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Fine mapping and candidate gene analysis of the novel thermo-sensitive genic male sterility tms9-1 gene in rice

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Fine mapping of the novel thermo-sensitive genic male sterility locus tms9 - 1 in the traditional TGMS line HengnongS-1 revealed that the MALE STERILITY1 homolog OsMS1 is the candidate gene.

Abstract

Photoperiod-thermo-sensitive genic male sterility (P/TGMS) has been widely used in the two-line hybrid rice breeding system. HengnongS-1 is one of the oldest TGMS lines and is often used in indica two-line breeding programs in China. In this study, our genetic analysis showed that the TGMS gene in HengnongS-1 was controlled by a single recessive gene that was non-allelic with the other TGMS loci identified, including C815S, Zhu1S and Y58S. Using SSR markers and bulked segregant analysis, we located the TGMS locus on chromosome 9 and named the gene tms9-1. Fine mapping further narrowed the tms9-1 loci to a 162 kb interval between two dCAPS markers. Sequence analysis revealed that a T to C substitution results in an amino acid change in the tms9-1 candidate gene (Os09g27620) in HengnongS-1 as compared to Minghui63. Sequencing of other rice accessions, including six P/TGMS lines, seven indica varieties and nine japonica varieties, showed that this SNP was exclusive to HengnongS-1. With multiple sequence alignment and expression pattern analyses, the rice MALE STERILITY1 homolog OsMS1 gene was identified as the candidate gene for tms9-1. Therefore, our study identified a novel TGMS locus and will facilitate the functional identification of the tms9-1 gene. Moreover, the markers linked to the tms9-1 gene will provide useful tools for the development of new TGMS lines by marker-assisted selection in two-line hybrid rice breeding programs.

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Acknowledgments

This study was supported by the Major Science and Technology Project of the Science and Technology Department of Zhejiang Province, China (Grant Number 2012C12901 and Project 0406), the Special Fund for Agroscientific Research in the Public Interest (Grant Number 201103007), and the Special Fund of Zhejiang Academy of Agricultural Science. The authors would like to thank Professor Qingyao Shu at the College of Agricultural and Biotechnology, Zhejiang University for improving the manuscript.

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The authors declare that they have no conflict of interest.

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Correspondence to Zuhua He.

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Communicated by M. Wissuwa.

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Primers for sequence analysis of the OsMS1 coding region and promoter. (DOCX 16 kb)

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Qi, Y., Liu, Q., Zhang, L. et al. Fine mapping and candidate gene analysis of the novel thermo-sensitive genic male sterility tms9-1 gene in rice. Theor Appl Genet 127, 1173–1182 (2014). https://doi.org/10.1007/s00122-014-2289-8

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