Sequence Variations of Mitochondrial DNA Displacement-Loop in Iranian Indigenous Sheep Breeds
الموضوعات :
پ. رافیا
1
(Department of Animal Science, Ashkezar Branch, Islamic Azad University, Ashkezar, Iran)
ا. ترنگ
2
(Gilan Branch, Agricultural Biotechnology Research Institute of Iran/Agricultural Research, Education and Extension Organization (AREO), Rasht, Iran)
الکلمات المفتاحية: genetic diversity, Iranian sheep, mitochondrial DNA,
ملخص المقالة :
Mitochondrial DNA (mtDNA) has been used extensively to study population genetics because it has the unique features of maternal inheritance, a relatively fast rate of evolution and lack of recombination. A total of 82 unrelated sheep from 10 Iranian indigenous sheep breeds were investigated to determinate the maternal genetic diversity using a sequence of a 685 bp segment of the displacement loop (D-loop) of mtDNA. Analysis of this region revealed 74 haplotypes and 123 polymorphic sites. Haplotype diversity, nucleotide diversity and the average number of nucleotide differences were estimated to be 0.996 ± 0.003, 0.0372 ± 0.0001 and 25.23, respectively. The sequence analysis also revealed high level of genetic diversity among the native Iranian breeds. Analysis of molecular variance revealed that 3.43 percent of the variation is found among populations compared with 96.57 percent variation found within populations. The Neighbor-Joining (NJ) tree indicated four (A, B, C and E) of the five haplogroups described so far are present in Iranian sheep breeds. The phylogenetic tree did not show any distinct genetic structure among the studied populations, which suggested that there existed strong gene flow and intermixing among sheep populations probably caused by extensive transportation of sheep in history and similar maternal lineages among the regions.
Agaviezor B.O., Adefenwa M.A., Peters S.O., Yakubu A., Adebambo A.O., Ozoje M.O., Ikeobi C.O.N., Ilori B.M., Wheto M., Okpeku M., De Donato M. and Imumorin I.G. (2012). Mitochondrial D-loop genetic diversity of Nigerian indigenous sheep. Anim. Genet. 50, 13-20.
Benjelloun B., Pompanon F., Ben Bati M., Chentouf M., Ibnelbachyr M., El Amiri B., Rioux D., Boulanouar B. and Taberlet P. (2011). Mitochondrial DNA polymorphism in Morrocan goats. Small Rumin. Res. 98(1), 201-205.
Excoffier L., Laval G. and Schneider S. (2005). Arlequin ver. 3.0: an integrated software package for population genetics data analysis. Evol. Bioinform. 1, 47-50.
Galtier N., Nabholz B., Glemin S. and Hurst G.D.D. (2009). Mitochondrial DNA as a marker of molecular diversity. Mol. Ecol. 18, 4541-4550.
Gizaw S., Komen H., Hanote O., Van Arendonk J.A.M., Kemp S., Haile A., Mwai O. and Dessie T. (2011). Characterization and conservation of indigenous sheep genetic resources: a practical framework for developing countries. Pp. in 41-45 in Proc. ILRI Res. Report. Nairobi, Kenya.
Guo J., DuL X., Ma Y.H., Guan W.J., Li H.B., Zhao Q.J., Li X. and Rao S.Q. (2005). A novel maternal lineage revealed in sheep (Ovis aries). Anim. Genet. 36, 331-336.
Hall T.A. (1999). BioEdit: a user-friendly biological sequence alignment editor and analysis program for windows 95/98/NT. Nucl. Acids. Symp. Ser. 41, 95-98.
Hiendleder S. (1998). A low rate of replacement substitutions in two major Ovis aries mitochondrial genomes. Anim. Genet. 29(2), 116-122.
Hiendleder S., Kaupe B., Wassmuth R. and Janke A. (2002). Molecular analysis of wild and domestic sheep questions current nomenclature and provides evidence for domestication from two different subspecies. Proc. Biol. Sci. 269, 893-904.
Hiendleder S., Mainz K., Plante Y. and Lewalski H. (1998). Analysis of mitochondrial DNA indicates that domestic sheep are derived from two different ancestral maternal sources: no evidence for contributions from Urial and Argali sheep. J. Hered. 89, 113-120.
Kantanen J., Vilkki J., Elo K. and Maki-Tanila A. (1995). Random amplified polymorphic DNA in cattle and sheep: application for detecting genetic variation. Anim. Genet. 26, 315-320.
Lancioni H., Di Lorenzo P., Ceccobelli S., Perego U.A., Miglio A., Landi V., Antognoni M.T., Sarti F.M., Lasagna E. and Achilli A. (2013). Phylogenetic relationships of three Italian Merino-derived sheep breeds evaluated through a complete mitogenome analysis. PLoS. One. 8(9), 1-15.
Librado P. and Rozas J. (2009). DnaSP vae5: a software for comprehensive analysis of DNA polymorphism data. Bioinform. 25, 1451-1452.
Mburu D. and Hanotte O. (2005). A practical approach to microsatellite genotyping with special reference to livestock population genetics. Pp. 21-27 in Proc. ILRI Biodiver. Project. Nairobi, Kenya.
Meadows J.R., CemalI., Karaca O., Gootwine E. and Kijas J.W. (2007). Five ovine mitochondrial lineages identified from sheep breeds of the Near East. Genetics. 175, 1371-1379.
Meadows J.R., Li K., Kantanen J., Tapio M., Sipos W., Pardeshi V., Gupta V., Calvo J.H., Whan V., Norris B. and Kijas J.W. (2005). Mitochondrial sequence reveals high levels of gene flow between breeds of domestic sheep from Asia and Europe. J. Hered. 96, 494-501.
Meadows J.R.S., Hiendleder S. and Kijas J.W. (2011). Haplogroup relationships between domestic and wild sheep resolved using a mitogenome panel. Heredity. 106, 700-706.
Mohammadhashemi A., Pirany N., Nassiri M.R., Abbassidaloii T. and BaghbanKkohnegroz B. (2012). Studying the partially sequenced mtDNA hypervariable region1 (HVR1) of Iranian Moghani sheep. Ann. Biol. Res. 3(6), 2906-2910.
Oner Y., Calvo J.H. and Elmaci C. (2013). Investigation of the genetic diversity among native Turkish sheep breeds using mtDNA polymorphisms. Trop. Anim. Health Prod. 45, 947- 951.
Pariset L., Mariotti M., Gargani M., Joost S., Negrini R., Perez T., Bruford M., Marsan P.A. and Valentini A. (2011). Genetic diversity of sheep breeds from Albania, Greece and Italy assessed by mitochondrial DNA and nuclear polymorphisms (SNPs). Sci. World. J. 11, 1641-1659.
Pedrosa S., Uzun M., Arranz J.J., Gutie´rrez-Gil B., San Primitivo F. and Bayon Y. (2005). Evidence of three maternal lineages in Near Eastern sheep supporting multiple domestication events. Proc. Biol. Sci. 272, 2211-2217.
Pereira F., Davis S., Pereira L., McEvoy B., Bradley D.G. and Amorim A. (2006). Genetic signatures of a Mediterranean influence in Iberian Peninsula sheep husbandry. Mol. Biol. Evol. 23, 1420-1426.
Reicher S., Seroussi E., Weller J.I., Rosov A. and Gootwine A. (2012). Ovine mitochondrial DNA sequence variation and its association with production and reproduction traits within an Afec-Assaf flock. J. Anim. Sci. 90, 2084-2091.
Tamura K., Peterson D., Peterson N., Stecher G., Nei M. and Kumar S. (2011). MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol. Biol. Evol. 28, 2731-2739.
Tapio M., Marzanov N., Ozerov M., Cinkulov M., Gonzarenko G., Kiselyova T., Murawski M., Viinalas H. and Kantenen J. (2006). Sheep mitochondrial DNA variation in European, Caucasian and Central Asian areas. Mol. Biol. Evol. 23, 1776-1783.
Tserenbataa T., Ramey R.R., Ryder O.A., Quinn T.W. and Reading R.P. (2004). A population genetic comparison of argali sheep (Ovis ammon) in Mongolia using the ND5 gene of mitochondrial DNA: implications for conservation. Mol. Ecol. 13, 1333-1339.
Wang X., Cao L., Liu Z. and Fang S. (2006). Mitochondrial DNA variation and matrilineal structure in blue sheep populations of Helan Mountain, China. Canadian J. Zool. 84, 1431-1439.
Wang X., Chen H. and Lei C.Z. (2007). Genetic diversity and phylogenetic analysis of the mtDNA D-loop region in Tibetan sheep. Asian-Australas J. Anim. Sci. 3, 313-315.
Witas H.W. and Zawicki P. (2004). Mitochondrial DNA and human evolution. Prz. Antropol.-Anthropol. Rev. 67, 97-110.
WoodN.J. and Phua S.H. (1996). Variation in the control region sequence of the sheep mitochondrial genome. Anim. Genet. 27, 25-33.
Xingbo Z., Mingxing C., Ning L. and Changxin W. (2000). Paternal inheritance of mitochondrial DNA in the sheep (Ovine aries). Sci. China. 44(3), 321-326.
