Runs of Homozygosity and Gene Identification in Pelibuey Sheep Using Genomic Data
The runs of homozygosity (ROHs), the inbreeding coefficient, and the effective population size (<i>Ne</i>) 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 <i>Ne...
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2022-06-01
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author | Wilber Hernández-Montiel Nubia Noemi Cob-Calan Lilia E. Cahuich-Tzuc José A. Rueda Jorge Quiroz-Valiente Víctor Meza-Villalvazo Roberto Zamora-Bustillos |
author_facet | Wilber Hernández-Montiel Nubia Noemi Cob-Calan Lilia E. Cahuich-Tzuc José A. Rueda Jorge Quiroz-Valiente Víctor Meza-Villalvazo Roberto Zamora-Bustillos |
author_sort | Wilber Hernández-Montiel |
collection | DOAJ |
description | The runs of homozygosity (ROHs), the inbreeding coefficient, and the effective population size (<i>Ne</i>) 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 <i>Ne</i> 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 <i>LINGO2</i>, <i>FLRT2</i>, <i>ADGRB3</i> genes, related to “positive regulation of synapse assembly”; and the <i>DGKG</i>, <i>DGKE</i>, <i>DGKB</i> and <i>DGKI</i> 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. |
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spelling | doaj.art-efe4fe41882b4fd6a7f8a62b76463cdb2023-12-03T14:54:23ZengMDPI AGDiversity1424-28182022-06-0114752210.3390/d14070522Runs of Homozygosity and Gene Identification in Pelibuey Sheep Using Genomic DataWilber Hernández-Montiel0Nubia Noemi Cob-Calan1Lilia E. Cahuich-Tzuc2José A. Rueda3Jorge Quiroz-Valiente4Víctor Meza-Villalvazo5Roberto Zamora-Bustillos6Instituto de Agroingeniería, Universidad del Papaloapan, Av. Ferrocarril s/n, Ciudad Universitaria, Campus Loma Bonita, Oaxaca 68400, Oaxaca, MexicoInstituto Tecnológico Superior de Calkiní en el Estado de Campeche Av. Ah-Canul S/N por Carretera Federal Campeche-Mérida, Calkiní 24900, Campeche, MexicoTecNM/Instituto Tecnológico de Conkal, Av. Tecnológico S/N, Conkal 97345, Yucatán, MexicoInstituto de Agroingeniería, Universidad del Papaloapan, Av. Ferrocarril s/n, Ciudad Universitaria, Campus Loma Bonita, Oaxaca 68400, Oaxaca, MexicoInstituto Nacional de Investigaciones Forestales, Agrícolas y Pecuaria (INIFAP), Campo Experimental Huimanguillo, Huimanguillo 86400, Tabasco, MexicoLaboratorio de Biotecnología Animal, Universidad del Papaloapan, Circuito Central No. 200, Parque Industrial, Tuxtepec 68301, Oaxaca, MexicoTecNM/Instituto Tecnológico de Conkal, Av. Tecnológico S/N, Conkal 97345, Yucatán, MexicoThe runs of homozygosity (ROHs), the inbreeding coefficient, and the effective population size (<i>Ne</i>) 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 <i>Ne</i> 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 <i>LINGO2</i>, <i>FLRT2</i>, <i>ADGRB3</i> genes, related to “positive regulation of synapse assembly”; and the <i>DGKG</i>, <i>DGKE</i>, <i>DGKB</i> and <i>DGKI</i> 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.https://www.mdpi.com/1424-2818/14/7/522Pelibueyinbreeding coefficientsheephomozygosity |
spellingShingle | Wilber Hernández-Montiel Nubia Noemi Cob-Calan Lilia E. Cahuich-Tzuc José A. Rueda Jorge Quiroz-Valiente Víctor Meza-Villalvazo Roberto Zamora-Bustillos Runs of Homozygosity and Gene Identification in Pelibuey Sheep Using Genomic Data Diversity Pelibuey inbreeding coefficient sheep homozygosity |
title | Runs of Homozygosity and Gene Identification in Pelibuey Sheep Using Genomic Data |
title_full | Runs of Homozygosity and Gene Identification in Pelibuey Sheep Using Genomic Data |
title_fullStr | Runs of Homozygosity and Gene Identification in Pelibuey Sheep Using Genomic Data |
title_full_unstemmed | Runs of Homozygosity and Gene Identification in Pelibuey Sheep Using Genomic Data |
title_short | Runs of Homozygosity and Gene Identification in Pelibuey Sheep Using Genomic Data |
title_sort | runs of homozygosity and gene identification in pelibuey sheep using genomic data |
topic | Pelibuey inbreeding coefficient sheep homozygosity |
url | https://www.mdpi.com/1424-2818/14/7/522 |
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