Molecular Breeding

, Volume 33, Issue 3, pp 555–567 | Cite as

Positional cloning of the rice male sterility gene ms-IR36, widely used in the inter-crossing phase of recurrent selection schemes

  • Julien Frouin
  • Denis Filloux
  • James Taillebois
  • Cécile Grenier
  • Fabienne Montes
  • Frédéric de Lamotte
  • Jean-Luc Verdeil
  • Brigitte Courtois
  • Nourollah Ahmadi
Article
First Online:
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Accepted:

Abstract

The monogenetic recessive male-sterile gene ms-IR36 is widely used to facilitate the inter-crossing phase of recurrent selection in rice (Oryza sativa), but its segregation within the progeny disturbs other breeding phases. Marker-assisted early identification of msms and Msms seedlings would help overcome this drawback. Using successively bulked segregant analysis and large F2 populations, we mapped the ms-IR36 gene to a 33-kb region on the short arm of chromosome 2 that includes 10 candidate genes. Sequencing of these candidates together with checking rice genome annotations and expression databases allowed the target to be narrowed down to one candidate gene already isolated and characterized as the tapetum degeneration retardation (TDR) gene and reported to be involved in tapetal programmed cell death. Comparison of the sequence of the TDR gene between male-sterile (MS) and male-fertile (MF) IR36 plants detected one non-synonymous nucleotide substitution affecting the active domain of the encoded protein. Perfect co-segregation was observed between polymorphism at this nucleotide (SNP) and the MS/MF phenotype of 946 F2 plants. Spatial modelling of the active domain of the candidate protein reinforced the candidate status of the only SNP identified. Histological characterization of anther development in MS IR36 revealed defects identical to the ones observed in mutants used for the isolation and characterization of the TDR gene: delayed/non-degradation of tapetum tissue and collapse of the haploid microspores. We concluded that ms-IR36 corresponded to the TDR gene with a different mutation from the earlier one described in the same gene. No significant linkage drag was associated with ms-IR36. A SNP-based marker that enables simple early identification of MS plants and MF plants with the Msms genotype was designed.

Keywords

Rice Male-sterility ms-IR36 Anther development Recurrent selection 
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Supplementary material

11032_2013_9972_MOESM1_ESM.xls (100 kb)
Supplementary material 1 (XLS 99 kb)
11032_2013_9972_MOESM2_ESM.pdf (444 kb)
Supplementary figure SF1: Pattern of expression of the seven candidate genes selected based on map data. Expression data were retrieved from RiceXPro database (http://ricexpro.dna.affrc.go.jp/GGEP/index.html) (PDF 443 kb)

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Copyright information

© Springer Science+Business Media Dordrecht 2013

Authors and Affiliations

  • Julien Frouin
    • 1
  • Denis Filloux
    • 2
  • James Taillebois
    • 1
  • Cécile Grenier
    • 1
  • Fabienne Montes
    • 1
  • Frédéric de Lamotte
    • 3
  • Jean-Luc Verdeil
    • 1
  • Brigitte Courtois
    • 1
  • Nourollah Ahmadi
    • 1
  1. 1.Cirad, UMR AGAPMontpellier Cedex 5France
  2. 2.Cirad, UMR BGPIMontpellier Cedex 5France
  3. 3.INRA, UMR AGAPMontpellier Cedex 5France

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