Diversity assessment of a lesser known buffalo population from Central India and its comparative evaluation reveals presence of sufficient genetic variation and absence of selection

References

• Joshi BK, Sodhi M, Mukesh M, Mishra BP. Genetic characterization of farm animal genetic resources of India: a review. Ind J Anim Sci. 2012;82(11):1–8.
   Web of Science ®Google Scholar
• 20th Livestock Census. 2019. All India report. Department of animal husbandry and dairying. dahd.nic.in. https://dahd.nic.in/animal-husbandry-statistics.
   Google Scholar
• Olschewsky, A.; Hinrichs, D. An Overview of the Use of Genotyping Techniques for Assessing Genetic Diversity in Local Farm Animal Breeds. Animals 2021;11:2016. DOI: 10.3390/ani11072016
   Google Scholar
• Vohra V, Singh M, Mukherjee K, Kataria RS. Identification and characterization of Chhattisgarhi buffalo population in India. Ind J Anim Sci. 2016;87(2):182.
   Web of Science ®Google Scholar
• FAO. Molecular Genetic Characterization of Animal Genetic Resources. Rome: FAO Animal Production and Health Guidelines; 2011.
   Google Scholar
• Sambrook J, Russel DW. Molecular Cloning, Animal Laboratory Manual. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press; 2001.
   Google Scholar
• Mishra BP, Kataria RS, Kathiravan P, Singh KP, Sadana DK, Joshi BK. Microsatellite based genetic structuring reveals unique identity of Banni among river buffaloes of Western India. Livestock Science 2010;127(2–3):257–261. DOI: 10.1016/j.livsci.2009.09.011.
   Google Scholar
• Singh NP, Vohra V, Das R, Verma U, Tantia MS, Kataria RS. Elucidating the genetic diversity using SSR based markers in Gojri buffalo. Ind J Anim Sci. 2019;89(5):522–8.
   Web of Science ®Google Scholar
• Vohra V, Sodhi M, Niranjan SK, et al. Characterization of rare migratory cattle and evaluation of its phylogeny using short-tandem-repeat-based markers. J Appl Anim Res. 2017;45(1):355–363.
   Web of Science ®Google Scholar
• Cornuet JM, Luikart G. Description and power analysis of two tests for detecting recent population bottlenecks from allele frequency data. Genetics. 1996;144(4):2001–2014.
   PubMed Web of Science ®Google Scholar
• R 4.1.2. 2022. A Language and Environment for Statistical Computing. Vienna: R Foundation for Statistical Computing. https://www.R-project.org/.
   Google Scholar
• Jombart T. Adegenet: a R package for the multivariate analysis of genetic markers. Bioinformatics. 2008;24(11):1403–1405.
   PubMed Web of Science ®Google Scholar
• Kamvar ZN, Tabima JF, Grünwald NJ. Poppr: an R package for genetic analysis of populations with clonal, partially clonal, and/or sexual reproduction. PeerJ. 2014;2:e281.
   PubMed Web of Science ®Google Scholar
• Goudet J. HIERFSTAT, a package for R to compute and test hierarchical F-statistics. Mol Ecol Notes. 2005;5(1):184–186.
   Google Scholar
• Clark LV, Jasieniuk M. Polysat: An R package for polyploid microsatellite analysis. Molecular Ecology Resources 2011;11:562–566.
   Google Scholar
• Adamack AT, Gruber B. PopGenReport: simplifying basic population genetic analyses in R. Methods Ecol Evol. 2014;5(4):384–387.
   Web of Science ®Google Scholar
• Meirmans PG. GENODIVE version 3.0: easy-to-use software for the analysis of genetic data of diploids and polyploids. Mol Ecol Resour. 2020;20(4):1126–1131.
   PubMed Web of Science ®Google Scholar
• Sokal, Michener. A statistical method for evaluating systematic relationships. University of Kansas Science Bulletin; 1958;38:1409–1438.
   Google Scholar
• Paradis E, Claude J, Strimmer K. APE: analyses of Phylogenetics and evolution in R language. Bioinformatics. 2004;20(2):289–290.
   PubMed Web of Science ®Google Scholar
• Dray S, Dufour A. The ade4 package: implementing the duality diagram for ecologists. J Stat Soft. 2007;22(4):1–20.
   Web of Science ®Google Scholar
• Pritchard JK, Stephens M, Donnelly P. Inference of population structure using multilocus genotype data. Genetics. 2000;155(2):945–959.
   PubMed Web of Science ®Google Scholar
• Evanno G, Regnaut S, Goudet J. Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Mol Ecol. 2005;14(8):2611–2620.
   Google Scholar
• Adamack AT, Gruber B. Landgenreport: a new R function to simplify landscape genetic analysis using resistance surface layers. Mol Ecol Resour. 2015;15(5):1172–1178.
   PubMed Web of Science ®Google Scholar
• Peery MZ, Kirby R, Reid BN, et al. Reliability of genetic bottleneck tests for detecting recent population declines. Mol Ecol. 2012;21(14):3403–3418.
   PubMed Web of Science ®Google Scholar
• Luikart G, Allendorf FW, Cornuet JM, Sherwin WB. Distortion of allele frequency distributions provides a test forrecent population bottlenecks. J Hered. 1998;89(3):238–247.
   PubMed Web of Science ®Google Scholar
• Takezaki N, Nei M. Genetic distances and reconstruction of phylogenetic trees from microsatellite DNA. Genetics. 1996;144(1):389–399.
   PubMed Web of Science ®Google Scholar
• Mishra BP, Kataria RS, Kathiravan P, Bulandi SS, Singh KP, Sadana DK. Evaluation of genetic variability and mutation drift equilibrium of Banni buffalo using multi locus microsatellite markers. Trop Anim Health Prod. 2009;41(7):1203–1211.
   PubMed Web of Science ®Google Scholar
• Vijh RK, Tantia MS, Mishra B, Bharani Kumar ST. Genetic relationship and diversity analysis of Indian water buffalo (Bubalus bubalis. J Anim Sci. 2008;86(7):1495–1502.
   PubMed Web of Science ®Google Scholar
• El-Kholy A, Hoda Hassan Z, Amin, H, Mohamed . Genetic diversity in Egyptian buffalo using microsatellite markers. Arab J Biotech. 2007;10:219–232.
   Google Scholar
• Kumar S, Gupta J, Niraj K, et al. Genetic variation and relationships among eight Indian riverine buffalo breeds. Mol Ecol. 2006;15(3):593–600.
   PubMed Web of Science ®Google Scholar
• Mishra BP, Kataria RS, Bulandi SS, Kumar V, Mukesh M. Genetic diversity in river buffalo (Bubalus bubalis) breeds of central India using heterologous bovine microsatellite markers. Journal of Applied Animal Research. 2008;33(2):159–163.
   Web of Science ®Google Scholar
• Kathiravan P, Mishra BP, Kataria RS, Goyal S, Tripathy K, Sadana DK. Short tandem repeat based analysis of genetic variability in Kanarese buffalo of South India. Russian Journal of Genetics 2010;46(8):988–993. DOI: 10.1134/S1022795410080119.
   Google Scholar
• 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.
   PubMed Web of Science ®Google Scholar