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High resolution genetic and physical mapping of the I-3 region of tomato chromosome 7 reveals almost continuous microsynteny with grape chromosome 12 but interspersed microsynteny with duplications on Arabidopsis chromosomes 1, 2 and 3

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Abstract

The tomato I-3 gene introgressed from the Lycopersicon pennellii accession LA716 confers resistance to race 3 of the fusarium wilt pathogen Fusarium oxysporum f. sp. lycopersici. We have improved the high-resolution map of the I-3 region of tomato chromosome 7 with the development and mapping of 31 new PCR-based markers. Recombinants recovered from L. esculentum cv. M82 × IL7-2 F2 and (IL7-2 × IL7-4) × M82 TC1F2 mapping populations, together with recombinants recovered from a previous M82 × IL7-3 F2 mapping population, were used to position these markers. A significantly higher recombination frequency was observed in the (IL7-2 × IL7-4) × M82 TC1F2 mapping population based on a reconstituted L. pennellii chromosome 7 compared to the other two mapping populations based on smaller segments of L. pennellii chromosome 7. A BAC contig consisting of L. esculentum cv. Heinz 1706 BACs covering the I-3 region has also been established. The new high-resolution map places the I-3 gene within a 0.38 cM interval between the molecular markers RGA332 and bP23/gPT with an estimated physical size of 50–60 kb. The I-3 region was found to display almost continuous microsynteny with grape chromosome 12 but interspersed microsynteny with Arabidopsis thaliana chromosomes 1, 2 and 3. An S-receptor-like kinase gene family present in the I-3 region of tomato chromosome 7 was found to be present in the microsyntenous region of grape chromosome 12 but was absent altogether from the A. thaliana genome.

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Acknowledgments

We thank Mondher Bouzayen, for provision of tomato chromosome 7 BAC sequences prior to their publication on the SGN and Genbank databases; Steve Dempsey, Research School of Biological Sciences, The Australian National University, Canberra, Australia for plant care; Theresa Fulton, Cornell University, Ithaca, New York, USA for provision of the TM18 and TM23 marker sequences prior to publication on the SGN website; Heidi Martin, Queensland Department of Primary Industries and Fisheries, Indooroopilly, Queensland, Australia for the provision of cultures of Fusarium oxysporum f. sp. lycopersici race 3 for pathogen screening; Steve Tanksley, Cornell University, Ithaca, New York, USA for provision of the TG572 sequence prior to submission to Genbank and correction on the SGN database; and Ian Walker, Queensland Department of Primary Industries and Fisheries, Bowen, Queensland, Australia for assistance with pathogen screening. Guo-Ping Wang was funded by the Biotechnology Research Centre, Research School of Biological Sciences, The Australian National University, Canberra, Australia and the Cooperative Research Centre for Tropical Plant Protection, Brisbane Queensland, Australia. This work was funded in large part by the Cooperative Research Centre for Tropical Plant Protection, in which The Australian National University, The University of Queensland and the Queensland Department of Primary Industries and Fisheries were participants.

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  1. M. N. Hemming

    Present address: CSIRO Plant Industry, GPO Box 1600, Canberra, ACT, 2601, Australia

Authors and Affiliations

  1. Plant Cell Biology, Research School of Biological Sciences, The Australian National University, Canberra, ACT, 0200, Australia

    G. T. T. Lim, G.-P. Wang, M. N. Hemming & D. A. Jones

  2. College of Horticulture, South China Agricultural University, 510642, Guangzhou, China

    G.-P. Wang

  3. Queensland Department of Primary Industries and Fisheries, Bowen, QLD, 4805, Australia

    D. J. McGrath

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  1. G. T. T. Lim
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Correspondence to D. A. Jones.

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Communicated by I. Paran.

Electronic supplementary material

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Summary of the contents of the tables (DOC 32 kb)

List of genomic sequences, predicted coding sequences and predicted protein sequences (DOC 77 kb)

122_2008_876_MOESM3_ESM.xls

Results of BlastP searches of the Arabidopsis and grape protein databases and TblastN searches of the tomato unigene database (XLS 86 kb)

Results of BlastX searches of the Arabidopsis, grape and poplar protein databases (XLS 92 kb)

122_2008_876_MOESM5_ESM.xls

Results of BlastP searches of the Arabidopsis, grape and poplar protein databases and TblastN searches of the tomato unigene database (XLS 21 kb)

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Lim, G.T.T., Wang, GP., Hemming, M.N. et al. High resolution genetic and physical mapping of the I-3 region of tomato chromosome 7 reveals almost continuous microsynteny with grape chromosome 12 but interspersed microsynteny with duplications on Arabidopsis chromosomes 1, 2 and 3 . Theor Appl Genet 118, 57–75 (2008). https://doi.org/10.1007/s00122-008-0876-2

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