Runs of Homozygosity and Gene Identification in Pelibuey Sheep Using Genomic Data
Wilber Hernández-Montiel,
Nubia Noemi Cob-Calan,
Lilia E. Cahuich-Tzuc,
José A. Rueda,
Jorge Quiroz-Valiente,
Víctor Meza-Villalvazo,
Roberto Zamora-Bustillos
Affiliations
Wilber Hernández-Montiel
Instituto de Agroingeniería, Universidad del Papaloapan, Av. Ferrocarril s/n, Ciudad Universitaria, Campus Loma Bonita, Oaxaca 68400, Oaxaca, Mexico
Nubia Noemi Cob-Calan
Instituto Tecnológico Superior de Calkiní en el Estado de Campeche Av. Ah-Canul S/N por Carretera Federal Campeche-Mérida, Calkiní 24900, Campeche, Mexico
Lilia E. Cahuich-Tzuc
TecNM/Instituto Tecnológico de Conkal, Av. Tecnológico S/N, Conkal 97345, Yucatán, Mexico
José A. Rueda
Instituto de Agroingeniería, Universidad del Papaloapan, Av. Ferrocarril s/n, Ciudad Universitaria, Campus Loma Bonita, Oaxaca 68400, Oaxaca, Mexico
Jorge Quiroz-Valiente
Instituto Nacional de Investigaciones Forestales, Agrícolas y Pecuaria (INIFAP), Campo Experimental Huimanguillo, Huimanguillo 86400, Tabasco, Mexico
Víctor Meza-Villalvazo
Laboratorio de Biotecnología Animal, Universidad del Papaloapan, Circuito Central No. 200, Parque Industrial, Tuxtepec 68301, Oaxaca, Mexico
Roberto Zamora-Bustillos
TecNM/Instituto Tecnológico de Conkal, Av. Tecnológico S/N, Conkal 97345, Yucatán, Mexico
The runs of homozygosity (ROHs), the inbreeding coefficient, and the effective population size (Ne) in Pelibuey sheep were analyzed in 24 Pelibuey ewes from two lambs at parturition and 24 ewes that gave birth to a single lamb using the Ilumina OvineSNP50 BeadChip. The Ne decreased from 535 to 192 in the first ten generations. A total of 2194 ROHs were identified on the basis of single nucleotide polymorphisms (SNPs), were identified in the prolific group and 2185 SNPs in ROH in the non-prolific group. The distribution of the lengths of the ROH, considering both groups, were found to be: 4065 less than 6 Mb, 213 between 6 and 12 Mb, 72 between 12 and 24 Mb, twenty between 24 and 48 Mb and 8 greater than 48 Mb. In prolific sheep, the ROH associated with prolificacy were identified near the LINGO2, FLRT2, ADGRB3 genes, related to “positive regulation of synapse assembly”; and the DGKG, DGKE, DGKB and DGKI genes, related to “protein kinase C-activating G-protein coupled receptor signaling pathway”. The present work present genes that can function as signal mediators or have activity in embryonic development, which is relevant to the economic activity of this species.
