논문 상세보기

High-throughput InDel marker development based on next generation sequencing in ‘Whangkeumbae’ and ‘Minibae’ pears

  • 언어ENG
  • URLhttps://db.koreascholar.com/Article/Detail/298296
서비스가 종료되어 열람이 제한될 수 있습니다.
한국육종학회 (The Korean Breeding Society)
초록

Currently, the type of short insertions and deletions (InDels) polymorphisms are increasingly focused in genomic research. InDels have been known as a source of genetic markers that are widely spread across the genome. Genetic relationship among Korean pear cultivars compared with their parents was also identified that they are closely related P. pyrifolia, P. ussuriensis and/or hybrids between two species. Lack of genetic resources including molecular markers has made it difficult to study pears severely. Recently developed next generation sequencing (NGS) platforms offer opportunities for high-throughput and inexpensive genome sequencing and rapid marker development. The main goal of this study was to develop polymorphic InDel markers in ‘Whangkeumbae’ and ‘Minibae’, which were chosen as the representative cultivars of P. pyrifolia and P. ussuriensis × pyrifolia in each among Korean pears using genomic sequences generated by NGS technology. In this study, more than 18.6 Gbp and 15.8 Gbp sequences were obtained from NGS of ‘Whangkeumbae’ and ‘Minibae’, respectively. ‘Whangkeumbae’ contained 197,210 InDels and 197,272 InDels in ‘Minibae’. In InDels validations between ‘Whangkeumbae’ and ‘Minibae’, the number of polymorphic InDels were 149,338 and non-polymorphic InDels were 122,572. For InDel primer set designing, 11,308 of primers were designed from polymorphic InDels and 10,919 of InDel primers were recommended. The study shows that the utility of NGS technology to design amount of efficient InDels and the developed InDel primers will be used for genetic mapping, breeding by marker assisted selection (MAS) and QTL mapping of Korea native pear as well as further genetic studies.

저자
  • Youngjae Oh(Department of Horticultural Science, Chungbuk National University, Brain Korea 21 Center for Bio-Resource Chungbuk National University)
  • Seolah Kim(Department of Horticultural Science, Chungbuk National University, Brain Korea 21 Center for Bio-Resource Chungbuk National University)
  • Hyunsuk Shin(Department of Horticultural Science, Chungbuk National University, Brain Korea 21 Center for Bio-Resource Chungbuk National University)
  • Jungyeon Won(Department of Horticultural Science, Chungbuk National University, Brain Korea 21 Center for Bio-Resource Chungbuk National University)
  • Sam-Seok Kang(Pear Research Station, National Institute of Horticultural & Herbal Science, Rural Development Administration)
  • Yoon-Kyeong Kim(Pear Research Station, National Institute of Horticultural & Herbal Science, Rural Development Administration)
  • Daeil Kim(Department of Horticultural Science, Chungbuk National University, Brain Korea 21 Center for Bio-Resource Chungbuk National University) Corresponding Author