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Li Y, Liu L, Zunongjiang A, Cao L, Fan Y, Hu B, Zhang S. Analysis of the relationship between short tandem repeats and lactation performance of Xinjiang Holstein cows. Trop Anim Health Prod 2023; 55:238. [PMID: 37322113 PMCID: PMC10271901 DOI: 10.1007/s11250-023-03651-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2023] [Accepted: 06/06/2023] [Indexed: 06/17/2023]
Abstract
Microsatellite markers, also known as short tandem repeats (STRs), are important for marker-assisted selection to detect genetic polymorphism, and they are uniformly distributed in eukaryotic genomes. To analyze the relationship between microsatellite loci and lactation traits of Holstein cows in Xinjiang, 175 lactating cows with similar birth dates, the same parity, and similar calving dates were selected, and 10 STR loci closely linked to quantitative trait loci were used to analyze the correlation between each STR locus and four lactation traits (daily milk yield, milk fat percentage, milk protein percentage, and lactose percentage). All loci showed different degrees of genetic polymorphism. The average values of observed alleles, effective alleles, expected heterozygosity, observed heterozygosity, and polymorphic information content of the 10 STR loci were 10, 3.11, 0.62, 0.64, and 0.58, respectively. Chi-square and G-square tests showed that all populations of loci were in accordance with the Hardy-Weinberg equilibrium. Analysis of the correlation between STR locus genotype and lactation performance in the whole lactation period showed three loci (namely, BM143, BM415, and BP7) with no significant correlation with all lactation traits, two loci (BM302 and UWCA9) related to milk yield, three loci (BM103, BM302, and BM6425) related to milk fat percentage, two loci (BM302 and BM6425) related to milk protein percentage, and three loci (BM1443, BM302, and BMS1943) related to lactose percentage. The microsatellite loci selected in this study showed rich polymorphism in the experimental dairy cow population and were related to the lactation traits, which can be used for the evaluation of genetic resources and early breeding and improvement of Holstein dairy cows in Xinjiang.
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Affiliation(s)
- Yongqing Li
- Key Laboratory of Agricultural Animal Genetics, Breeding and Reproduction (Huazhong Agricultural University), Ministry of Education, Wuhan, 430070, People's Republic of China
- Institute of Animal Husbandry Quality Standard, Xinjiang Academy of Animal Science, Urumqi, Xinjiang, 830063, People's Republic of China
| | - Li Liu
- Key Laboratory of Agricultural Animal Genetics, Breeding and Reproduction (Huazhong Agricultural University), Ministry of Education, Wuhan, 430070, People's Republic of China
- Institute of Animal Husbandry Quality Standard, Xinjiang Academy of Animal Science, Urumqi, Xinjiang, 830063, People's Republic of China
| | - Abula Zunongjiang
- Institute of Animal Husbandry Quality Standard, Xinjiang Academy of Animal Science, Urumqi, Xinjiang, 830063, People's Republic of China
| | - Lijun Cao
- Institute of Animal Husbandry Quality Standard, Xinjiang Academy of Animal Science, Urumqi, Xinjiang, 830063, People's Republic of China
| | - Yikai Fan
- Key Laboratory of Agricultural Animal Genetics, Breeding and Reproduction (Huazhong Agricultural University), Ministry of Education, Wuhan, 430070, People's Republic of China
| | - Bo Hu
- Institute of Animal Husbandry Quality Standard, Xinjiang Academy of Animal Science, Urumqi, Xinjiang, 830063, People's Republic of China.
| | - Shujun Zhang
- Key Laboratory of Agricultural Animal Genetics, Breeding and Reproduction (Huazhong Agricultural University), Ministry of Education, Wuhan, 430070, People's Republic of China.
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Vohra V, Singh NP, Chhotaray S, Raina VS, Chopra A, Kataria RS. Morphometric and microsatellite-based comparative genetic diversity analysis in Bubalus bubalis from North India. PeerJ 2021; 9:e11846. [PMID: 34447621 PMCID: PMC8364325 DOI: 10.7717/peerj.11846] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2021] [Accepted: 07/01/2021] [Indexed: 12/02/2022] Open
Abstract
To understand the similarities and dissimilarities of a breed structure among different buffalo breeds of North India, it is essential to capture their morphometric variation, genetic diversity, and effective population size. In the present study, diversity among three important breeds, namely, Murrah, Nili-Ravi and Gojri were studied using a parallel approach of morphometric characterization and molecular diversity. Morphology was characterized using 13 biometric traits, and molecular diversity through a panel of 22 microsatellite DNA markers recommended by FAO, Advisory Group on Animal Genetic Diversity, for diversity studies in buffaloes. Canonical discriminate analysis of biometric traits revealed different clusters suggesting distinct genetic entities among the three studied populations. Analysis of molecular variance revealed 81.8% of genetic variance was found within breeds, while 18.2% of the genetic variation was found between breeds. Effective population sizes estimated based on linkage disequilibrium were 142, 75 and 556 in Gojri, Nili-Ravi and Murrah populations, respectively, indicated the presence of sufficient genetic variation and absence of intense selection among three breeds. The Bayesian approach of STRUCTURE analysis (at K = 3) assigned all populations into three clusters with a degree of genetic admixture in the Murrah and Nili-Ravi buffalo populations. Admixture analysis reveals introgression among Murrah and Nili-Ravi breeds while identified the Gojri as unique buffalo germplasm, indicating that there might be a common origin of Murrah and Nili-Ravi buffaloes. The study provides important insights on buffalo breeds of North India that could be utilized in designing an effective breeding strategy, with an appropriate choice of breeds for upgrading local non-descript buffaloes along with conservation of unique germplasm.
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Affiliation(s)
- Vikas Vohra
- Animal Genetics and Breeding Division, National Dairy Research Institute, Karnal, Haryana, India
| | - Narendra Pratap Singh
- Animal Genetics and Breeding Division, National Dairy Research Institute, Karnal, Haryana, India
| | - Supriya Chhotaray
- Animal Genetics and Breeding Division, National Dairy Research Institute, Karnal, Haryana, India
| | - Varinder Singh Raina
- Department of Animal Husbandry and Dairying, Ministry of Fisheries, Animal Husbandry and Dairying, New Delhi, New Delhi, India
| | - Alka Chopra
- Animal Biotechnology Centre, National Dairy Research Institute, Karnal, Haryana, India
| | - Ranjit Singh Kataria
- Animal Biotechnology Division, ICAR-National Bureau of Animal Genetic Resources, Karnal, Haryana, India
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