Identification of candidate genes for reproductive traits in cattle using a functional interaction network approach
Reproduction is a key element in cattle production systems. Systems biology approaches, including those involving gene networks, have been applied to genetic dissection complex phenotypes in cattle. A set of 385 genes associated with reproductive traits in cattle were included in a protein-protein n...
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| Format: | Article |
| Language: | English |
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Instituto Nacional del Investigaciones Forestales, Agrícolas y Pecuarias
2020-07-01
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| Series: | Revista Mexicana de Ciencias Pecuarias |
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| Online Access: | https://cienciaspecuarias.inifap.gob.mx/index.php/Pecuarias/article/view/5279/4985 |
| _version_ | 1811275887716335616 |
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| author | Francisco Alejandro Paredes-Sánchez Daniel Trejo-Martínez Elsa Verónica Herrera-Mayorga Williams Arellano-Vera Felipe Rodríguez Almeida Ana María Sifuentes-Rincón |
| author_facet | Francisco Alejandro Paredes-Sánchez Daniel Trejo-Martínez Elsa Verónica Herrera-Mayorga Williams Arellano-Vera Felipe Rodríguez Almeida Ana María Sifuentes-Rincón |
| author_sort | Francisco Alejandro Paredes-Sánchez |
| collection | DOAJ |
| description | Reproduction is a key element in cattle production systems. Systems biology approaches, including those involving gene networks, have been applied to genetic dissection complex phenotypes in cattle. A set of 385 genes associated with reproductive traits in cattle were included in a protein-protein network analysis to identify and prioritize candidate genes related to phenotypic differences in cattle reproduction. Genes belonging to the ubiquitin family - Ubiquitin C (Ubc, Gene ID: 444874) and Ubiquitin B (Ubb, Gene ID: 281370) -had the highest probability of being associated with these traits in cattle. Both proteins were identified as important hubs in a protein-protein interaction network, each having 3,775 interactions of 3,856 possible. Resequencing of the Ubb gene coding region to evaluate the presence of SNPs in a discovery population identified the G/T (rs110366695) transversion. This causes emergence of a stop codon and a protein truncated by 287 aa. The allelic frequency distributions found in two beef cattle breeds highlight the promise of further research into the effects of protein truncation and the potential of these proteins as molecular markers for semen quality. |
| first_indexed | 2024-04-12T23:46:56Z |
| format | Article |
| id | doaj.art-52d0adddf8444075b53734e37aaf47d5 |
| institution | Directory Open Access Journal |
| issn | 2007-1124 2448-6698 |
| language | English |
| last_indexed | 2024-04-12T23:46:56Z |
| publishDate | 2020-07-01 |
| publisher | Instituto Nacional del Investigaciones Forestales, Agrícolas y Pecuarias |
| record_format | Article |
| series | Revista Mexicana de Ciencias Pecuarias |
| spelling | doaj.art-52d0adddf8444075b53734e37aaf47d52022-12-22T03:11:50ZengInstituto Nacional del Investigaciones Forestales, Agrícolas y PecuariasRevista Mexicana de Ciencias Pecuarias2007-11242448-66982020-07-01113894904https://doi.org/10.22319/rmcp.v11i3.5279Identification of candidate genes for reproductive traits in cattle using a functional interaction network approachFrancisco Alejandro Paredes-Sánchez0Daniel Trejo-Martínez1Elsa Verónica Herrera-Mayorga2Williams Arellano-Vera3Felipe Rodríguez Almeida4Ana María Sifuentes-Rincón5CENTRO BIOTECNOLOGÍA GENÓMICA -IPNInstituto Politécnico Nacional. UPIIZ-, Zacatecas, México.Universidad Autónoma de Tamaulipas IBI. UAMM. Mante, México Instituto Politécnico Nacional. Centro de Biotecnología Genómica. Laboratorio de Biotecnología Animal.Universidad Autónoma de Chihuahua. Facultad de Zootecnia y Ecología. Chihuahua, México. Instituto Politécnico Nacional. Centro de Biotecnología Genómica. Laboratorio de Biotecnología AnimalReproduction is a key element in cattle production systems. Systems biology approaches, including those involving gene networks, have been applied to genetic dissection complex phenotypes in cattle. A set of 385 genes associated with reproductive traits in cattle were included in a protein-protein network analysis to identify and prioritize candidate genes related to phenotypic differences in cattle reproduction. Genes belonging to the ubiquitin family - Ubiquitin C (Ubc, Gene ID: 444874) and Ubiquitin B (Ubb, Gene ID: 281370) -had the highest probability of being associated with these traits in cattle. Both proteins were identified as important hubs in a protein-protein interaction network, each having 3,775 interactions of 3,856 possible. Resequencing of the Ubb gene coding region to evaluate the presence of SNPs in a discovery population identified the G/T (rs110366695) transversion. This causes emergence of a stop codon and a protein truncated by 287 aa. The allelic frequency distributions found in two beef cattle breeds highlight the promise of further research into the effects of protein truncation and the potential of these proteins as molecular markers for semen quality.https://cienciaspecuarias.inifap.gob.mx/index.php/Pecuarias/article/view/5279/4985bovinemolecular markerssemen qualityubiquitylation |
| spellingShingle | Francisco Alejandro Paredes-Sánchez Daniel Trejo-Martínez Elsa Verónica Herrera-Mayorga Williams Arellano-Vera Felipe Rodríguez Almeida Ana María Sifuentes-Rincón Identification of candidate genes for reproductive traits in cattle using a functional interaction network approach Revista Mexicana de Ciencias Pecuarias bovine molecular markers semen quality ubiquitylation |
| title | Identification of candidate genes for reproductive traits in cattle using a functional interaction network approach |
| title_full | Identification of candidate genes for reproductive traits in cattle using a functional interaction network approach |
| title_fullStr | Identification of candidate genes for reproductive traits in cattle using a functional interaction network approach |
| title_full_unstemmed | Identification of candidate genes for reproductive traits in cattle using a functional interaction network approach |
| title_short | Identification of candidate genes for reproductive traits in cattle using a functional interaction network approach |
| title_sort | identification of candidate genes for reproductive traits in cattle using a functional interaction network approach |
| topic | bovine molecular markers semen quality ubiquitylation |
| url | https://cienciaspecuarias.inifap.gob.mx/index.php/Pecuarias/article/view/5279/4985 |
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