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Dissecting of the FHB resistance QTL on the short arm of wheat chromosome 2D using a comparative genomic approach: from QTL to candidate gene

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Abstract

Colinearity in gene content and order between rice and closely related cereal crops has been a powerful tool for gene identification. Using a comparative genomic approach, we have identified the rice genomic region syntenous to the region of the short arm of wheat chromosome 2D, on which quantitative trait loci (QTLs) for Fusarium head blight (FHB) resistance and for controlling accumulation of the mycotoxin deoxynivalenol (DON) are closely located. Utilizing markers known to reside near the FHB resistance QTL and data from several wheat genetic maps, we have limited the syntenous region to 6.8 Mb of the short arm of rice chromosome 4. From the 6.8-Mb sequence of rice chromosome 4, we found three putative rice genes that could have a role in detoxification of mycotoxins. DNA sequences of these putative rice genes were used in BLAST searches to identify wheat expressed sequence tags (ESTs) exhibiting significant similarity. Combined data from expression analysis and gene mapping of wheat homologues and results of analysis of DON accumulation using doubled haploid populations revealed that a putative gene for multidrug resistance-associated protein (MRP) is a possible candidate for the FHB resistance and/or DON accumulation controlling QTLs on wheat chromosome 2DS and can be used as a molecular marker to eliminate the susceptible allele when the Chinese wheat variety Sumai 3 is used as a resistance source.

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Acknowledgments

We are grateful to Drs. M. Shibata and H. Kanamori, STAFF Institute, for their excellent bioinformatics support. We also thank Ms. R. Hirano for her skillful technical assistance. We are also grateful to Dr. M. Röder, IPK for providing the wheat microsatellite information of the wms markers. This work was supported in part by grants from the Ministry of Agriculture, Forestry and Fisheries of Japan (Rice Genome Project; CG1101 and DM1307) to H.H. and from Japanese Government-CIMMYT collaborative project on ‘Breeding and genetic studies on wheat development with Fusarium head blight resistance’ to T.B.

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Authors and Affiliations

  1. Plant Genome Research Unit, National Institute of Agrobiological Sciences, 2-1-2, Kan-non-dai, Tsukuba, 305-8602, Japan

    Hirokazu Handa

  2. Graduate School of Life and Environmental Sciences, University of Tsukuba, Tsukuba, 305-8577, Japan

    Hirokazu Handa

  3. Institute of the Society for Techno-innovation of Agriculture, Forestry and Fisheries (STAFF), Tsukuba, 305-0854, Japan

    Nobukazu Namiki

  4. Japan International Agricultural Research Center for Agricultural Sciences (JIRCAS), Tsukuba, 305-8686, Japan

    Donghe Xu & Tomohiro Ban

  5. Japan-CIMMYT FHB Project, CIMMYT (International Maize and Wheat Improvement Center), Mexico, DF, 06600, Mexico

    Tomohiro Ban

  6. Kihara Institute of Biological Research, Yokohama City University, Yokohama, 244-0813, Japan

    Tomohiro Ban

Authors
  1. Hirokazu Handa
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  2. Nobukazu Namiki
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  3. Donghe Xu
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  4. Tomohiro Ban
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Corresponding author

Correspondence to Hirokazu Handa.

Electronic supplementary material

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Supplementary Fig. S1

Alignment of partial cDNA sequences from Sumai 3 and Gamenya MRP trasncripts. Common nucleotides to 2D sequence are shown by -. Restriction sites used for the genome specificity are boxed and highlighted on the corresponding sequences. PCR primer positions are indicated by horizontal arrows. Vertical lines with filled triangle show the position of intron. (XLS 110 kb)

Supplementary Fig. S2

Alignment of partial genomic sequences of MRP genes from three genomes of Chinese Spring (CS), Sumai 3 2D and Gamenya 2D. Nucleotides not conserved are highlighted. Eco RI restriction site used for the genotyping of DH lines is boxed. Intron positions are indicated by angled arrows. Horizontal arrows show the positions of PCR primers. (XLS 144 kb)

Supplement Fig. S3

Frequency distribution of the DHLs for the culm length in 5cm steps, A: whole DHL population, B: two groups separated on their allele for Xgwm261 corresponding Rht8/rht8 genotype of Sumai3/Gamenya, C: two groups selected for short or long cilm length by the divergent selection with statistically significant at 95% confidence interval. (EPS 555 kb)

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Handa, H., Namiki, N., Xu, D. et al. Dissecting of the FHB resistance QTL on the short arm of wheat chromosome 2D using a comparative genomic approach: from QTL to candidate gene. Mol Breeding 22, 71–84 (2008). https://doi.org/10.1007/s11032-008-9157-7

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  • DOI: https://doi.org/10.1007/s11032-008-9157-7

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