Genomic structure and evolution of the Pi2/9 locus in wild rice species

Liangying Dai, Jun Wu, Xunbo Li, Xuejun Wang, Xionglun Liu, Chatchawan Jantasuriyarat, David A Kudrna, Yeisoo Yu, Rod A Wing, Bin Han, Bo Zhou, Guo Liang Wang

Research output: Contribution to journalArticle

16 Citations (Scopus)

Abstract

Rice blast, caused by the fungal pathogen Magnaporthe oryzae, is a devastating disease of rice worldwide. Among the 85 mapped resistance (R) genes against blast, 13 have been cloned and characterized. However, how these genes originated and how they evolved in the Oryza genus remains unclear. We previously cloned the rice blast R-genes Pi2, Pi9, and Piz-t, and analyzed their genomic structure and evolution in cultivated rice. In this study, we determined the genomic sequences of the Pi2/9 locus in four wild Oryza species representing three genomes (AA, BB and CC). The number of Pi2/9 family members in the four wild species ranges from two copies to 12 copies. Although these genes are conserved in structure and categorized into the same subfamily, sequence duplications and subsequent inversions or uneven crossing overs were observed, suggesting that the locus in different wild species has undergone dynamic changes. Positive selection was found in the leucine-rich repeat region of most members, especially in the largest clade where Pi9 is included. We also provide evidence that the Pi9 gene is more related to its homologues in the recurrent line and other rice cultivars than to those in its alleged donor species O. minuta, indicating a possible origin of the Pi9 gene from O. sativa. Comparative sequence analysis between the four wild Oryza species and the previously established reference sequences in cultivated rice species at the Pi2/9 locus has provided extensive and unique information on the genomic structure and evolution of a complex R-gene cluster in the Oryza genus.

Original languageEnglish (US)
Pages (from-to)295-309
Number of pages15
JournalTheoretical And Applied Genetics
Volume121
Issue number2
DOIs
StatePublished - Jul 2010

Fingerprint

wild rice
Oryza
genomics
loci
rice
blast disease
genes
vpr Genes
Magnaporthe oryzae
Genes
multigene family
leucine
Magnaporthe
sequence analysis
genome
pathogens
Multigene Family
cultivars
Leucine
Sequence Analysis

ASJC Scopus subject areas

  • Agronomy and Crop Science
  • Genetics
  • Biotechnology
  • Medicine(all)

Cite this

Dai, L., Wu, J., Li, X., Wang, X., Liu, X., Jantasuriyarat, C., ... Wang, G. L. (2010). Genomic structure and evolution of the Pi2/9 locus in wild rice species. Theoretical And Applied Genetics, 121(2), 295-309. https://doi.org/10.1007/s00122-010-1310-0

Genomic structure and evolution of the Pi2/9 locus in wild rice species. / Dai, Liangying; Wu, Jun; Li, Xunbo; Wang, Xuejun; Liu, Xionglun; Jantasuriyarat, Chatchawan; Kudrna, David A; Yu, Yeisoo; Wing, Rod A; Han, Bin; Zhou, Bo; Wang, Guo Liang.

In: Theoretical And Applied Genetics, Vol. 121, No. 2, 07.2010, p. 295-309.

Research output: Contribution to journalArticle

Dai, L, Wu, J, Li, X, Wang, X, Liu, X, Jantasuriyarat, C, Kudrna, DA, Yu, Y, Wing, RA, Han, B, Zhou, B & Wang, GL 2010, 'Genomic structure and evolution of the Pi2/9 locus in wild rice species', Theoretical And Applied Genetics, vol. 121, no. 2, pp. 295-309. https://doi.org/10.1007/s00122-010-1310-0
Dai, Liangying ; Wu, Jun ; Li, Xunbo ; Wang, Xuejun ; Liu, Xionglun ; Jantasuriyarat, Chatchawan ; Kudrna, David A ; Yu, Yeisoo ; Wing, Rod A ; Han, Bin ; Zhou, Bo ; Wang, Guo Liang. / Genomic structure and evolution of the Pi2/9 locus in wild rice species. In: Theoretical And Applied Genetics. 2010 ; Vol. 121, No. 2. pp. 295-309.
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