Microsatellite-based analysis deciphers the uniqueness of three lesser-known Indian cattle populations


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Authors

  • REKHA SHARMA ICAR-National Bureau of Animal Genetic Resources, Karnal, Haryana 132 001 India
  • SONIKA AHLAWAT ICAR-National Bureau of Animal Genetic Resources, Karnal, Haryana 132 001 India
  • R K PUNDIR ICAR-National Bureau of Animal Genetic Resources, Karnal, Haryana 132 001 India
  • SABYASACHI DAS Watershed Support Services and Activity Network (WASSAN), Secundarabad, Telangana
  • REENA ARORA ICAR-National Bureau of Animal Genetic Resources, Karnal, Haryana 132 001 India
  • M S TANTIA ICAR-National Bureau of Animal Genetic Resources, Karnal, Haryana 132 001 India

https://doi.org/10.56093/ijans.v93i8.127951

Keywords:

Cattle, Genetic diversity, Microsatellite markers, Population differentiation

Abstract

Indian cattle genetic resources constitute an important global gene pool. A majority of these (59.3%) are still not characterized. Identifying unique populations can ensure their inclusion in national policies of improvement and conservation. The present research describes the uniqueness of three lesser-known cattle populations (Jhari, Kamma, and Vandharvi) of Deccan Plateau region of India. These are known for draught power but are on the decline due to changing socio-agricultural scenario. Comprehensive genetic diversity and differentiation analyses using 25 FAOrecommended microsatellite markers identified high variability in all three populations with mean allelic diversity (Na) ranging between 9.32-9.80. Similarly, high genetic variability was recorded in all three populations (Ho=0.67 to 0.71). Random mating in the populations was indicated by the small positive F value. A low but significant genetic differentiation, pairwise Nei’s genetic distance, phylogenetic relationship, and genetic assignment substantiated their
separate genetic identity. The phylogenetic analysis reflected the closeness of Vandharvi and Kamma populations. Substantial gene flow was evidenced by the effective number of migrants per generation (Nm=16.31±2.69 >1). Bayesian-based clustering indicated the germplasm exchange between Vandharvi and Kamma, whereas, Jhari comes out to be a separate gene pool. None of these have suffered demographic bottlenecks in the recent past. Findings arevaluable for the scientific management, recognition, and conservation of the three populations that contribute to the livelihood, and economic sustainability of agro-pastoral communities.

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References

Cornuet J M and Luikart G. 1996. Description and power analysis of two tests for detecting recent population bottlenecks from allele frequency data. Genetics 144: 2001–14. DOI: https://doi.org/10.1093/genetics/144.4.2001

Dar A H, Kumar S, Mukesh M, Ahmad S F, Singh D V, Sharma R K, Ghosh A K, Singh B, Rahman J U and Sodhi M. 2020. Genetic characterization and population structure of different coat colour variants of Badri cattle. Molecular Biology Reports 47: 8485–97. DOI: https://doi.org/10.1007/s11033-020-05890-w

FAO. 2011. Guideline for molecular genetic characterization of animal genetic resources. FAO Animal Production and Health Commission on Genetic Resources for Food and Agriculture. Food and Agriculture Organization of the United Nations.

Luikart G and Cornuet J M. 1998. Empirical evaluation of a test for identifying recently bottlenecked population form alleles frequency data. Conservation biology 12: 228–37. DOI: https://doi.org/10.1046/j.1523-1739.1998.96388.x

Malik A, Sharma R, Ahlawat S, Deb R, Negi M and Tripathi S. 2018. Analysis of genetic relatedness among Indian cattle (Bos indicus) using genotyping‐by‐sequencing markers. Animal Genetics 49: 242–45. DOI: https://doi.org/10.1111/age.12650

McHugh D E, Loftus R T, Cunningham P and Bradley D G. 1998. Genetic structure of seven European cattle breeds assessed using 20 microsatellite markers. Animal Genetics 28: 333–40. DOI: https://doi.org/10.1046/j.1365-2052.1998.295330.x

Mohanty S, Donde R, Das S, Panda D, Mishra B, Pradhan S K, Dash S K, Swain P and Behera L. 2021. Utilization of genetic diversity and population structure to reveal prospective drought-tolerant donors in rice. Gene Reports 23, https://doi. org/10.1016/j.genrep.2021.101151. DOI: https://doi.org/10.1016/j.genrep.2021.101151

Peakall R and Smouse P E. 2012. GenAlEx 65: genetic analysis in Excel. Population genetic software for teaching and research – An update. Bioinformatics 28: 2537–39. DOI: https://doi.org/10.1093/bioinformatics/bts460

Prakash B and Deepika. 2014. Assessment of genetic diversity and admixture in two newly recognized cattle breeds of Eastern India. Indian Journal of Animal Sciences 84: 752–56.

Pundir R K, Singh P K, Dangi P S and Das S. 2020. Characterisation of Jhari cattle-A new cattle germplasm from Telangana. Indian Journal of Animal Sciences 90: 1494–98. DOI: https://doi.org/10.56093/ijans.v90i11.111508

Radhika G, Aravindakshan T V, Jinty S and Ramya K. 2017. Evaluation of genetic diversity, population structure, and relationship between legendary Vechur cattle and crossbred cattle of Kerala state, India. Animal Biotechnology 29: 50–58. DOI: https://doi.org/10.1080/10495398.2017.1297719

Rahal O, Aissaoui C, Ata N, Yilmaz O, Cemal I, Ameur A and Gaouar S B S. 2021. Genetic characterization of four Algerian cattle breeds using microsatellite markers. Animal Biotechnology 32: 699–707. DOI: https://doi.org/10.1080/10495398.2020.1746321

Sambrook J, Russell D. 2001. Molecular Cloning: A Laboratory Manual (M), 3rd Cold Spring Harbor Laboratory Press, New York.

Saravanan K A, Panigrahi M, Kumar H, Nayak S S, Rajawat D, Bhushan B and Dutt T. 2022. Progress and future perspectives of livestock genomics in India: A mini review. Animal Biotechnology DOI: 10.1080/10495398.2022.2056046 DOI: https://doi.org/10.1080/10495398.2022.2056046

Sharma R, Ahlawat S, Sharma H, Bhagat R L, Singh P K and Tantia M S. 2020a. Identification of a new potential native Indian cattle breed by population differentiation based on microsatellite markers. Molecular Biology Reports 47: 6429– 34. DOI: https://doi.org/10.1007/s11033-020-05639-5

Sharma R, Ahlawat S, Sharma H, Sharma P, Panchal P, Arora R and Tantia M S. 2020b. Microsatellite and mitochondrial DNA analyses unveil the genetic structure of native sheep breeds from three major agro-ecological regions of India. Scientific Reports 10: 6050 https://doi.org/10.1038/s41598-020-77480-6 DOI: https://doi.org/10.1038/s41598-020-77480-6

Sharma H, Sharma R, Ahlawat S, Raja K N, Jain A and Tantia M S. 2020c. Genetic diversity status of only registered cattle breed of Chhattisgarh- Kosali. Indian Journal of Animal Sciences 90: 873–78. DOI: https://doi.org/10.56093/ijans.v90i6.104993

Sharma R, Ahlawat S, Sehrawat R, Aggarwal R A K, Chandran P C, Kamal R K, Dey A and Tantia M S. 2022. Morphometric characteristics and microsatellite markers based diversity and differentiation recognizes the first prospective cattle breed from the Jharkhand state of India. Animal Biotechnology, DOI: 10.1080/10495398.2022.2064866 DOI: https://doi.org/10.1080/10495398.2022.2064866

Sharma R, Kishore A, Mukesh M, Ahlawat S, Maitra A, Pandey A K and Tantia M S. 2015. Genetic diversity and relationship of Indian cattle inferred from microsatellite and mitochondrial DNA markers. BMC Genetics 16: 73–84. DOI: https://doi.org/10.1186/s12863-015-0221-0

Sharma R, Maitra A and Pandey A K. 2012. Genetic structure and differentiation of four Indian autochthonous cattle populations. Russian Journal of Genetics 48: 611–17. DOI: https://doi.org/10.1134/S1022795412060129

Sharma R, Maitra A, Singh P K and Tantia M S. 2013. Genetic diversity and relationship of cattle populations of East India: Distinguishing lesser known cattle populations and established breeds based on STR markers. Springer Plus 2: 359–68. DOI: https://doi.org/10.1186/2193-1801-2-359

Siripurapu Kanna K, Das S, Pundir R and Tantia M S. 2019. Network Project of AnGR of ICAR-NBAGR for identification and characterization of yet undefined indigenous cattle populations of India. DOI: 10.13140/RG.2.2.32608.02564

Srivastava A K, Patel J B, Ankuya K J, Chauhan H D, Pawar M M and Gupta J P. 2019. Conservation of indigenous cattle breeds. Journal of Animal Research 9: 1–12. DOI: https://doi.org/10.30954/2277-940X.01.2019.1

Submitted

2022-09-12

Published

2023-08-31

Issue

Section

Articles

How to Cite

SHARMA, R., AHLAWAT, S., PUNDIR, R. K., DAS, S., ARORA, R., & TANTIA, M. S. (2023). Microsatellite-based analysis deciphers the uniqueness of three lesser-known Indian cattle populations. The Indian Journal of Animal Sciences, 93(8), 795–801. https://doi.org/10.56093/ijans.v93i8.127951
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