Discovering of Genomic Variations Associated to Growth Traits by GWAS in Braunvieh Cattle
A genome-wide association study (GWAS) was performed to elucidate genetic architecture of growth traits in Braunvieh cattle. Methods: The study included 300 genotyped animals by the GeneSeek<sup>®</sup> Genomic Profiler Bovine LDv.4 panel; after quality control, 22,734 SNP and 276 animal...
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MDPI AG
2021-10-01
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| Series: | Genes |
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| Online Access: | https://www.mdpi.com/2073-4425/12/11/1666 |
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| author | José Luis Zepeda-Batista Rafael Núñez-Domínguez Rodolfo Ramírez-Valverde Francisco Joel Jahuey-Martínez Jessica Beatriz Herrera-Ojeda Gaspar Manuel Parra-Bracamonte |
| author_facet | José Luis Zepeda-Batista Rafael Núñez-Domínguez Rodolfo Ramírez-Valverde Francisco Joel Jahuey-Martínez Jessica Beatriz Herrera-Ojeda Gaspar Manuel Parra-Bracamonte |
| author_sort | José Luis Zepeda-Batista |
| collection | DOAJ |
| description | A genome-wide association study (GWAS) was performed to elucidate genetic architecture of growth traits in Braunvieh cattle. Methods: The study included 300 genotyped animals by the GeneSeek<sup>®</sup> Genomic Profiler Bovine LDv.4 panel; after quality control, 22,734 SNP and 276 animals were maintained in the analysis. The examined phenotypic data considered birth (BW), weaning (WW), and yearling weights. The association analysis was performed using the principal components method via the egscore function of the GenABEL version 1.8-0 package in the R environment. The marker rs133262280 located in BTA 22 was associated with BW, and two SNPs were associated with WW, rs43668789 (BTA 11) and rs136155567 (BTA 27). New QTL associated with these liveweight traits and four positional and functional candidate genes potentially involved in variations of the analyzed traits were identified. The most important genes in these genomic regions were <i>MCM2</i> (minichromosome maintenance complex component 2), <i>TPRA1</i> (transmembrane protein adipocyte associated 1), <i>GALM</i> (<i>galactose mutarotase</i>), and <i>NRG1</i> (neuregulin 1), related to embryonic cleavage, bone and tissue growth, cell adhesion, and organic development. This study is the first to present a GWAS conducted in Braunvieh cattle in Mexico providing evidence for genetic architecture of assessed growth traits. Further specific analysis of found associated genes and regions will clarify its contribution to the genetic basis of growth-related traits. |
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| institution | Directory Open Access Journal |
| issn | 2073-4425 |
| language | English |
| last_indexed | 2024-03-10T05:28:56Z |
| publishDate | 2021-10-01 |
| publisher | MDPI AG |
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| series | Genes |
| spelling | doaj.art-cd82850ddda74bdc9ce320dae08f3a6f2023-11-22T23:27:00ZengMDPI AGGenes2073-44252021-10-011211166610.3390/genes12111666Discovering of Genomic Variations Associated to Growth Traits by GWAS in Braunvieh CattleJosé Luis Zepeda-Batista0Rafael Núñez-Domínguez1Rodolfo Ramírez-Valverde2Francisco Joel Jahuey-Martínez3Jessica Beatriz Herrera-Ojeda4Gaspar Manuel Parra-Bracamonte5Facultad de Medicina Veterinaria y Zootecnia, Universidad de Colima, Kilometro 40 Autopista Colima-Manzanillo, Tecomán 28100, Colima, MexicoDepartamento de Zootecnia, Posgrado en Producción Animal, Universidad Autónoma Chapingo, Km. 38.5 Carretera México-Texcoco, Chapingo 56230, Texcoco, MexicoDepartamento de Zootecnia, Posgrado en Producción Animal, Universidad Autónoma Chapingo, Km. 38.5 Carretera México-Texcoco, Chapingo 56230, Texcoco, MexicoFacultad de Zootecnia y Ecologa, Universidad Autónoma de Chihuahua, Periférico Francisco R. Almada, Km 1, Chihuahua 33820, Chihuahua, MexicoDepartamento de Ciencias Básicas, Instituto Tecnológico del Valle de Morelia, Instituto Tecnológico Nacional, Morelia 58100, Michoacán, MexicoCentro de Biotecnología Genómica, Instituto Politécnico Nacional, Boulevard del Maestro S/N esq. Elías Piña, Col. Narciso Mendoza, Ciudad Reynosa 88710, Tamaulipas, MexicoA genome-wide association study (GWAS) was performed to elucidate genetic architecture of growth traits in Braunvieh cattle. Methods: The study included 300 genotyped animals by the GeneSeek<sup>®</sup> Genomic Profiler Bovine LDv.4 panel; after quality control, 22,734 SNP and 276 animals were maintained in the analysis. The examined phenotypic data considered birth (BW), weaning (WW), and yearling weights. The association analysis was performed using the principal components method via the egscore function of the GenABEL version 1.8-0 package in the R environment. The marker rs133262280 located in BTA 22 was associated with BW, and two SNPs were associated with WW, rs43668789 (BTA 11) and rs136155567 (BTA 27). New QTL associated with these liveweight traits and four positional and functional candidate genes potentially involved in variations of the analyzed traits were identified. The most important genes in these genomic regions were <i>MCM2</i> (minichromosome maintenance complex component 2), <i>TPRA1</i> (transmembrane protein adipocyte associated 1), <i>GALM</i> (<i>galactose mutarotase</i>), and <i>NRG1</i> (neuregulin 1), related to embryonic cleavage, bone and tissue growth, cell adhesion, and organic development. This study is the first to present a GWAS conducted in Braunvieh cattle in Mexico providing evidence for genetic architecture of assessed growth traits. Further specific analysis of found associated genes and regions will clarify its contribution to the genetic basis of growth-related traits.https://www.mdpi.com/2073-4425/12/11/1666associationcandidate genegrowthquantitative trait locisingle nucleotide polymorphism |
| spellingShingle | José Luis Zepeda-Batista Rafael Núñez-Domínguez Rodolfo Ramírez-Valverde Francisco Joel Jahuey-Martínez Jessica Beatriz Herrera-Ojeda Gaspar Manuel Parra-Bracamonte Discovering of Genomic Variations Associated to Growth Traits by GWAS in Braunvieh Cattle Genes association candidate gene growth quantitative trait loci single nucleotide polymorphism |
| title | Discovering of Genomic Variations Associated to Growth Traits by GWAS in Braunvieh Cattle |
| title_full | Discovering of Genomic Variations Associated to Growth Traits by GWAS in Braunvieh Cattle |
| title_fullStr | Discovering of Genomic Variations Associated to Growth Traits by GWAS in Braunvieh Cattle |
| title_full_unstemmed | Discovering of Genomic Variations Associated to Growth Traits by GWAS in Braunvieh Cattle |
| title_short | Discovering of Genomic Variations Associated to Growth Traits by GWAS in Braunvieh Cattle |
| title_sort | discovering of genomic variations associated to growth traits by gwas in braunvieh cattle |
| topic | association candidate gene growth quantitative trait loci single nucleotide polymorphism |
| url | https://www.mdpi.com/2073-4425/12/11/1666 |
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