{"title":"苏门答腊本地牛毛色遗传标记的全基因组关联研究。","authors":"Hartati Hartati, Widya Pintaka Bayu Putra, Eko Handiwirawan, Erpan Ramon, Jhon Firison, Zubir Zubir, Nandari Dyah Suretno, Mariyono Mariyono, Yenni Yusriani, Dewi Khosiya Robba, Alfian Destomo, Tika Anggraeni, Pajri Anwar, Sulistiyoningtiyas Irmawanti, Aprisal Aprisal, Simon Elieser, Dian Kurniawati","doi":"10.14202/vetworld.2024.2537-2543","DOIUrl":null,"url":null,"abstract":"<p><strong>Background and aim: </strong>Coat color is a phenotypic trait that is affected by many functional genes. In addition, coat color is an important characteristic of breeds in livestock. This study aimed to determine functional genes for coat color patterns in Sumatran native cattle in Indonesia using a genome-wide association study method.</p><p><strong>Materials and methods: </strong>A bovine single nucleotide polymorphism (SNP) 50K BeadChip was used for the investigation. A total of 46. Sumatran native cattle of three colors as follows: Brown (36 animals), white (9 animals), and black (1 animal), were used as experimental animals.</p><p><strong>Results: </strong>Results showed that the SNP markers ARS-BFGL-NGS-75486 (p = 2.46 × 10<sup>-7</sup>) and BTB-01992588 (p = 1.06 × 10<sup>-5</sup>) were selected as two genetic markers for coat color variation in animals under study, which were located at the cytoplasmic FMR1-interacting protein 2 (<i>CYFIP</i>2) gene at BTA7 and small G protein signaling modulator 1(<i>SGSM1</i>) genes at BTA17, respectively. The polymorphic informative content values of both SNP markers were 0.33 (ARS-BFGL-NGS-75486) and 0.13 (BTB-01992588). In this study, a genetic marker for coat color patterns in Sumatran native cattle was obtained based on the haplotypes of both SNP markers.</p><p><strong>Conclusion: </strong>It can be concluded that <i>CYFIP2</i> and <i>SGSM1</i> are two coloration genes that affect the phenotype characteristics of Sumatran native cattle.</p>","PeriodicalId":23587,"journal":{"name":"Veterinary World","volume":"17 11","pages":"2537-2543"},"PeriodicalIF":1.7000,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11736373/pdf/","citationCount":"0","resultStr":"{\"title\":\"Genome-wide association study of genetic markers of coat color patterns in Sumatran native cattle.\",\"authors\":\"Hartati Hartati, Widya Pintaka Bayu Putra, Eko Handiwirawan, Erpan Ramon, Jhon Firison, Zubir Zubir, Nandari Dyah Suretno, Mariyono Mariyono, Yenni Yusriani, Dewi Khosiya Robba, Alfian Destomo, Tika Anggraeni, Pajri Anwar, Sulistiyoningtiyas Irmawanti, Aprisal Aprisal, Simon Elieser, Dian Kurniawati\",\"doi\":\"10.14202/vetworld.2024.2537-2543\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p><strong>Background and aim: </strong>Coat color is a phenotypic trait that is affected by many functional genes. In addition, coat color is an important characteristic of breeds in livestock. This study aimed to determine functional genes for coat color patterns in Sumatran native cattle in Indonesia using a genome-wide association study method.</p><p><strong>Materials and methods: </strong>A bovine single nucleotide polymorphism (SNP) 50K BeadChip was used for the investigation. A total of 46. Sumatran native cattle of three colors as follows: Brown (36 animals), white (9 animals), and black (1 animal), were used as experimental animals.</p><p><strong>Results: </strong>Results showed that the SNP markers ARS-BFGL-NGS-75486 (p = 2.46 × 10<sup>-7</sup>) and BTB-01992588 (p = 1.06 × 10<sup>-5</sup>) were selected as two genetic markers for coat color variation in animals under study, which were located at the cytoplasmic FMR1-interacting protein 2 (<i>CYFIP</i>2) gene at BTA7 and small G protein signaling modulator 1(<i>SGSM1</i>) genes at BTA17, respectively. The polymorphic informative content values of both SNP markers were 0.33 (ARS-BFGL-NGS-75486) and 0.13 (BTB-01992588). In this study, a genetic marker for coat color patterns in Sumatran native cattle was obtained based on the haplotypes of both SNP markers.</p><p><strong>Conclusion: </strong>It can be concluded that <i>CYFIP2</i> and <i>SGSM1</i> are two coloration genes that affect the phenotype characteristics of Sumatran native cattle.</p>\",\"PeriodicalId\":23587,\"journal\":{\"name\":\"Veterinary World\",\"volume\":\"17 11\",\"pages\":\"2537-2543\"},\"PeriodicalIF\":1.7000,\"publicationDate\":\"2024-11-01\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11736373/pdf/\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Veterinary World\",\"FirstCategoryId\":\"1085\",\"ListUrlMain\":\"https://doi.org/10.14202/vetworld.2024.2537-2543\",\"RegionNum\":0,\"RegionCategory\":null,\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"2024/11/13 0:00:00\",\"PubModel\":\"Epub\",\"JCR\":\"Q2\",\"JCRName\":\"AGRICULTURE, DAIRY & ANIMAL SCIENCE\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Veterinary World","FirstCategoryId":"1085","ListUrlMain":"https://doi.org/10.14202/vetworld.2024.2537-2543","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"2024/11/13 0:00:00","PubModel":"Epub","JCR":"Q2","JCRName":"AGRICULTURE, DAIRY & ANIMAL SCIENCE","Score":null,"Total":0}
Genome-wide association study of genetic markers of coat color patterns in Sumatran native cattle.
Background and aim: Coat color is a phenotypic trait that is affected by many functional genes. In addition, coat color is an important characteristic of breeds in livestock. This study aimed to determine functional genes for coat color patterns in Sumatran native cattle in Indonesia using a genome-wide association study method.
Materials and methods: A bovine single nucleotide polymorphism (SNP) 50K BeadChip was used for the investigation. A total of 46. Sumatran native cattle of three colors as follows: Brown (36 animals), white (9 animals), and black (1 animal), were used as experimental animals.
Results: Results showed that the SNP markers ARS-BFGL-NGS-75486 (p = 2.46 × 10-7) and BTB-01992588 (p = 1.06 × 10-5) were selected as two genetic markers for coat color variation in animals under study, which were located at the cytoplasmic FMR1-interacting protein 2 (CYFIP2) gene at BTA7 and small G protein signaling modulator 1(SGSM1) genes at BTA17, respectively. The polymorphic informative content values of both SNP markers were 0.33 (ARS-BFGL-NGS-75486) and 0.13 (BTB-01992588). In this study, a genetic marker for coat color patterns in Sumatran native cattle was obtained based on the haplotypes of both SNP markers.
Conclusion: It can be concluded that CYFIP2 and SGSM1 are two coloration genes that affect the phenotype characteristics of Sumatran native cattle.
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