Abstract
Photoperiod-sensitive genic male-sterile (PSGMS) rice, in which pollen fertility is regulated by day-length, originally arose as a natural mutant in the rice cultivar Nongken 58 (Oryza sativa ssp. japonica). Previous studies identified pms3 on chromosome 12 as the locus of the original PSGMS mutation. In this study we have assigned the pms3 locus to a 28.4-kb DNA fragment by genetic and physical mapping. A cross between Nongken 58S (PSGMS line) and DH80 was used to produce an F2 population of about 7000 plants, from which 892 highly sterile individuals were obtained for recombination analysis. By analyzing recombination events in the sterile individuals using a total of 157 RFLP probes from a BAC contig covering the pms3 region, the pms3 locus was localized to a sub-region of less than 1.7 cM. Further analysis of recombination events using 49 additional probes isolated from this sub-region identified markers flanking the pms3 region on each side; these markers are only 28.4-kb apart. Sequence analysis of this fragment predicted the presence of five ORFs, found high homology with two ESTs in public databases, and detected three SNPs between the mutant and the wild-type parents, which may be helpful for identifying a candidate gene for pms3.
Similar content being viewed by others
References
Birren B, Green ED, Klapholz S, Mayers RM, Roskams J (1997) Genome analysis. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY, pp 397–454
Grandbastien MA, Spielmann A, Caboche M (1989) Tnt1, a mobile retroviral-like transposable element of tobacco isolated by plant cell genetics. Nature 337:376–380
He YQ, Yang J, Xu CG, Zhang ZG, Zhang Q (1999) Genetic basis of instability of male sterility and fertility reversibility in photoperiod-sensitive genic male-sterile rice. Theor Appl Genet 99:683–693
Hirochika H, Guiderdoni E, An G, Hsing Y, Eun MY, Han C, Upadhyaya N, Ramachandran S, Zhang Q, Pereira A, Sundaresan V, Leung H (2004) Rice mutant resources for gene discovery. Plant Mol Biol 54:325–334
Jin DM (1995) Genetic basis of photoperiod-sensitive genic male sterility. In: Li ZB, Jin ZH, Lu XG, Zhu YG (eds) Studies on photoperiod-sensitive genic male sterility in rice and its utilization in breeding. Hubei Science and Technology Press, Wuhan, China, pp 181–252
Kaneko M, Inukai Y, Ueguchi-Tanaka M, Itoh H, Izawa T, Kobayashi Y, Hattori T, Miyao A (2004) Loss-of-function mutations of the rice GAMBYB gene impair α-amylase expression in aleurone and flower development. Plant Cell 16:33–44
Li XH, Lu Q, Wang FL, Xu CG, Zhang Q (2001) Separation of the two-locus inheritance of photoperiod-sensitive genic male sterility in rice and precisely mapping the pms3 locus. Euphytica 119:343–348
Li XH, Wang FL, Lu Q, Xu CG (2002) Fine mapping of PSGMS gene pms3 in rice (Oryza sativa L.). Acta Agron Sin 28:310–314
Liu KD, Wang J, Li HB, Xu CG, Liu AM, Li XH, Zhang Q (1997) A genome-wide analysis of wide compatibility in rice and the precise location of the S5 locus in the molecular map. Theor Appl Genet 95:809–814
Liu N, Shan Y, Wang FP, Xu CG, Peng KM, Li XH, Zhang Q (2001) Identification of an 85-kb fragment containing pms1, a locus for photoperiod-sensitive genic male sterility in rice. Mol Genet Genomics 266:271–275
Mei MH, Chen L, Zhang ZH, Li ZY, Xu CG, Zhang Q (1999a) pms3 is the locus causing the original photoperiod-sensitive genic male sterility mutation of ’Nongken 58S’. Sci China (Ser C) 42:316–322
Mei MH, Dai XK, Xu CG, Zhang Q (1999b) Mapping and genetic analysis of the genes for photoperiod-sensitive genic sterility in rice using the original mutant Nongken 58S. Crop Sci 39:1711–1715
Murray MG, Thompson WF (1980) Rapid isolation of high molecular weight plant DNA. Nucleic Acids Res 8:4321–4325
Peng KM, Zhang HB, Zhang QF (1998) A BAC library constructed to the rice cultivar “Minghui63” for cloning genes of agronomic importance. Acta Bot Sin 40:1108–1114
Shi MS (1985) The discovery and preliminary studies of the photoperiod-sensitive recessive male sterile rice (Oryza sativa L. subsp. japonica) (in Chinese with English abstract). Sci Agric Sin 2:44–48
Takano M, Kanegae H, Shinomura T, Miyao A, Hirochika H, Furuya M (2001) Isolation and characterization of rice phytochrome A mutants. Plant Cell 13:521–534
The Rice Full-Length cDNA Consortium (2003) Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science 301:376–379
Wang FP, Mei MH, Xu CG, Zhang Q (1997) pms1 genomic region does not cause fertility difference between the photoperiod-sensitive male sterile rice Nongken 58S and normal Nongken 58. Acta Bot Sin 39:922–925
Xie KB, Zhang JW, Xiang Y, Feng Q, Han B, Chu ZH, Wang SP, Zhang QF, Xiong LZ (2005) Isolation and annotation of 10,828 putative full length cDNAs from indica rice. Sci China (Ser C) 36:6–12
Zhang JW, Feng Q, Jin CQ, Qui DY, Zhang LD, Xie KB, Yuan DJ, Han B, Zhang QF, Wang SP (2005) Features of the expressed sequences revealed by a large-scale analysis of ESTs from a normalized cDNA library of an elite indica rice cultivar Minghui 63. Plant J. Doi:10.111/j.1365-313X.2005.02408.X
Zhang ZG, Yuan SC (1987) The influence of photoperiod on pollen fertility change of Hubei photoperiod-sensitive genic male sterile rice (in Chinese). Chin J Rice Sci 1:137–143
Zhang Q, Shen BZ, Dai XK, Mei MH, Saghai Maroof MA, Li ZB (1994) Using bulked extremes and recessive classes to map genes for photoperiod-sensitive genic male sterility in rice. Pro Natl Acad Sci USA 91:8675–8679
Zhang JW, Feng Q, Jin CQ, Qiu DY, Zhang LD, Xie KB, Yuan DJ, Han B, Zhang QF, Wang SP (2005) Features of the expressed sequences revealed by a large-scale analysis of ESTs from a normalized cDNA library of an elite indica rice cultivar Minghui 63. Plant J (in press)
Acknowledgements
We thank Rod Wing for providing a BAC library and for the release of the unpublished physical map information, and the Monsanto Company for releasing the genomic sequences. This research was supported by grants from the National Program of Research and Development of Transgenic Plants, the National Special Key Project of Functional Genomics and Biochips, and the National Natural Science Foundation of China, and a grant from the International Atomic Energy Agency
Author information
Authors and Affiliations
Corresponding author
Additional information
Communicated by R. Hagemann
Rights and permissions
About this article
Cite this article
Lu, Q., Li, X.H., Guo, D. et al. Localization of pms3, a gene for photoperiod-sensitive genic male sterility, to a 28.4-kb DNA fragment. Mol Genet Genomics 273, 507–511 (2005). https://doi.org/10.1007/s00438-005-1155-4
Received:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1007/s00438-005-1155-4