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Biotechnology in Animal Husbandry
2017, vol. 33, br. 1, str. 13-25
jezik rada: engleski
vrsta rada: izvorni naučni članak
objavljeno: 21/05/2017
doi: 10.2298/BAH1701013M
Creative Commons License 4.0
SNPs analiza na nivou genoma autohtonih Zebu rasa u Pakistanu
aUniversity of Veterinary and Animal Science, Lahore, Pakistan + Bovine Functional Genomics Laboratory (BFGL), U.S.D.A, USA
bBovine Functional Genomics Laboratory (BFGL), U.S.D.A, USA
cDepartment of Animal Sciences, Cornell University, NY, USA
dUniversity of Veterinary and Animal Science, Lahore, Pakistan
eDepartment of Animal Sciences, Texas A&M University, USA

e-adresa: hamidmustafapasha@gmail.com

Sažetak

Genetički resursi domaćih životinja (AnGR) u Pakistanu imaju jedinstven identitet širom sveta. Postoji petnaest različitih rasa goveda. Ispitali smo SNP varijacije i distribuciju među deset rasa goveda koristeći Bovine high density (777k) Bead čip. Ukupno 136 individualnih grla deset različitih rasa su genotipizirani i posle filtracije 500, 939 SNP markera je korišćeno za dalju analizu. Srednja niže frekvencija alela (MAF) je bila 0,23, 0,20, 0,22, 0,22, 0,20, 0,18, 0,20, 0,22, 0,21 i 0,18 za Achi, Bhagnari, Cholistani, Dhanni, Dajal, Kankraj, Lohani, Red Sindi, Sahival i Tharparkar goveda, respektivno. Značajna razlika (p<0,001) MAF je uočena u odabranoj populaciji. Zajednička varijanta niže frekvenciji alela (≥0,10 i ≤ 0,5) je procenjena (64%). U uzorkovanoj populaciji, 64% SNP markera su polimorfni (MAF> 0,05) u okviru rasa i preostalih 36% su smatrani monomorfnim markerima. Prosečno registrovane (Ho) i očekivane (HE) vrednosti heterozigotnosti od 0,662 i 0,640 su dobijene kod ovih rasa. Ovaj rezultat ukazuje na značajnu razliku između ovih rasa i ukazuje na to da SNP varijacije imaju potencijal koji bi mogao da se koristi u budućnosti za efikasnu selekciju i odgajivačke programe u poboljšanju stočarske proizvodnje i studijama konzervacije ovih rasa u zemlji.

Ključne reči

frekvencija minor alela; SNP; varijacija; distribucija; goveda

Reference

Bickhart, D.M., Xu, L., Hutchison, J.L., Cole, J.B., Null, D.J., Schroeder, S.G., Song, J., Garcia, J.F., Sonstegard, T.S., Van, T.C.P., Schnabel, R.D., Taylor, J.F., Lewin, H.A., Liu, G. (2016) Diversity and population-genetic properties of copy number variations and multicopy genes in cattle. DNA Research, 23(3): 253-262
Carruthers, C.R., Plante, Y., Schmutz, S.M. (2011) Comparison of Angus cattle populations using gene variants and microsatellites. Canadian Journal of Animal Science, 91(1): 81-85
Chen, S., Lin, B.-Z., Baig, M., Mitra, B., Lopes, R. J., Santos, A. M., Magee, D. A., Azevedo, M., Tarroso, P., Sasazaki, S., Ostrowski, S., Mahgoub, O., Chaudhuri, T. K., Zhang, Y.-p., Costa, V., Royo, L. J., Goyache, F., Luikart, G., Boivin, N., Fuller (2010) Zebu Cattle Are an Exclusive Legacy of the South Asia Neolithic. Molecular Biology and Evolution, 27(1): 1-6
Curik, I., Ferenčaković, M., Sölkner, J. (2014) Inbreeding and runs of homozygosity: A possible solution to an old problem. Livestock Science, 166: 26-34
Dadi, H., Kim, J., Yoon, D., Kim, K. (2011) Evaluation of Single Nucleotide Polymorphisms (SNPs) Genotyped by the Illumina Bovine SNP50K in Cattle Focusing on Hanwoo Breed. Asian-Australasian Journal of Animal Sciences, 25(1): 28-32
Decker, J.E., Mckay, S.D., Rolf, M.M.K.I. M. J. W., Alcalá, A.M., Sonstegard, T.S., Hanotte, O., Götherström, A., Seabury, C.M., Praharani, L., Babar, M.E., Regitano, L.C., Yildiz, M.A., Heaton, P.M.L.I. U. W. S. L. E. I. C. Z., Reecy, J.M., Saif-U. R-Rehman, M. (2014) Worldwide patterns of ancestry, divergence, and admixture in domesticated cattle. PLoS Gene., 10, e1004254
Edea, Z., Bhuiyan, M. S. A., Dessie, T., Rothschild, M. F., Dadi, H., Kim, K. S. (2015) Genome-wide genetic diversity, population structure and admixture analysis in African and Asian cattle breeds. animal, 9(02): 218-226
Edea, Z., Dadi, H., Kim, S.-W., Park, J.-H., Shin, G.-H., Dessie, T., Kim, K.-S. (2014) Linkage disequilibrium and genomic scan to detect selective loci in cattle populations adapted to different ecological conditions in Ethiopia. Journal of Animal Breeding and Genetics, 131(5): 358-366
Gautier, M., Laloë, D., Moazami-Goudarzi, K. (2010) Insights into the Genetic History of French Cattle from Dense SNP Data on 47 Worldwide Breeds. PLoS ONE, 5(9): e13038
Groeneveld, L. F., Lenstra, J. A., Eding, H., Toro, M. A., Scherf, B., Pilling, D., Negrini, R., Finlay, E. K., Jianlin, H., Groeneveld, E., Weigend, S. (2010) Genetic diversity in farm animals - a review. Animal Genetics, 41: 6-31
Howard, J.T., Maltecca, C., Haile-Mariam, M., Hayes, B.J., Pryce, J.E. (2015) Characterizing homozygosity across United States, New Zealand and Australian Jersey cow and bull populations. BMC Geno., 16: 187
Hussain, T., Babar, M.E., Peters, S.O., Wajid, A.A.L.I. A., Azam, A., Ahmad, Z., Muhammad, W., Ahmad, A., Kadir, K., Marcos, D.D., Ikhide, G.I. (2016) Microsatellite Markers Based Genetic Evaluation of Pakistani Cattle Breeds. Pakistan Journal of Zoology, 48(6); 1633-164
Kazmi, D., Rasul, G. (2012) Agrometeorological wheat yield prediction in rainfed Potohar region of Pakistan. Agricultiral Sciences, 170-177; 3
Kijas, J.W., Townley, D., Dalrymple, B.P., Heaton, M.P., Maddox, J.F., McGrath, A., Wilson, P., Ingersoll, R.G., McCulloch, R., McWilliam, S., Tang, D., McEwan, J., Cockett, N., Oddy, V. H., Nicholas (2009) A Genome Wide Survey of SNP Variation Reveals the Genetic Structure of Sheep Breeds. PLoS ONE, 4(3): e4668
Kim, .S., Sonstegard, T.S., Rothschild, M.F. (2015) Recent artificial selection in U. S. Jersey cattle impacts autozygosity levels of specific genomic regions. BMC Geno., 6: 302
Kim, E., Sonstegard, T.S., Van, T.C.P., Wiggans, G., Rothschild, M.F. (2015) The Relationship between Runs of Homozygosity and Inbreeding in Jersey Cattle under Selection. PLOS One, 10(7): e0129967
Lin, B.Z., Sasazaki, S., Mannen, H. (2010) Genetic diversity and structure in Bos taurus and Bos indicus populations analyzed by SNP markers. Animal science journal = Nihon chikusan Gakkaiho, 81(3): 281-9
Mbole-Kariuki, M.N., Sonstegard, T., Orth, A., Thumbi, S.M., Bronsvoort, B.M.de C., Kiara, H., Toye, P., Conradie, I., Jennings, A., Coetzer, K., Woolhouse, M.E.J., Hanotte, O., Tapio, M. (2014) Genome-wide analysis reveals the ancient and recent admixture history of East African Shorthorn Zebu from Western Kenya. Heredity, 113(4): 297-305
Mckay, S.D., Schnabel, R.D., Murdoch, B.M., Matukumalli, L.K., Aerts, J., Coppieters, W., Denny, C., Emmanuel, D.N., Clare, A.G., Chuan, G., Hideyuki, M.Z., Curt, P.V.T., John, L.W., Jeremy, F.T., Stephen, S.M. (2008) An assessment of population structure in eight breeds of cattle using a whole genome SNP panel. BMC Gene., 9: 37
Melka, H.D., Jeon, E., Kim, S., Han, J., Yoon, D., Kim, K. (2011) Identification of genomic differences between Hanwoo and Holstein breeds using the Illumina Bovine SNP50 BeadChip. Genomics & Informatics, 9(2): 69-73
Mustafa, H., Huson, J.H., Matthew, M., Kim, E., Ahmad, A., Tad, S.S. (2012) Genome wide structure of cattle from high density SNP array on some worldwide breeds. u: BARC annual poster competition at USDA, ARS, Bovine Functional Genomics Laboratory, Beltsville, MD, USA, 7 April, 46
Mustafa, H., Huson, J.H.K.I. M. E., Nisar, A., Afzal, A., Waqas, A.K., Talat, N.P., Muhammad, Z.F., Khalid, J., Adeela, A.T.A.D. S. S. (2014) Comparative analysis of genome wide difference in Red Sindhi and Holstein cattle breeds using dense SNP marker. International Journal of Advanced Research, 2(4); 300-304
Pryce, J.E., Haile-Mariam, M., Goddard, M.E., Hayes, B.J. (2014) Identification of genomic regions associated with inbreeding depression in Holstein and Jersey dairy cattle. Genetics Selection Evolution, 46(1):
Uzzaman, Md. R., Edea, Z., Bhuiyan, Md. S.A., Walker, J., Bhuiyan, A. K. F. H., Kim, K. (2014) Genome-wide Single Nucleotide Polymorphism Analyses Reveal Genetic Diversity and Structure of Wild and Domestic Cattle in Bangladesh. Asian-Australasian Journal of Animal Sciences, 27(10): 1381-1386