Comparative study of three simple molecular approaches in search of mtDNA haplogroup identification of domestic sheep

Yuncu E., Demirci S., Bastanlar E. K., Dogan S. A., Tasdemir U., Togan I.

SMALL RUMINANT RESEARCH, vol.114, no.1, pp.64-71, 2013 (SCI-Expanded) identifier identifier

  • Publication Type: Article / Article
  • Volume: 114 Issue: 1
  • Publication Date: 2013
  • Doi Number: 10.1016/j.smallrumres.2013.05.014
  • Journal Name: SMALL RUMINANT RESEARCH
  • Journal Indexes: Science Citation Index Expanded (SCI-EXPANDED), Scopus
  • Page Numbers: pp.64-71
  • Keywords: Native Turkish sheep breeds, Mitochondrial DNA (mtDNA) haplogroups (HPGs), Control region (CR), MT-ND2 region, MT-ND4 region, MITOCHONDRIAL-DNA ANALYSIS, WILD, SUBSTITUTIONS, LINEAGES, SEQUENCE, ORIGINS, REGION, BREEDS
  • Middle East Technical University Affiliated: Yes

Abstract

There are five (A-E) identified mitochondria, DNA (mtDNA) haplogroups (HPGs) in domestic sheep. In search of a quick and reliable HPG classification, three different molecular approaches were tested: the restriction fragment length polymorphism (RFLP) method applied to mtDNA control region (CR), the single strand conformational polymorphism (SSCP) method applied to NADH dehydrogenase subunit 2 (MT-ND2) and to NADH dehydrogenase subunit 4 (MT-ND4) regions. The results were evaluated comparatively to elucidate their power in discriminating the sheep mtDNA HPGs. For this purpose, the HPGs of 622 domestic sheep all from Turkey, hence from the genetic diversity hot spot of domestic sheep distribution were examined using these three approaches. The HPGs for some of the individuals (n = 240) were also obtained based on CR sequences. The SSCP analysis of the MT-ND2 region (by identifying HPGs as A, B, C/E and D) exhibited higher discrimination power, sensitivity and specificity in HPG classification when compared with the SSCP analysis of MT-ND4 region and RFLP analysis of CR.