavras-chave: dc.subjectCattle-
Palavras-chave: dc.subjectChromosome Evolution-
Palavras-chave: dc.subjectGenome Assembly-
Palavras-chave: dc.subjectGenotype Imputation-
Palavras-chave: dc.subjectHaplotype Diversity-
Palavras-chave: dc.subjectSNP-
Título: dc.titleLinkage Disequilibrium-Based Inference of Genome Homology and Chromosomal Rearrangements Between Species-
Tipo de arquivo: dc.typelivro digital-
Aparece nas coleções:Repositório Institucional - Unesp

Não existem arquivos associados a este item.