Molecules and Cells

, Volume 27, Issue 1, pp 21–37 | Cite as

Construction of an integrated pepper map using RFLP, SSR, CAPS, AFLP, WRKY, rRAMP, and BAC end sequences

  • Heung-Ryul Lee
  • Ik-Hyun Bae
  • Soung-Woo Park
  • Hyoun-Joung Kim
  • Woong-Ki Min
  • Jung-Heon Han
  • Ki-Taek Kim
  • Byung-Dong Kim


Map-based cloning to find genes of interest, markerassisted selection (MAS), and marker-assisted breeding (MAB) all require good genetic maps with high reproducible markers. For map construction as well as chromosome assignment, development of single copy PCR-based markers and map integration process are necessary. In this study, the 132 markers (57 STS from BAC-end sequences, 13 STS from RFLP, and 62 SSR) were newly developed as single copy type PCR-based markers. They were used together with 1830 markers previously developed in our lab to construct an integrated map with the Joinmap 3.0 program. This integrated map contained 169 SSR, 354 RFLP, 23 STS from BAC-end sequences, 6 STS from RFLP, 152 AFLP, 51 WRKY, and 99 rRAMP markers on 12 chromosomes. The integrated map contained four genetic maps of two interspecific (Capsicum annuum ‘TF68’ and C. chinense ‘Habanero’) and two intraspecific (C. annuum ‘CM334’ and C. annuum ‘Chilsungcho’) populations of peppers. This constructed integrated map consisted of 805 markers (map distance of 1858 cM) in interspecific populations and 745 markers (map distance of 1892 cM) in intraspecific populations. The used pepper STS were first developed from end sequences of BAC clones from Capsicum annuum ‘CM334’. This integrated map will provide useful information for construction of future pepper genetic maps and for assignment of linkage groups to pepper chromosomes.


BAC integrated map marker pepper SSR 


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Copyright information

© The Korean Society for Molecular and Cellular Biology and Springer Netherlands 2009

Authors and Affiliations

  • Heung-Ryul Lee
    • 1
  • Ik-Hyun Bae
    • 1
  • Soung-Woo Park
    • 1
  • Hyoun-Joung Kim
    • 1
  • Woong-Ki Min
    • 2
  • Jung-Heon Han
    • 2
  • Ki-Taek Kim
    • 3
  • Byung-Dong Kim
    • 1
    • 2
    • 4
  1. 1.Department of Plant ScienceSeoul National UniversitySeoulKorea
  2. 2.Center for Plant Molecular Genetics and Breeding ResearchSeoul National UniversitySeoulKorea
  3. 3.National Horticultural Research InstituteSuwonKorea
  4. 4.Research Institute for Agriculture and Life SciencesSeoul National UniversitySeoulKorea

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