Molecular Biology Reports

, Volume 40, Issue 10, pp 5861–5867 | Cite as

Molecular phylogeny of Indian horse breeds with special reference to Manipuri pony based on mitochondrial D-loop

  • Kshetrimayum Miranda Devi
  • Sankar Kumar GhoshEmail author


Manipuri pony is the geographically distant breed of horse from the five recognized horse breeds found in the Indian subcontinent. The phylogenetic relationship of Manipuri pony with the other breeds is unknown. The diversity in the mitochondrial (mt) DNA D-loop region is employed as an important tool to understand the origin and genetic diversification of domestic horses and to examine genetic relationships among breeds around the world. This study was carried out to understand the maternal lineages of Manipuri pony using the 247 bp region of the mtDNA D-loop. The dataset comprised of eleven numbers of self developed sequences of Manipuri pony, 59 and 35 number of retrieved sequences of Indian horse breeds and other worldwide breeds respectively. A total of 35 haplotypes was identified with a high level of genetic diversity in the Indian breeds. A total of seven major mtDNA haplogroups (A–G) was identified in the Indian horse breeds that indicated the abundance of mtDNA diversity and multiple origins of maternal lineages in them. The majority of the studied sequences of Indian breeds (33.3 %) were grouped into haplogroup D and least (3.9 %) in haplogroup E. The Manipuri breed showed the least FST distance (0.03866) with the most diverged Indian breeds and with Thoroughbred horse among the worldwide. This study indicated a close association between Manipuri pony and Thoroughbred.


Manipuri pony Mitochondrial DNA D-loop Haplogroup Genetic diversity Maternal origin 



Authors would like to kindly thank all those who provide help during the sample collection especially Dr. Thiyam Ranadhir Singh and the field assistant of Central Agricultural University, Manipur. The authors would also like to thank Department of Biotechnology, Govt. of India, providing infrastructural facilities.

Supplementary material

11033_2013_2692_MOESM1_ESM.doc (70 kb)
Supplementary material 1 (DOC 69 kb)


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Copyright information

© Springer Science+Business Media Dordrecht 2013

Authors and Affiliations

  • Kshetrimayum Miranda Devi
    • 1
  • Sankar Kumar Ghosh
    • 1
    Email author
  1. 1.Department of BiotechnologyAssam UniversitySilcharIndia

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