Genetic Relationships among Four Saudi Arabian Sheep Populations

Document Type: Research Article

Authors

1 Department of Animal Production, Food and Agriculture College, King Saud University, Riyadh, 11451, Saudi Arabia

2 International Livestock Research Institute, Naivasha Road, Nairobi, Kenya

Abstract

Four Saudi Arabian indigenous sheep populations including Najdi, Hbsi, Arb, and Naemi were genotyped for 16 microsatellite markers recommended by the food and agriculture organization (FAO). This study aims to provide information on the genetic structure of the breeds analyzed and give indications and proposals for the cross breeding program. All loci were polymorphic in all populations and locus combinations were at Hardy-Weinberg equilibrium except ILSTS044, ILSTS005, MAF209, HUJ616, OARFCB226 and SRCRSP09 (P<0.05). There was substantial genetic variability within sheep populations, with average heterozygosity range of 0.759-0.811 based on expected hetrozygosity. It was observed that the four sheep populations showing the lowest level of inbreeding on the basis of heterozygote deficiency. The lowest genetic distance (0.013) was obtained between Hbsi and Najdi and the highest genetic distance (0.146) between Arb and Hbsi. Estimates of inbreeding coefficient (FIS) were significant for three breeds, except for Arb breeds (P<0.05). The sequence results of the 16 microsatellite markers were sequenced and then phylogenetic tree based on unbiased distances was drawn using MEGA 4. To study the genetic relationships among sheep populations, a principal coordinate analysis (PCA) based on Nei standard distances was performed which indicated a conservation program is needed in these sheep population since most of them are in danger of inbreeding.

Keywords


Ali K.E. and Al-Naomi A.A. (1992). Copper status of Najdi sheep in Eastern Saudi Arabia under penned and grazing conditions. Trop. Anim. Health Prod. 24, 115-120.
Arranz J.J., Bayon Y. and Primitivo F.S. (1998). Genetic relationships among Spanish sheep using microsatellites. Anim. Genet. 29, 435-440.
Beja Pereira A., Alexandrino P., Bessa I., Carretero Y., Dunner S., Ferrand N., Jordana J., Laloe D., Moazami-Goudarzi K., Sanchez A. and Canon J. (2003) Genetic characterization of southwestern European bovine breeds: a historical and biogeographical reassessment with a set of 16 microsatellites. J. Hered. 94(3), 243-250.
Crawford A.M., Dodds K.G., Pierson C.A., Montgomery G.W. and Beattie C.W. (1995). An autosomal genetic linkage map of the sheep genome. Genetics. 140, 703-724.
Dalvit C., Sacca E., Cassandro M., Gervaso M., Pastore E. and Piasentier E. (2008). Genetic diversity and variability in Alpine sheep breeds. Small Rumin. Res. 80, 45-51.
FAO. (2004). Feed and Agriculture Organization. Secondary guidelines for development of national farm animal genetic resources management plan, measurement of domestic animal diversity (MoDAD), recommended microsatellite markers. Rome. Database available at: www.fao.org.
FAO. (2007). Feed and Agriculture Organization. The state of the world report, Rome. Database available at: www.fao.org.
Goudet J. (2002). FSTAT, a program to estimate and test gene diversities and fixation indices.
Gustavo A., Steven T., Walter M. and Philip W. (2000) Genetic variation and population structure in desert bighorn sheep. Conserv. Genet. 1, 3-15.
Kantanen J., Olsaker I., Holm L.E., Lien S., Vilkki J., Brusgaard K., Eythorsdottir E., Danell B. and Adalsteinsson S. (2000). Genetic diversity and population structure of 20 North European cattle breeds. J. Hered. 91, 446-457.
Laval G., Iannuccelli N., Legault C., Milan D., Groenen M.A.M., Giuffra E., Anderson L., Nissen P.E., Jorgensen C.B., Beeckman P., Geldermann H., Foulley J.L., Chevalet C. and Ollivier L. (2000). Genetic diversity of eleven European pig breeds. Genet. Sel. Evol. 32, 187-203.
Handley L.J.L., Byrne K., Santucci F., Townsend S., Taylor M. and Hewitt G.M. (2007). Genetic structure of European sheep breeds. Heredity. 99, 620-631.
Lawson R., Kofron C.P and Dessauer H.C. (1989). Alloenzyme variation in natural populations of Nile crocodile. Am. Zool. 29, 863-871.
Ligda C., Altarayrah J. and Georgoudis A. (2009). Genetic analysis of Greek sheep breeds using microsatellite markers for setting conservation priorities. Small Rumin. Res. 83, 42-48.
Molaee V., Osfoori R., Eskandari Nasab M.P. and Qanbari S. (2009). Genetic relationships among six Iranian indigenous sheep populations based on microsatellite analysis. Small Rumin. Res. 84(1), 121-124.
Muneeb M., Riyadh S., Aljumaah and Al-Shaikh M.A. (2012). Genetic diversity of Najdi sheep based on microsatellite analysis. African J. Biotechnol. 11(83), 14868-14876.
Nei M. (1978). Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics. 89, 583-590.
Nei M. (1972). Genetic Distance between population. Am. Natur. 106, 283-292.
Paetkau D., Calvert W., Stirling I. and Strobeck C. (1995). Microsatellite analysis of population structure in Canadian polar bears. Mol. Ecol. 4, 347-354.
Pariset L.M., Savarese C., Cappuccio I. and Valentini A. (2003). Use of microsatellites for genetic variation and inbreeding analysis in Sarda sheep flocks of central Italy. J. Anim. Breed. Genet. 120, 425-432.
Peter C., Bruford M., Perez T., Dalamitra S., Hewitt G. and Erhardt G. (2007). Population structure of 57 European and Middle Eastern marginal sheep breeds. Anim. Genet. 38(1), 37-44.
Peter C., Erhardt G., Hewitt G., Dalamitra S., Bruford M. and Perez T. (2005). Microsatellite markers reveal differentiation of South Eastern and Western European sheep breeds. The role of biotechnology. Villa Gualino, Turin, Italy.
Raymond M. and Rousset F. (1995). An exact test for population differentiation. Evolution. 49, 1280-1283.
Saitou N. and Nei M. (1987). The Neighbour-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4, 406-425.
Santos Silva F., Ivo R.S., Sousa M.C.O., Carolino M.I., Ginja C. and Gama L.T. (2008). Assessing genetic diversity and differentiation in Portuguese coarse-wool sheep breeds with microsatellite markers. Small Rumin. Res. 78, 32-40.
Trexler J.C. (1998). Hierarchical organization of genetic variation in the Saifin Molly, Poecilia Latipinna (pisces: Poeciliidae). Evolution. 42, 995-1005.
Wright S. (1978). Variability Within and Among Natural Populations. Evolution and the Genetics of Populations. Chicago, IL., University of Chicago Press.
Yeh F.C., Yang R.C., Boyle T.B.J., Ye Z.H. and Mao J.X. (1999). POPGENE, the user friendly shareware for population genetic analysis. Molecular Biology and Biotechnology Centre, University of Alberta, Canada.