Mitochondrial Diversity and Phylogenetic Structure of Marghoz Goat Population
Subject Areas : Camel
ح.ر. سیدآبادی
1
(
Department of Animal Biotechnology, Animal Science Research Institute, Karaj, Iran
)
ک. پهلوان افشاری
2
(
Department of Animal Science, Abhar Branch, Islamic Azad University, Abhar, Iran
)
م. عبدالمالکی
3
(
Department of Animal Science, Abhar Branch, Islamic Azad University, Abhar, Iran
)
Keywords: genetic diversity, Marghoz goat, mtDNA, phylogenetic,
Abstract :
The genetic diversity and phylogenetic structure was analyzed in Marghoz goat population by mitochondrial DNA sequences. Phylogenetic analysis was carried out using hyper variable region 1 (968 bp) obtained form 40 animals. Marghoz goat proved to be extremely diverse (average haplotype diversity of 0.999) and the nucleotide diversity values 0.022. A total of 40 Marghoz goats were grouped into six haplotypes and the large majority of haplotypes were present in 15 animals. All Marghoz haplotypes were classified into C haplogroup and revealed remarkably high genetic distances within the population when compared with other Asian goat populations, indicating high genetic variation in the Marghoz goat. These results indicate high-divergence status of the Marghoz goat and will influence breeding and conservation strategies adopted for this breed.
Agaviezor B.O., Adefenwa M.A., Peters S.O., Yakubu A., Adebambo O.A., Ozoje M.O., Ikeobi C.O.N., Ilori B.M., Wheto M., Ajayi O.O., Amusan S.A., Okpeku M., De Donato M. and Imumorin I.G. (2012). Genetic diversity analysis of the mitochondrial D-loop of Nigerian indigenous sheep. Anim. Gen. Resour. 50, 13-20.
ArnasonU., Gullberg A., Johnsson E. and Ledje C. (1993). The nucleotide sequence of the mitochondrial DNA molecule of the grey seal, Halichoerus grypus and a comparison with the mitochondrial sequences of other true seals. J. Mol. Evol. 37, 323-330.
ArnasonU., Gullberg A. and Widegren B. (1991). The complete nucleotide sequence of the mitochondrial DNA of the ¢n whale Balaenoptera physalus. J. Mol. Evol. 33, 556-568.
Ameur A., Stewart J.B., Freyer C., Hagstro E., Ingman M., Ran N., Larsson G. and GyllenstenU. (2011). Ultra-deep sequencing of mouse mitochondrial DNA: mutational patterns and their origins. PLoS Gent. 7, 1-15.
Anderson S., DeBruijin M.H.L., Colson A.R., Eperon I.C., Sanger F. and Young I.G. (1982). Complete sequence of bovine mitochondrial DNA conserved features of the mammalian mitochondrial genome. J. Mol. Biol. 156, 683-692.
Brown W.M., George M.J. and Wilson AC. (1979). Rapid evolution of animal mitochondrial DNA. Proc. Nat. Acad. Sci. USA. 76, 1967-1971.
Chen S.Y., Su Y.H., Wu S.F., Sha T. and Zhang Y.P. (2005). Mitochondrial diversity and phylogeographic structure of Chinese domestic goats. Mol. Phylogenet. Evol. 73, 804-814.
Çinar Kul B. and Ertugrul O. (2011). mtDNA diversity and phylogeography of some Turkish native goat breeds. Ankara Üniv. Vet. Fak. Derg. 58, 129-134.
Cozzi M.C., Strillacci M.G., Valianti P., Bighignoli B., Cancedda M. and Zanotti M. (2004). Mitochondrial D-loop sequence variation among Italian horse breeds. Genet. Sel. Evol. 36, 663-672.
Ghivizzani S.C., Madsen C.S. and Hauswirth W.M. (1993). In organello footprinting: analysis of protein binding at regulatory regions in bovine mitochondrial DNA. J. Biol. Chem. 268, 8675-8682.
Hall T.A. (1999). Bio edit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids. Symp. Ser. 41, 95-98.
Hoda A., Bicoku Y. and Dobi P. (2014). Genetic diversity of Albanian goat breeds revealed by mtDNA sequence variation. Biotechnol. Biotec. Equip. 28, 77-81.
Hoque M.R., Choi N.R., Sultana H., Kang B.S., Heo K.N., Hong S.K., Jo C. and Lee J.H. (2013). Phylogenetic analysis of a privately-owned Korean Native chicken population using mtDNA D-loop variations. Asian-Australas J. Anim. Sci. 26, 157-162.
Ilie D.E., Cean A., Cziszter L.T., Gavojdian D., Ivan A. and Kusza S. (2015). Microsatellite and mitochondrial DNA study of native eastern European cattle populations: the case of the Romanian Grey. PLoS One. 10, 1-18.
Joshi M.B., Rout P.K., Mandal A.K., Tyler-Smith C., Singh L. and Thangaraj K. (2004). Phylogeography and origin of Indian domestic goats. Mol. Biol. Evol. 21, 454-462.
Kumar S., Tamura K., Jakobsen I.B. and Nei M. (2004). MEGA3.1: Molecular Evolutionary Genetics Analysis Software. ArizonaStateUniversity Press, Tempe, USA.
Li K.Y., Li K.T., Cheng C.C., Chen C.H., Hung C.Y. and Ju Y.T. (2014). A genetic analysis of Taoyuan pig and its phylogenetic relationship to Eurasian pig breeds. Asian-Australas J. Anim. Sci. 28, 457-466.
Liu Z.G., Lei C.Z., Luo J., Ding C., Chen G.H., Chang H., Wang K.H., Liu X.X., Zhang X.Y., Xiao X.J. and Wu S.L. (2006). Genetic variability of mtDNA sequences in Chinese native chicken breeds. Asian-Australas J. Anim. Sci. 17, 903-909.
Luikart G., Gielly L., Excoffier L., Vigne J.D., Bouvet J. and Taberlet P. (2001). Multiple maternal origins and weak phylogeographic structure in domestic goats. Proc. Nat. Acad. Sci. USA. 98, 5927-5932.
Mignotte F., Gueride M., Champagne A.M. and Mounolou J.C. (1990). Direct repeats in the non-coding region of mitochondrial DNA. Involvement in the generation of intra and inter-individual heterogeneity. European J. Biochem. 194, 561-571.
Moradi M.H., Rostamzadeh J., Rashidi A., Vahabi K. and Farahmand H. (2014). Analysis of genetic diversity in Iranian mohair goat and its color types using Inter Simple Sequence Repeat (ISSR) markers. Agric. Commod. 2, 55-62.
Naderi S., Rezaei H.R., Taberlet P., Zundel S., Rafat S.A., Naghash H.R., Elbarody M.A.A., Ertugrul O. and Pompanon F. (2007). Large-scale mitochondrial DNA analysis of the domestic goat reveals six haplogroups with high diversity. PloS One. 2, 1-10.
Nass M.M. (1995). Precise sequence assignment of replication origin in the control region of chick mitochondrial DNA relative to 5َ and 3َ ends, secondary structure, DNA synthesis and protein binding. Curr. Genet. 28, 401-409.
Pakpahan S., Tunas Artama W., Widayanti R. and Suparta G. (2015). Genetic variations and the origin of native Indonesian goat breeds based on mtDNA D-Loop sequences. Asia J. Anim. Sci. 9, 341-350.
Rozas J., Sachez-Delbarrio J.C., Messeguer X. and Rozas R. (2003). DnaSP, DNA polymorphism analyses by the coalescent and other methods. Bioinformatics. 19, 2496-2497.
Saccone C., Pesole G. and Sbisa E. (1991). The main regulatory region of mammalian mitochondrial DNA: structure function model and evolutionary pattern. J. Mol. Evol. 33, 83-91.
Saitou N. and Nei M. (1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4, 406-425.
Sultana S., Mannen H. and Tsuji S. (2003). Mitochondrial DNA diversity of Pakistani goats. Anim. Genet. 34, 417-421.
Taberlet P., Valentini A., Rezaei H.R., Naderi S., Pompanon F., Negrini R. and Ajmone-Marsan P. (2008). Are cattle, sheep, and goats endangered species. Mol. Ecol. 17, 275-284.
Tamura K. and Nei M. (1993). Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol. Biol. Evol. 10, 512-526.
Wilson A.C., Cann R.L., Carr S.M., George M., Gyllensten U.B., Helm-Bychowski K.M., Higuchi R.J., Palumbi S.R., PragerE.M., Sage R.D. and Stoneking M. (1985). Mitochondrial DNA and two perspectives on evolutionary genetics. Biol. J. Linn. Soc. 26, 375-400.
Xu X., Gullberg A. and ArnasonU. (1996). The complete mitochondrial DNA (mtDNA) of the donkey and mtDNA comparisons among four closely related mammalian species pairs. J. Mol. Evol. 43, 438-446.
Zernekova C., Kott T. and Majzlik I. (2013). Mitochondrial D-loop sequence variation among Hucul horse. Czech J. Anim. Sci. 58, 437-442.