title: Delimitation of the rice wide compatibility gene S5 ( n ) to a 40-kb DNA fragment.
abstract: Wide compatibility varieties (WCVs) are a special class of rice (Oryza sativa L.) germplasm that produces hybrids with normal pollen and spikelet fertility when crossed with both indica and japonica subspecies. The wide compatibility gene S5 ( n ) has been used extensively in inter-subspecific hybrid breeding programs. We previously mapped the S5 locus to a 2.2-cM genomic region between RM253 and R2349 on chromosome 6, using a population of 356 F(1) plants derived from the three-way cross 02428/Nanjing11//Balilla. In this study, a chromosome walking strategy was employed to construct a physical map covering this genomic region using these two closest markers as the starting points. A physical map consisting of six overlapping BAC clones was formed, spanning a genomic region of 540-kb in length. By analyzing recombination events from a population of 8,000 F(1) plants derived from a three-way cross based on near isogenic lines of the S5 locus, the S5 locus was localized to a DNA fragment of 40-kb in length, flanked by two shotgun subclones, 7B1 and 15D2. Sequence analysis of this fragment predicted five open reading frames, encoding xyloglucan fucosyltransferases, dnak-type molecular chaperone BiP, a putative eukaryotic aspartyl protease, and a hypothetical protein. This result will be very useful in molecular cloning of the S5 ( n ) allele and marker-assisted transferring of the wide compatibility gene in rice breeding programs.
authors.affiliation: National Key Laboratory of Crop Genetic Improvement, and National Center of Plant Gene Research-Wuhan, Huazhong Agricultural University, Wuhan 430070, China.
authors.forename: S Q
authors.initials: SQ
authors.lastname: Qiu
authors.forename: Kede
authors.initials: K
authors.lastname: Liu
authors.forename: J X
authors.initials: JX
authors.lastname: Jiang
authors.forename: X
authors.initials: X
authors.lastname: Song
authors.forename: C G
authors.initials: CG
authors.lastname: Xu
authors.forename: X H
authors.initials: XH
authors.lastname: Li
authors.forename: Qifa
authors.initials: Q
authors.lastname: Zhang
mesh_terms: D016282:Aspartic Acid Endopeptidases / Q000235:genetics; D016386:Chromosome Walking; D022202:Chromosomes, Artificial, Bacterial; D003433:Crosses, Genetic; D000091342:Endoplasmic Reticulum Chaperone BiP; D005298:Fertility / Q000235:genetics; D005647:Fucosyltransferases / Q000235:genetics; D017343:Genes, Plant / Q000235:genetics*; D006360:Heat-Shock Proteins / Q000235:genetics; D018832:Molecular Chaperones / Q000235:genetics; D012275:Oryza / Q000235:genetics*; D012150:Polymorphism, Restriction Fragment Length; D017422:Sequence Analysis, DNA
chemical_list: D000091342:Endoplasmic Reticulum Chaperone BiP; D006360:Heat-Shock Proteins; D018832:Molecular Chaperones; D005647:Fucosyltransferases; C070983:xyloglucan 2-fucosyltransferase; D016282:Aspartic Acid Endopeptidases