Full Text:   <3407>

Suppl. Mater.: 

CLC number: Q321+.8

On-line Access: 2011-06-07

Received: 2010-08-20

Revision Accepted: 2010-12-09

Crosschecked: 2011-04-28

Cited: 5

Clicked: 6266

Citations:  Bibtex RefMan EndNote GB/T7714

-   Go to

Article info.
1. Reference List
Open peer comments

Journal of Zhejiang University SCIENCE B 2011 Vol.12 No.6 P.436-447


Fine mapping and candidate gene prediction of the photoperiod and thermo-sensitive genic male sterile gene pms1(t) in rice

Author(s):  Yuan-fei Zhou, Xian-yin Zhang, Qing-zhong Xue

Affiliation(s):  Department of Agronomy, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310029, China

Corresponding email(s):   xueqingzhong@hotmail.com

Key Words:  Super hybrid rice, pms1(t), Photoperiod and thermo-sensitive male sterile gene, Genetic mappingThe online version of this article contains supplementary materials

Yuan-fei Zhou, Xian-yin Zhang, Qing-zhong Xue. Fine mapping and candidate gene prediction of the photoperiod and thermo-sensitive genic male sterile gene pms1(t) in rice[J]. Journal of Zhejiang University Science B, 2011, 12(6): 436-447.

@article{title="Fine mapping and candidate gene prediction of the photoperiod and thermo-sensitive genic male sterile gene pms1(t) in rice",
author="Yuan-fei Zhou, Xian-yin Zhang, Qing-zhong Xue",
journal="Journal of Zhejiang University Science B",
publisher="Zhejiang University Press & Springer",

%0 Journal Article
%T Fine mapping and candidate gene prediction of the photoperiod and thermo-sensitive genic male sterile gene pms1(t) in rice
%A Yuan-fei Zhou
%A Xian-yin Zhang
%A Qing-zhong Xue
%J Journal of Zhejiang University SCIENCE B
%V 12
%N 6
%P 436-447
%@ 1673-1581
%D 2011
%I Zhejiang University Press & Springer
%DOI 10.1631/jzus.B1000306

T1 - Fine mapping and candidate gene prediction of the photoperiod and thermo-sensitive genic male sterile gene pms1(t) in rice
A1 - Yuan-fei Zhou
A1 - Xian-yin Zhang
A1 - Qing-zhong Xue
J0 - Journal of Zhejiang University Science B
VL - 12
IS - 6
SP - 436
EP - 447
%@ 1673-1581
Y1 - 2011
PB - Zhejiang University Press & Springer
ER -
DOI - 10.1631/jzus.B1000306

Pei′ai64S, an indica sterile variety with photoperiod and thermo-sensitive genic male sterile (PTGMS) genes, has been widely exploited for commercial seed production for “two-line” hybrid rice in China. One PTGMS gene from Pei′ai64S, pms1(t), was mapped by a strategy of bulked-extreme and recessive-class approach with simple sequence repeat (SSR) and insert and deletion (In-Del) markers. Using linkage analysis for the F2 mapping population consisting of 320 completely male sterile individuals derived from a cross between Pei′ai64S and 93-11 (indica restorer) lines, the pms1(t) gene was delimited to the region between the RM21242 (0.2 cM) and YF11 (0.2 cM) markers on the short arm of chromosome 7. The interval containing the pms1(t) locus, which was co-segregated with RM6776, is a 101.1 kb region based on the Nipponbare rice genome. Fourteen predicted loci were found in this region by the Institute for Genomic Research (TIGR) Genomic Annotation. Based on the function of the locus LOC_Os07g12130 by bioinformatics analysis, it is predicted to encode a protein containing a Myb-like DNA-binding domain, and may process the transcript with thermosensory response. The reverse transcription-polymerase chain reaction (RT-PCR) results revealed that the mRNA levels of LOC_Os07g12130 were altered in different photoperiod and temperature treatments. Thus, the LOC_Os07g12130 locus is the most likely candidate gene for pms1(t). These results may facilitate not only using the molecular marker assisted selection of PTGMS genes, but also cloning of the pms1(t) gene itself.

Darkslateblue:Affiliate; Royal Blue:Author; Turquoise:Article


[1]Akagi, H., Nakamura, A., Yokozeki-Misono, Y., Inagaki, A., Takahashi, H., Mori, K., Fujimura, T., 2004. Positional cloning of the rice Rf-1 gene, a restorer of BT-type cytoplasmic male sterility that encodes a mitochondria-targeting PPR protein. Theor. Appl. Genet., 108(8):1449-1457.

[2]Chen, R.Z., Zhao, X., Shao, Z., Wei, Z., Wang, Y.Y., Zhu, L.L., Zhao, J., Sun, M.X., He, R.F., He, G.C., 2007. Rice UDP-glucose pyrophosphorylase 1 is essential for pollen callose deposition and its cosuppression results in a new type of thermosensitive genic male sterility. Plant Cell, 19(3):847-861.

[3]Chen, S., Lu, H., 1996. Allelism of thermo-sensitive genic male sterile genes of indica rice. Sci. Agric. Sin., 29(1):27-33 (in Chinese).

[4]Dong, N.V., Subudhi, P.K., Luong, P.N., Quang, V.D., Quy, T.D., Zheng, H.G., Wang, B., Nguyen, H.T., 2000. Molecular mapping of a rice gene conditioning thermosensitive genic male sterility using AFLP, RFLP and SSR techniques. Theor. Appl. Genet., 100(5):727-734.

[5]Guo, X.Q., Dong, H.T., Zheng, K.L., Luo, H.M., Tan, X.L., Fang, Y.Q., Wang, Y.Q., Deng, Y., Dai, C.G., Lou, Y.C., et al., 2006. Gene expression profiling under different photoperiod/temperature conditions in a photoperiod-/ thermo-sensitive genic male sterile line of rice (Oryza sativa L.). Chin. Sci. Bull., 51(2):175-181.

[6]Jia, J.H., Zhang, D.S., Li, C.Y., Qu, X.P., Wang, S.W., Chamarerk, V., Nguyen, H.T., Wang, B., 2001. Molecular mapping of the reverse thermo-sensitive genic male-sterile gene (rtms1) in rice. Theor. Appl. Genet., 103(4):607-612.

[7]Jiang, S.Y., Cai, M., Ramachandran, S., 2007. ORYZA SATIVA MYOSIN XI B controls pollen development by photoperiod-sensitive protein localizations. Dev. Biol., 304(2):579-592.

[8]Kaneko, M., Inukai, Y., Ueguchi-Tanaka, M., Itoh, H., Izawa, T., Kobayashi, Y., Hattori, T., Miyao, A., Hirochika, H., Ashikari, M., et al., 2004. Loss-of-function mutations of the rice GAMYB gene impair alpha-amylase expression in aleurone and flower development. Plant Cell, 16(1):33-44.

[9]Koh, H.J., Son, Y.H., Heu, M.H., Lee, H.S., McCouch, S.R., 1999. Molecular mapping of a new genic male-sterility gene causing chalky endosperm in rice (Oryza sativa L.). Euphytica, 106(1):57-62.

[10]Komori, T., Ohta, S., Murai, N., Takakura, Y., Kuraya, Y., Suzuki, S., Hiei, Y., Imaseki, H., Nitta, N., 2004. Map-based cloning of a fertility restorer gene, Rf-1, in rice (Oryza sativa L.). Plant J., 37(3):315-325.

[11]Lee, D.S., Chen, L.J., Suh, H.S., 2005. Genetic characterization and fine mapping of a novel thermo-sensitive genic male-sterile gene tms6 in rice (Oryza sativa L.). Theor. Appl. Genet., 111(7):1271-1277.

[12]Li, H., Wang, Y., Li, X., Gao,Y., Wang, Z., Zhao, Y., Wang, M., 2010. A GA-insensitive dwarf mutant of Brassica napus L. correlated with mutation in pyrimidine box in the promoter of GID1. Mol. Biol. Rep., 38(1):191-197.

[13]Li, S.F., Higginson, T., Parish, R.W., 1999. A novel myb-related gene from Arabidopsis thaliana expressed in developing anthers. Plant Cell Physiol., 40(3):343-347.

[14]Lincoln, S., Daly, M., Lander, E., 1992. On Structing Genetic Maps with MAPMAKER/EXP 3.0. Whitehead Institute Technical Report, 3rd Ed. Whitehead Institute, Cambridge.

[15]Liu, N., Shan, Y., Wang, F.P., Xu, C.G., Peng, K.M., Li, X.H., Zhang, Q., 2001. Identification of an 85-kb DNA fragment containing pms1, a locus for photoperiod-sensitive genic male sterility in rice. Mol. Genet. Genomics, 266(2):271-275.

[16]Liu, R.H., Meng, J.L., 2003. MapDraw: a microsoft excel macro for drawing genetic linkage maps based on given genetic linkage data. Hereditas, 25(3):317-321 (in Chinese).

[17]Lopez, M.T., Toojinda, T., Vanavichit, A., Tragoonrung, S., 2003. Microsatellite markers flanking the tms2 gene facilitated tropical TGMS rice line development. Crop Sci., 43(6):2267-2271.

[18]Lu, Q., Li, X.H., Guo, D., Xu, C.G., Zhang, Q., 2005. Localization of pms3, a gene for photoperiod-sensitive genic male sterility, to a 28.4-kb DNA fragment. Mol. Genet. Genomics, 273(6):507-511.

[19]Luo, X., Qiu, Z., Li, R., 2000. Pei-Ai64S-A dual-purpose sterile line whose sterility is induced by low critical temperature. Hybrid Rice, 15(s2):4-5 (in Chinese).

[20]Matsumoto, T., Wu, J.Z., Kanamori, H., Katayose, Y., Fujisawa, M., Namiki, N., Mizuno, H., Yamamoto, K., Antonio, B.A., Baba, T., et al., 2005. The map-based sequence of the rice genome. Nature, 436(7052):793-800.

[21]Mei, M.H., Chen, L., Zhang, Z.H., Li, Z.Y., Xu, C.G., Zhang, Q., 1999a. pms3 is the locus causing the original photoperiodsensitive male sterility mutation of ‘Nongken 58S’. Sci. China (Ser. C), 42(3):316-322.

[22]Mei, M.H., Dai, X.K., Xu, C.G., Zhang, Q., 1999b. Mapping and genetic analysis of the genes for photoperiod-sensitive genic male sterility in rice using the original mutant nongken 58S. Crop Sci., 39(6):1711-1715.

[23]Meissner, R.C., Jin, H.L., Cominelli, E., Denekamp, M., Fuertes, A., Greco, R., Kranz, H.D., Penfield, S., Petroni, K., Urzainqui, A., et al., 1999. Function search in a large transcription factor gene family in Arabidopsis: assessing the potential of reverse genetics to identify insertional mutations in R2R3 MYB genes. Plant Cell, 11(10):1827-1840.

[24]Michelmore, R.W., Paran, I., Kesseli, R.V., 1991. Identification of Markers Linked to Disease-Resistance Genes by Bulked Segregant Analysis—a Rapid Method to Detect Markers in Specific Genomic Regions by Using Segregating Populations. PNAS, 88(21):9828-9832.

[25]Millar, A.A., Gubler, F., 2005. The Arabidopsis GAMYB-like genes, MYB33 and MYB65, are MicroRNA-regulated genes that redundantly facilitate anther development. Plant Cell, 17(3):705-721.

[26]Murray, M., Thompson, W., 1980. Rapid isolation of high molecular weight plant DNA. Nucleic Acids Res., 8(19):4321-4325.

[27]Rozen, S., Skaletsky, H.J., 2000. Primer3 on the WWW for General Users and for Biologist Programmers. In: Krawetz, S., Misener, S. (Eds.), Bioinformatics Methods and Protocols: Methods in Molecular Biology. Humana Press, Totowa, NJ, p.365-386.

[28]Shi, M., 1985. The discovery and preliminary studies of the photoperiod-sensitive recessive male sterile rice (Oryza sativa L. subsp. japonica). Sci. Agric. Sin., (2):44-48 (in Chinese).

[29]Steiner, J.J., Poklemba, C.J., Fjellstrom, R.G., Elliott, L.F., 1995. A rapid one-tube genomic DNA extraction process for PCR and RAPD analyses. Nucleic Acids Res., 23(13):2569-2570.

[30]Subudhi, P.K., Borkakati, R.P., Virmani, S.S., Huang, N., 1997. Molecular mapping of a thermosensitive genetic male sterility gene in rice using bulked segregant analysis. Genome, 40(2):188-194.

[31]Temnykh, S., DeClerck, G., Lukashova, A., Lipovich, L., Cartinhour, S., McCouch, S., 2001. Computational and experimental analysis of microsatellites in rice (Oryza sativa L.): frequency, length variation, transposon associations, and genetic marker potential. Genome Res., 11(8):1441-1452.

[32]Virmani, S., Sun, Z., Mou, T., Jauhar, A.A., Mao, C., 2003. Two-Line Hybrid Rice Breeding Manual. International Rice Research Institute, Los Baños, Laguna, Philippines, p.88.

[33]Wang, B., Xu, W.W., Wang, J.Z., Wu, W., Zheng, H.G., Yang, Z.Y., Ray, J.D., Nguyen, H.T., 1995. Tagging and mapping the thermosensitive genic male-sterile gene in rice (Oryza sativa L.) with molecular markers. Theor. Appl. Genet., 91(6-7):1111-1114.

[34]Xiang, Y., Li, B., Wu, H., Chen, L., 2002. Studies on allelism of photosensitive and thermo-sensitive genic male-sterile rice genes. Seed, 21(4):37-39 (in Chinese).

[35]Yang, Q.K., Liang, C.Y., Zhuang, W., Li, J., Deng, H.B., Deng, Q.Y., Wang, B., 2007a. Characterization and identification of the candidate gene of rice thermo-sensitive genic male sterile gene tms5 by mapping. Planta, 225(2):321-330.

[36]Yang, X.Y., Li, J.G., Pei, M., Gu, H., Chen, Z.L., Qu, L.J., 2007b. Over-expression of a flower-specific transcription factor gene AtMYB24 causes aberrant anther development. Plant Cell Rep., 26(2):219-228.

[37]Yu, J., Hu, S., Wang, J., Wong, G.K., Li, S., Liu, B., Deng, Y., Dai, L., Zhou, Y., Zhang, X., et al., 2002. A draft sequence of the rice genome (Oryza sativa L. ssp. indica). Science, 296(5565):79-92.

[38]Zhang, Q., Shen, B.Z., Dai, X.K., Mei, M.H., Saghai Maroof, M.A., Li, Z.B., 1994. Using bulked extremes and recessive class to map genes for photoperiod-sensitive genic male sterility in rice. PNAS, 91(18):8675-8679.

[39]Zhang, Z.G., Yuan, S.C., 1987. The influence of photoperiod on pollen fertility change of Hubei photoperiod-sensitive genic male sterile rice. China J. Rice Sci., 1(3):137-143 (in Chinese).

[40]Zhou, C.J., Li, J., Zou, J.C., Liang, F.S., Ye, C.J., Jin, D.M., Weng, M.L., Wang, B., 2006. Cloning and characterization of a second form of the rice adenine phosphoribosyl transferase gene (OsAPT2) and its association with TGMS. Plant Mol. Biol., 60(3):365-376.

[41]Zhou, Y., Zhang, Q., Xiang, Y., 2005. Studies on the fertility variational rules of crosses F2 of Nongken 58S genetic source and its sterile lines derived from it which cross Nongken 58 and Xiang indica rice No. 13. Seed, 24(4):16-20 (in Chinese).

[42]Zhu, Q.H., Ramm, K., Shivakkumar, R., Dennis, E.S., Upadhyaya, N.M., 2004. The ANTHER INDEHISCENCE1 gene encoding a single MYB domain protein is involved in anther development in rice. Plant Physiol., 135(3):1514-1525.

Open peer comments: Debate/Discuss/Question/Opinion


Please provide your name, email address and a comment

Journal of Zhejiang University-SCIENCE, 38 Zheda Road, Hangzhou 310027, China
Tel: +86-571-87952783; E-mail: cjzhang@zju.edu.cn
Copyright © 2000 - 2024 Journal of Zhejiang University-SCIENCE