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BAC-derived markers converted from RFLP linked to Phytophthora capsici resistance in pepper (Capsicum annuum L.)

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Abstract

Phytophthora capsici Leonian, an oomycete pathogen, is a serious problem in pepper worldwide. Its resistance in pepper is controlled by quantitative trait loci (QTL). To detect QTL associated with P. capsici resistance, a molecular linkage map was constructed using 100 F2 individuals from a cross between Capsicum annuum ‘CM334’ and C. annuum ‘Chilsungcho’. This linkage map consisted of 202 restriction fragment length polymorphisms (RFLPs), 6 WRKYs and 1 simple sequence repeat (SSR) covering 1482.3 cM, with an average interval marker distance of 7.09 cM. QTL mapping of Phytophthora root rot and damping-off resistance was performed in F2:3 originated from a cross between resistant Mexican landrace C. annuum ‘CM334’ and susceptible Korean landrace C. annuum ‘Chilsungcho’ using composite interval mapping (CIM) analysis. Four QTL explained 66.3% of the total phenotypic variations for root rot resistance and three 44.9% for damping-off resistance. Of these QTL loci, two were located close to RFLP markers CDI25 on chromosome 5 (P5) and CT211A on P9. A bacterial artificial chromosome (BAC) library from C. annuum ‘CM334’ was screened with these two RFLP probes to obtain sequence information around the RFLP marker loci for development of PCR-based markers. CDI25 and CT211 probes identified seven and eight BAC clones, respectively. Nine positive BAC clones containing probe regions were sequenced and used for cytogenetic analysis. One single-nucleotide amplified polymorphism (SNAP) for the CDI25 locus, and two SSRs and cleaved amplified polymorphic sequence (CAPS) for CT211 were developed using sequences of the positive BAC clones. These markers will be valuable for rapid selection of genotypes and map-based cloning for resistance genes against P. capsici.

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Acknowledgments

This study was supported by a grant from the Center for Plant Molecular Genetics and Breeding Research (CPMGBR) through the Korea Science and Engineering Foundation (KOSEF) and Korea Ministry of Science and Technology (MOST) and a grant (20050401034791) from the BioGreen 21 Program, Rural Development Administration, Suwon, Republic of Korea.

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Author notes

  1. Seok-Hyeon Nahm

    Present address: Biotechnology Institute, Nongwoo Bio Co., Yeoju, Gyeonggi, 469-885, South Korea

  2. Jeong-Ho Kim

    Present address: Vegetable Research Division, National Horticultural Research Institute, Suwon, 440-706, South Korea

Authors and Affiliations

  1. Department of Plant Science, Seoul National University, Seoul, 151-921, South Korea

    Hyoun-Joung Kim, Seok-Hyeon Nahm, Heung-Ryul Lee, Gi-Bo Yoon, Byoung-Cheorl Kang, Doil Choi, Jong Hwa Ahn, Joo-Hee Sung & Byung-Dong Kim

  2. Vegetable Research Division, National Horticultural Research Institute, Suwon, 440-706, South Korea

    Ki-Taek Kim & Myeong-Cheoul Cho

  3. National Agricultural Cooperative Federation, Ansung, 432-4, South Korea

    Oh Yeol Kweon

  4. Center for Plant Molecular Genetics and Breeding Research, Seoul National University, Seoul, 151-921, South Korea

    Jin-Kyung Kwon, Jung-Heon Han, Jeong-Ho Kim, MinKyu Park & Byung-Dong Kim

  5. Division of Research and Development, Nongwoo Bio Co., Yeoju, Gyeonggi, 469-885, South Korea

    Soon Ho Choi & Nam Han Her

  6. Research Institute for Agriculture and Life Sciences, Seoul National University, Seoul, 151-921, South Korea

    Byung-Dong Kim

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Correspondence to Byung-Dong Kim.

Additional information

Communicated by I. Paran.

H.-J. Kim and S.-H. Nahm contributed equally to this work.

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Kim, HJ., Nahm, SH., Lee, HR. et al. BAC-derived markers converted from RFLP linked to Phytophthora capsici resistance in pepper (Capsicum annuum L.). Theor Appl Genet 118, 15–27 (2008). https://doi.org/10.1007/s00122-008-0873-5

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