MICROSATELLITE ANALYSIS OF MEHSANA AND PANDHARPURI BUFFALOES (BUBALUS BUBALIS)

Vanshika Goel

Sainyam Goel

Vol. 2, Issue 1, Jan-Dec 2016

Page Number: 99 - 133

Abstract:

Microsatellite are short segment of DNA in which specific motifs of 1-6 bases is repeated upto 100 times or so (Tautz, 1993). The term microsatellite introduced by Litt and Lutty (1989) to characterize the tandemly repeat sequence motif. Microsatellite also known as simple sequence repeats (Tautz, 1989), short tandem repeats (Edwards et al, 1991) and sequence tagged microsatellite repeats (STMR). The buffalo, aptly termed as the “Black Goldmine Of India”, occupies a crucial place in the country by being a source of plethora of items, utilize and services. Domestication of the buffalo took place at an early age during Indus Valley civilization (3250 to 2750 BC). The buffalo is the first foremost a beast of labour, employed in the crop fields, pulling of carts, and working of mills and wells. Especially in India and other Southeast Asian countries it is stronger and more consistent than domestic cattle. In India ten important breeds of buffaloes have been described. The buffalo biodiversity in India constitutes 10 well-defined breeds of buffaloes apart from non-descript types. India possesses the richest source of germplasm of buffaloes and the best dairy breeds domesticated in northwestern region of the country.

References

• Albert, B.; Bray, D.; Lewis, J.;Raff, M.; Robert, K. and Watson, J. D. (1994). Molecular melanogaster genome. Molecular Biology and Evolutionary, 16: 602-610.
• Barker, J. S. F., Moore, S. S. Hetzel, D. J. S.; Evans, D., Tan, S. G. and Byrne, K. (1997). Genetic diversity of Asian water buffalo: Microsatellite variation and a comparison with protein coding loci. Animal genetic. 28: 103-115.
• Beaumont MA & Bruforrd MW (1999) Microsatellites in conservation genetics. In: Goldstein DB & Schlötterer C (eds). Microsatellite evolution and application. Oxford University Press, New York, p 165-182.
• Beaumont, M.: Detecting population expansion and decline using microsatellites. Genetics 153:2013{2029 (1999).
• Di Rienzo, A., Peterson, A.C., Garza, J.C., Valdes, A.M., Slatkin, M., and Freimer, N.B. 1994. Mutational processes of simple-sequence rep Dieringer, D., SchlÄotterer, C.: Two distinct modes of microsatellite mutation processes: evidence from the complete genomic sequences of nine species. Genome Research 13: 2242{2250 (2003).
• Dib, C. et al. 1996. A comprehensive genetic map of the human genome based on Cell Biology, National Research Center, Cairo, Egypt.
• Ellegren, H.: Microsattelite mutations in the germ line: Implications for evolu- tionary inference. TIG 16: 551{558 (2000).
• FAO.1974.The husbandry and Health of The Domestic Buffalo. Ed. W.R.Cockrill. Food and Agriculture organization of the United Nations,Rome,Italy.
• Feldman, M.W., A. Bergman, D.D. Pollock, and D.B. Goldstein. 1996. Microsatellite genetic distances with range constraints Analytic description and problems of estimation. Genetics 145:207- 216.
• Fries, R.; Beckmann, J. S.; Georges, M.; Soller, M; and Womach, J. (1989). The variation at linked microsatellite loci -- implications for the history of human Y-chromosome Mol. Biol. Evol. 13:1213- 1218.
• Goldstein, D.B., Linares, A.R., Cavalli-Sforza, L.L., and Feldman, M.W. 1995a. An evaluation of genetic distances for use with microsatellite loci. Genetics 139: 463-471.
• Goldstein, D.B., Linares, A.R., Cavalli-Sforza, L.L., and Feldman, M.W. 1995b. Genetic absolute dating based on microsatellites and the origin of modern humans. Proc. Natl. Acad. Sci. USA 92: 6723-6727.
• Goldstein, D.B., Ruiz-Linares, A., Cavalli-Sforza, L.L., Feldman, M.W. Genetic absolute dating based on microsatellites and modern human origins. Proc. Natl. marker in fluorescent multiplexes for semi-automated percentage testing.
• Indian Council of Agriculture Research,1960: Definition of the characteristic of cattle and buffalo breeds in India. New Delhi –Bulletin No. 86
• Jafferys, A.J., V.Wilson and S.L.Thein. 1985. Hypervariable 'minisatellite' regions in human DNA. Nature. 314: 67-73.
• Jakupciak, J. P.; Wells, R. D. (2000). Gene conservation (recombination) mediates expansions of CTG.CGA repeats. Journal of Biological Chemistry. 275: 4003-4013.
• Janzen, M. A.; Buoen, L. B.; Zhao F.; Louis C. F. (1999). Characterization of a swine Nature 332:278-281.
• John MV, Ali S. Synthetic DNA-based genetic markers reveal intra- and inter-species DNA sequence variability in the Bubalus bubalis and related genomes. DNA Cell Biol. 1997 Mar;16(3):369-78.\
• Jurka, J. and Pethiyagoda, C. (1995). Simple repetitive DNA sequences from primates: Compilation and analysis. J. Mol. Evol. 40: 120-126.
• Kashi, Y., Soller, M.: Functional roles of microsatellites and minisatellites. In: Goldstein, D.B., SchlÄotterer, C. (ed) Microsatellites. Evolution and CA/GT.
• Lewin, B. (1994). Genes V. Oxford University Press.
• Litt, M. and J.A.Luty. 1989. A hypervariable microsatellite revealed by in vitro
• Luikart G, Allendorf F W, Cornuet J M and Sherwin W B. 1998. Distortion of allele frequency distributions provides a test for recent population bottlenecks. Journal of Heredity 89(3): 238-47.
• Luikart G, Allendorf FW, Cornuet JM & Sherwin WB (1998) Distortion of allele frequency distributions provides a test for recent population bottlenecks. J Hered 89: 238-247.
• Luikart G. 1997. Usefulness of molecular markers for detecting population bottlenecks and monitoring genetic change. Ph. D. Thesis. University of Montana, Missoula, USA. Cell Biol. 1999 Jun;18(6):513-9.
• Mohlke, K. L.; Lange, E. M.; Valle, T.T.; Ghosh, S.; Magnuson, V. L.; Silander, K.; Watanabe, R. M.; Chines, P. S.; Bergman, R. N.; Tuomiehto, J.; Collins, F. S. and Boehnke, M. (2001). Linkage disequilibrium between microsatellite marker extends beyond IcM chromosome 20 in Finns.Genet. Res. 11: 1221-1226.
• Nei, M 1984. Molecular Evolutionary Genetics. Columbia University Press/New York.
• Nei, M. (1972) Genetic distance between populations. American Naturalist, 106:283-292.
• Nei, M. (1978) Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics, 89:583-590.
• Nivsarkar, A. E., Vij, P. K., Tantia, M. S. Animal Genetic Resources of India Cattle and Buffalo, Indian Council of Agricultural Research, New Delhi; 184-188; 202-205.microsatellite null allele in bears. Mol. Ecol. 4: 519-520.: a biological monitor of environmental and genomic stress. Heredity. 68: 361-364.
• Petes, T.D., Greenwell, P.W. and Dominska, M.: Stabilization of microsatellite sequences by variant repeats in the yeast Saccharomyces cerevisiae. Genetics 146: 491{498 (1997).
• Philips, R..W.1945: The Water buffalo of India. J. Hered. 36-71-76.
• Pollock, D.D., A. Bergman, M.W. Feldman and D.B. Goldstein. 1996. Microsatellite behavior with range constraints: Parameter estimation and improved distance estimation for use in phylogenetic reconstruction. Submitted to Theor. Popul. Biol.
• Primmer CR, Ellegren H, Saino N & Møller AP (1996a) Directional evolution in germline microsatellite mutations. Nature Genetics 13: 391-393. (1983) Estimation of the coancestry coefficient: basis for a short-term genetic distance. Genetics.
• Slatkin, M. 1991. Inbreeding coefficients and coalescence times. Genet. Res. 58: 167- 175.
• Slatkin, M. 1995. A measure of population subdivision based on microsatellite allele frequencies. Genetics 139: 457-462.
• Stalling, R. L.; Ford, A.F.; Nelson,D.; Torney, D.C.; Hildebrand, C. E.; Moyzis, R. K. (1991). Evolution and ditribution of (GT)n repetitive sequences in mammalian genomes. Genomics. 10: 807- 815.
• Stallings RL (1992) CpG suppression in veryebrate genomes does not account for the rarity og (CpG) microsatellite repeats. Genomics 17: 890-891.
• Stein, G. S.; Stain, J.; Van, L.; Wijnen, A. J. and Lian, J.B. (1996). The maturation of a cell. American Scientist. 84: 28-37.
• Sutherland, D. and Richards, R. (1995). Simple tandem DAN repeats and Human genetic disease. Proceeding of National Academy of Sciences USA. 92: 3636-41.
• Takezaki, N. and Nei, M. (1996). Genetic distances and reconstruction of phylogenetic trees from microsatellite DNA. Genetics. 114: 389-399.
• Tautz D (1989) Hypervariability of simple sequences as a general source for polymorphic DNA markers. Nucleic Acids Res 17: 6463-6471.
• Tautz,D. (1993). Notes on the differentiation and Nomenclature Tandemly Repetitive DNA sequences. 21-28.
• Taylor AC, Sherwin WB & Wayne RK (1994) Genetic variation of microsatellite loci in a bottlenecked species: the northern hairy-nosed wombat Lasiorhinus krefftii.
• Van Hooft WF, Hanotte O, Wenink PW, Groen AF, Sugimoto Y, Prins HH, Teale A. Applicability of bovine microsatellite markers for population genetic studies on African buffalo (Syncerus caffer). Anim Genet. 1999 Jun; 30(3): 214-20.
• Weber JL & May PE (1989) Abundant class of human DNA polymorphisms which can be typed using the polymerase chain reaction. Am J Hum Genet 44: 388-396.
• Weber, J.L. 1990. Informativeness of human (dC-dA)n.(dC-dT)n polymorphisms. Genomics. 7: 517- 524.
• Weber, J.L., Wong, C.: Mutation of human short tandem repeats. Hum. Mol. Genet. 2: 1123{1128 (1993).
• Weber, W. and Wong, C. (1993) Human Molecular Genetics, 2:1123-1128.
• Weir, B.S. and Cockerham, C.C. 1984. Estimating F-statistics for the analysis of

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