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Genome-wide isolation of resistance gene analogs in maize (Zea mays L.)

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Abstract

Conserved domains or motifs shared by most known resistance (R) genes have been extensively exploited to identify unknown R-gene analogs (RGAs). In an attempt to isolate all potential RGAs from the maize genome, we adopted the following three methods: modified amplified fragment length polymorphism (AFLP), modified rapid amplification of cDNA ends (RACE), and data mining. The first two methods involved PCR-based isolations of RGAs with degenerate primers designed based on the conserved NBS domain; while the third method involved mining of RGAs from the maize EST database using full-length R-gene sequences. A total of 23 and 12 RGAs were obtained from the modified AFLP and RACE methods, respectively; while, as many as 109 unigenes and 77 singletons with high homology to known R-genes were recovered via data-mining. Moreover, R-gene-like ESTs (or RGAs) identified from the data-mining method could cover all RACE-derived RGAs and nearly half AFLP-derived RGAs. Totally, the three methods resulted in 199 non-redundant RGAs. Of them, at least 186 were derived from putative expressed R-genes. RGA-tagged markers were developed for 55 unique RGAs, including 16 STS and 39 CAPS markers.

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Acknowledgments

This study was financially supported by the national outstanding youth foundation of China, the talent people’s foundation of China Agricultural University, and the Beijing Agricultural Innovative Platform—Beijing Natural Science Fund Program, ‘Construction of the standard DNA fingerprint database for Chinese maize germplasm and study on innovative fingerprinting techniques’.

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Authors and Affiliations

  1. National Maize Improvement Center of China, China Agricultural University, 2 West Yuanmingyuan Road, Beijing, 100094, People’s Republic of China

    Xiao Wenkai, Xu Mingliang, Li Jiansheng & Dai Jingrui

  2. Maize Research Center, Beijing Academy of Agricultural Sciences, Beijing, People’s Republic of China

    Zhao Jiuren & Wang Fengge

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  1. Xiao Wenkai
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  2. Xu Mingliang
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  3. Zhao Jiuren
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  4. Wang Fengge
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  5. Li Jiansheng
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  6. Dai Jingrui
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Correspondence to Xu Mingliang.

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Communicated by T. Lübberstedt

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Wenkai, X., Mingliang, X., Jiuren, Z. et al. Genome-wide isolation of resistance gene analogs in maize (Zea mays L.). Theor Appl Genet 113, 63–72 (2006). https://doi.org/10.1007/s00122-006-0272-8

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  • DOI: https://doi.org/10.1007/s00122-006-0272-8

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