Genomic Characterization and Initial Insight into Mastitis-Associated SNP Profiles of Local Latvian <i>Bos taurus</i> Breeds
Latvia has two local <i>Bos taurus</i> breeds—Latvian Brown (LBG) and Latvian Blue (LZG)—characterized by a good adaptation to the local climate, longevity, and high fat and protein contents in milk. Since these are desired traits in the dairy industry, this study investigated the geneti...
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MDPI AG
2023-08-01
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| Online Access: | https://www.mdpi.com/2076-2615/13/17/2776 |
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| author | Dita Gudra Anda Valdovska Daina Jonkus Daiga Galina Daina Kairisa Maija Ustinova Kristine Viksne Davids Fridmanis Ineta Kalnina |
| author_facet | Dita Gudra Anda Valdovska Daina Jonkus Daiga Galina Daina Kairisa Maija Ustinova Kristine Viksne Davids Fridmanis Ineta Kalnina |
| author_sort | Dita Gudra |
| collection | DOAJ |
| description | Latvia has two local <i>Bos taurus</i> breeds—Latvian Brown (LBG) and Latvian Blue (LZG)—characterized by a good adaptation to the local climate, longevity, and high fat and protein contents in milk. Since these are desired traits in the dairy industry, this study investigated the genetic background of the LBG and LZG breeds and identified the genetic factors associated with mastitis. Blood and semen samples were acquired, and whole genome sequencing was then performed to acquire a genomic sequence with at least 35× or 10× coverage. The heterozygosity, nucleotide diversity, and LD analysis indicated that LBG and LZG cows have similar levels of genetic diversity compared to those of other breeds. An analysis of the population structure revealed that each breed clustered together, but the overall differentiation between the breeds was small. The highest genetic variance was observed in the LZG breed compared with the LBG breed. Our results show that SNP rs721295390 is associated with mastitis in the LBG breed, and SNPs rs383806754, chr29:43998719CG>C, and rs462030680 are associated with mastitis in the LZG breed. This study shows that local Latvian LBG and LZG breeds have a pronounced genetic differentiation, with each one suggesting its own mastitis-associated SNP profile. |
| first_indexed | 2024-03-10T23:29:04Z |
| format | Article |
| id | doaj.art-ca84c8e3623447a4b00b12d269682c80 |
| institution | Directory Open Access Journal |
| issn | 2076-2615 |
| language | English |
| last_indexed | 2024-03-10T23:29:04Z |
| publishDate | 2023-08-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Animals |
| spelling | doaj.art-ca84c8e3623447a4b00b12d269682c802023-11-19T07:47:13ZengMDPI AGAnimals2076-26152023-08-011317277610.3390/ani13172776Genomic Characterization and Initial Insight into Mastitis-Associated SNP Profiles of Local Latvian <i>Bos taurus</i> BreedsDita Gudra0Anda Valdovska1Daina Jonkus2Daiga Galina3Daina Kairisa4Maija Ustinova5Kristine Viksne6Davids Fridmanis7Ineta Kalnina8Latvian Biomedical Research and Study Centre, LV-1067 Riga, LatviaFaculty of Veterinary Medicine, Latvia University of Life Sciences and Technologies, LV-3001 Jelgava, LatviaFaculty of Agriculture, Latvia University of Life Sciences and Technologies, LV-3001 Jelgava, LatviaFaculty of Veterinary Medicine, Latvia University of Life Sciences and Technologies, LV-3001 Jelgava, LatviaFaculty of Agriculture, Latvia University of Life Sciences and Technologies, LV-3001 Jelgava, LatviaLatvian Biomedical Research and Study Centre, LV-1067 Riga, LatviaLatvian Biomedical Research and Study Centre, LV-1067 Riga, LatviaLatvian Biomedical Research and Study Centre, LV-1067 Riga, LatviaLatvian Biomedical Research and Study Centre, LV-1067 Riga, LatviaLatvia has two local <i>Bos taurus</i> breeds—Latvian Brown (LBG) and Latvian Blue (LZG)—characterized by a good adaptation to the local climate, longevity, and high fat and protein contents in milk. Since these are desired traits in the dairy industry, this study investigated the genetic background of the LBG and LZG breeds and identified the genetic factors associated with mastitis. Blood and semen samples were acquired, and whole genome sequencing was then performed to acquire a genomic sequence with at least 35× or 10× coverage. The heterozygosity, nucleotide diversity, and LD analysis indicated that LBG and LZG cows have similar levels of genetic diversity compared to those of other breeds. An analysis of the population structure revealed that each breed clustered together, but the overall differentiation between the breeds was small. The highest genetic variance was observed in the LZG breed compared with the LBG breed. Our results show that SNP rs721295390 is associated with mastitis in the LBG breed, and SNPs rs383806754, chr29:43998719CG>C, and rs462030680 are associated with mastitis in the LZG breed. This study shows that local Latvian LBG and LZG breeds have a pronounced genetic differentiation, with each one suggesting its own mastitis-associated SNP profile.https://www.mdpi.com/2076-2615/13/17/2776Latvian Blue cow breedLatvian Brown cow breedlocal endangered cow breedswhole genome sequencingmastitis |
| spellingShingle | Dita Gudra Anda Valdovska Daina Jonkus Daiga Galina Daina Kairisa Maija Ustinova Kristine Viksne Davids Fridmanis Ineta Kalnina Genomic Characterization and Initial Insight into Mastitis-Associated SNP Profiles of Local Latvian <i>Bos taurus</i> Breeds Animals Latvian Blue cow breed Latvian Brown cow breed local endangered cow breeds whole genome sequencing mastitis |
| title | Genomic Characterization and Initial Insight into Mastitis-Associated SNP Profiles of Local Latvian <i>Bos taurus</i> Breeds |
| title_full | Genomic Characterization and Initial Insight into Mastitis-Associated SNP Profiles of Local Latvian <i>Bos taurus</i> Breeds |
| title_fullStr | Genomic Characterization and Initial Insight into Mastitis-Associated SNP Profiles of Local Latvian <i>Bos taurus</i> Breeds |
| title_full_unstemmed | Genomic Characterization and Initial Insight into Mastitis-Associated SNP Profiles of Local Latvian <i>Bos taurus</i> Breeds |
| title_short | Genomic Characterization and Initial Insight into Mastitis-Associated SNP Profiles of Local Latvian <i>Bos taurus</i> Breeds |
| title_sort | genomic characterization and initial insight into mastitis associated snp profiles of local latvian i bos taurus i breeds |
| topic | Latvian Blue cow breed Latvian Brown cow breed local endangered cow breeds whole genome sequencing mastitis |
| url | https://www.mdpi.com/2076-2615/13/17/2776 |
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