Construction of an integrated pepper map using RFLP, SSR, CAPS, AFLP, WRKY, rRAMP, and BAC end sequences
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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.
KeywordsBAC integrated map marker pepper SSR
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- Barchi, L., Bonnet, J., Boudet, C., Signoret, P., Nagy, I., Lanteri, S., Palloix, A., and Lefebvre, V. (2007). A high-resolution, intraspecific linkage map of pepper (Capsicum annuum L.) and selection of reduced recombinant inbred line subsets for fast mapping. Mol. Breed. 13, 251–261.Google Scholar
- Bowers, J.E., Abbey, C., Anderson, S., Chang, C., Draye, X., Hoppe, A.H., Jessup, R., Lemke, C., Lennington, J., Li, Z., et al. (2003). A high-density genetic recombination map of sequencetagged sites for sorghum, as a framework for comparative structural and evolutionary genomics of tropical grains and grasses. Genteics 165, 367–386.Google Scholar
- Bruce, B., Eric, D.G., Sue, K., Richard, M.M., and Jane, R. (1997). Genome Analysis. 1, Cold Spring Harbor, Cold Spring Harbor Laboratory Press, pp. 24–25.Google Scholar
- Chen, C., Yu, Q., Hou, S., Li, Y., Eustice, M., Skelton, R.L., Veatch, O., Herdes, R.E., Diebold, L., Saw, J., et al. (2007). Construction of a sequence-tagged high-density genetic map of papaya for comparatives structural and evolutionary genomics in brassicales. Genetics 177, 2481–2491.CrossRefPubMedGoogle Scholar
- Kosambi, D.D. (1944). The estimation of map distance from recombination values. Ann. Eugenics 12, 172–175.Google Scholar
- Ogundiwin, E.A., Berke, T.F., Massoudi, M., Black, L.L., Huestis, G., Choi, D., Lee, S., and Prince, J.P. (2005). Construction of 2 intraspecific linkage maps and identification of resistance QTLs for Phytophthora capsici root-rot and foliar-blight diseases of pepper (Capsicum annuum L.). Genome 48, 698–711.CrossRefPubMedGoogle Scholar
- Rao, G.U., Ben Chaim, A., Borovsky, Y., and Paran, I. (2003). Mapping of yield-related QTLs in pepper in an interspecific cross of Capsicum annuum and C. frutescens Theor. Appl. Genet. 106, 1457–1466.Google Scholar
- Sambrook, J., Fritsch, E.F., and Maniatis, T. (1989). Molecular Cloning: A Laboratory Manual, (NY, USA; Cold Spring Harbor, Laboratory Press).Google Scholar
- Tanksley, S.D., Ganal, M.W., Prince, J.P., de Vicente, M.C., Bonierbale, M.W., Broun, P., Fulton, T.M., Giovannoni, J.J., Grandillo, S., Martin. G.B., et al. (1992). High density molecular linkage maps of the tomato and potato genomes; biological inferences and practical applications. Genetics 132, 1141–1160.PubMedGoogle Scholar
- Troggio, M., Malacarne, G., Coppola, C., Segala, C., Gartwright, D.A., Pindo, M., Stefanini, M., Mank, R., Moroldo, M., Morgante, M., et al. (2007). A dense single-nucleotied polymorphismbased genetic linkage map of grapevine (Vitis vinifera L.) anchoring pinot noir bacterial artificial chromosome contigs. Genetics 176, 2637–2650.CrossRefPubMedGoogle Scholar
- Van Ooijen, J.W., and Voorrips, R.E. (2001). JoinMap 3.0, Software for the calculation of genetic linkage maps. Plant Research International, Wageningen, The Netherlands.Google Scholar