Genetic Diversity and Maternal Origin of Indigenous Sheep of Bangladesh Using Mitochondrial DNA

Subject Areas : Camel

M.A. Mousumee ¹ , M.M. Hossain ² , M.R. Hoque ³ , M.S.A. Bhuiyan ⁴

1 - Department of Animal Breeding and Genetics, Bangladesh Agricultural University, Mymensingh-2202, Bangladesh
2 - Department of Animal Breeding and Genetics, Bangladesh Agricultural University, Mymensingh-2202, Bangladesh
3 - Genet Bio Co., Ltd. Yuseong-gu, Daejeon-34025, Republic of Korea
4 - Department of Animal Breeding and Genetics, Bangladesh Agricultural University, Mymensingh-2202, Bangladesh

Received: 2020-08-01 Accepted : 2020-09-15 Published : 2021-06-01

Keywords: genetic diversity, indigenous sheep, phylogenic analysis, Bangladesh, mitochondrial DNA,

Abstract :

This study was aimed to investigate genetic diversity, phylogenetic relationship and maternal origin of Bangladeshi indigenous sheep population based on mitochondrial DNA (mtDNA) displacement loop (D-loop) region. A total of 62 unrelated indigenous sheep samples from 4 different geographical regions (Sundarban delta region=SDR, Jamuna river basin=JRB, Coastal region=COR and Barind tract=BAT) were investigated using 444 bp mtDNA D-loop sequence fragment. Sequence analysis revealed only 10 variable sites that defined 11 haplotypes. The estimated haplotypes diversity and nucleotide diversity were 0.401 ± 0.149 and 0.002 ± 0.001, respectively. The population pairwise FST values were highly significant (p <0.01) between COR and three other sheep populations (SDR, JRB and BAT) that ranged between 0.037 and 0.352. Analysis of molecular variance (AMOVA) revealed that 88.84% of the total genetic variability was accounted for within population differentiation and the remaining 11.16% variability was distributed among sheep populations of four different regions of Bangladesh. The phylogenetic study did not show any distinct cluster among the Bangladeshi sheep populations but had evolutionary relationship with Ovis aries as well as with some other Indian, Chinese and Turkish sheep breeds. Altogether, the mtDNA sequence information showed lower genetic diversity and common matrilineage among the studied populations. In conclusion, this study provides important insight on genetic diversity measures and relationships among indigenous sheep population of Bangladesh.

References:

Adhena M.H. (2018). Genetic diversity of North Ethiopian indigenous sheep populations using mitochondrial DNA. MS Thesis, Swedish University of Agriculture Sciences, Uppsala, Sweden

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. Genet. Res. 50, 13-20.

Banerjee R., Mandal P.K., Pal U.K. and Ray K. (2010). Productivity and genetic potential of Garole sheep of India–a review. Asian J. Anim. Sci. 4, 170-189.

Bhuiyan A.K.F.H. (2006). Livestock Genetic Resources in Bangladesh: Preservation and Management. Pp. 16-20 in Proc. Int. Conf. Livest. Serv., Chinese Academy of Agricultural Science (CAAS), Beijing, China.

Brown J.R., Beckenbach A.T. and Smith M.J. (1992). Mitochondrial DNA length variation and heteroplasmy in populations of white sturgeon (Acipenser transmontanus). Genetics. 132, 221-228.

Chen S.Y., Duan Z.Y., Sha T., Xiangyu J., Wu S.F. and Zhang Y.P. (2006). Origin, genetic diversity, and population structure of Chinese domestic sheep. Genetics. 376, 216-223.

Chessa B., Pereira F., Arnaud F., Amorim A., Goyache F., Mainland I., Kao R.R., Pemberton J.M., Beraldi D., Stear M.J., Alberti A., Pittau M., Iannuzzi L., Banabazi M.H., Kazwala R.R., Zhang Y.P., Arranz J.J., Ali B.A., Wang Z.L., Uzun M., Dione M.M., Olsaker I., Holm L.E., Saarma U., Ahmad S., Marzanov N., Eythorsdottir E., Holland M.J., Ajmone-Marsan P., Bruford M.W., Kantanen J., Spencer T.E. and Palmarini M. (2009). Revealing the history of sheep domestication using retrovirus integrations. Science. 324, 532-536.

Deb G.K., Choudhury M.P., Kabir M.A., Khan M.Y.A., Ershaduzzaman M., Nahar T.N., Hossain S.M.J., Alam, M.S. and Alim M.A. (2019). Genetic relationship among indigenous sheep population of Bangladesh. Bangladesh J. Anim. Sci. 48, 17-22

Di Lorenzo P., Lancioni H., Ceccobelli S., Curcio L., Panella F. and Lasagna E. (2016). Uniparental genetic systems: a male and a female perspective in the domestic cattle origin and evolution. Electron. J. Biotechnol. 23, 69-78.

Department of Livestock Services. (2017). Livestock Economy at a Glance (2017-18), Department of Livestock Services, Dhaka, Bangladesh.

Excoffier L. and Lischer H.E. (2010). Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Mol. Ecol. Res. 10, 564-567.

Gaouar S., Tabet-Aoul N. and Saïdi-Mehtar N. (2005). Genetic diversity in Algerian sheep breeds using microsatellite markers. Pp. 641-644 in Proc. Appl. Gene-Based Technol. Improv. Anim. Prod. Health in Dev. Ctry., New York, USA.

Ghernouti N., Bodinier M., Ranebi D., Maftah A., Petit D. and Gaouar S.B.S. (2017). Control Region of mtDNA identifies three migration events of sheep breeds in Algeria. Small Rumin. Res. 155, 66-71.

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. 41-45 in Proc. ILRI Res. Report. Nairobi, Kenya.

Gorkhali N.A., Han J.L. and Ma Y.H. (2015). Mitochondrial DNA variation in indigenous sheep (Ovis aries) breeds of Nepal. Trop. Agric. Res. 26, 632-341.

Hailemariam F., Gebreniceal D. and Hadgu H. (2018). Phenotypic characterization of sheep breeds in Gamogofa zone. Agric. Food Secur. 7, 20-27.

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.

Hassan M.R. and Talukder M.A.I. (2011). Comparative performance of different regional native sheep in Bangladesh. Bangladesh Vet. 28, 85-95.

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. R. Soc. London B. Biol. Sci. 269, 893-904.

Hiendleder S., Lewalski H., Wassmuth R. and Janke A. (1998). The complete mitochondrial DNA sequence of the domestic sheep (Ovis aries) and comparison with the other major ovine haplotype. J. Mol. Evol. 47, 441-448.

Ilmira M., Yessenbay I., Saukymbek S., Dulat I., Sabina A. and Pavel T. (2018). Genetic characterization of Kazakh Native sheep breeds using mitochondrial DNA. Online J. Biol. Sci. 18, 341-348.

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.

Khan M.Y.A., Han J., Husain S.S., Alam M.R., Teneva A. and Faruque M.O. (2009). Genetic relationship in different sheep population of Bangladesh based on microsatellite markers. J. Bangladesh Agric. Univ. 7, 291-294.

Librado P. and Rozas J. (2009). DnaSP ver 5: A software for comprehensive analysis of DNA polymorphism data. Bioinformatics. 25, 1451-1452.

Liu J., Ding X., Zeng Y., Yue Y., Guo X., Guo T., Chu M., Wang F., Han J., Feng R. and Sun X. (2016). Genetic diversity and phylogenetic evolution of Tibetan sheep based on mtDNA D-Loop sequences. PloS One. 11, e0159308.

Luo Y.Z., Cheng S.R., Batsuuri L., Badamdorj D., Olivier H. and Han J.L. (2005). Origin and genetic diversity of Mongolian and Chinese sheep using mitochondrial DNA D-loop sequences. Acta Genet. Sin. 32, 1256-1265.

Moradi M.H., Phua S.H., Hedayat N., Khodaei M.M. and Razmkabir M. (2017). Haplotype and genetic diversity of mtDNA in Indigenous Iranian sheep and an insight into the history of sheep domestication.J. Agric. Sci. Technol. 19, 591-601.

Othman O.E., Pariset L., Balabel E.A. and Marioti M. (2015). Genetic characterization of Egyptian and Italian sheep breeds using mitochondrial DNA. J. Genet. Eng. Biotechnol. 13, 79-86.

Pariset L., Mariotti M., Gargani M., Joost S., Negrini R., Perez T., Bruford M., Ajmone M.P. 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.

Pereira F., Davis S.J., 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.

Rafia P. and Tarang A. (2016). Sequence variations of mitochondrial DNA displacement loop in Iranian Indigenous sheep breeds. Iranian J. Appl. Anim. Sci. 6, 363-368.

Singh S., Kumar Jr. S., Kolte A.P. and Kumar S. (2013). Extensive variation and sub-structuring in lineage A mtDNA in Indian sheep: Genetic evidence for domestication of sheep in India. PLoS One. 8, e77858.

Tamura K., Stecher G., Peterson D., Filipski A. and Kumar S. (2013). MEGA6: Molecular evolutionary genetics analysis version 6.0. Mol. Biol. Evol. 30, 2725-2729.

Tanaka K., Solis C.D., Masangkay J.S., Maeda K. and Kawamoto Y. (1996). Phylogenetic relationship among all living species of the genus Bubalus based on DNA sequences of the cytochrome b gene. Biochem. Genet. 34, 443-452.

Tapio M., Marzanov N., Ozerov M., Cinkulov M., Gonzarenko G., Kiselyova T., Murawski M., Viinalass H. and Kantanen J. (2006). Sheep mitochondrial DNA variation in European, Caucasian, and Central Asian areas. Mol. Biol. Evol. 23, 1776-1783.

Xu S., Luosang J., Hua S., He J., Ciren A. and Wang W. (2007). High altitude adaptation and phylogenetic analysis of Tibetan horse based on the mitochondrial genome. J. Genet. Genom. 34, 720-729.