title: Comparative transcriptional profiling of two contrasting rice genotypes under salinity stress during the vegetative growth stage.
abstract: Rice (Oryza sativa), a salt-sensitive species, has considerable genetic variation for salt tolerance within the cultivated gene pool. Two indica rice genotypes, FL478, a recombinant inbred line derived from a population developed for salinity tolerance studies, and IR29, the sensitive parent of the population, were selected for this study. We used the Affymetrix rice genome array containing 55,515 probe sets to explore the transcriptome of the salt-tolerant and salt-sensitive genotypes under control and salinity-stressed conditions during vegetative growth. Response of the sensitive genotype IR29 is characterized by induction of a relatively large number of probe sets compared to tolerant FL478. Salinity stress induced a number of genes involved in the flavonoid biosynthesis pathway in IR29 but not in FL478. Cell wall-related genes were responsive in both genotypes, suggesting cell wall restructuring is a general adaptive mechanism during salinity stress, although the two genotypes also had some differences. Additionally, the expression of genes mapping to the Saltol region of chromosome 1 were examined in both genotypes. Single-feature polymorphism analysis of expression data revealed that IR29 was the source of the Saltol region in FL478, contrary to expectation. This study provides a genome-wide transcriptional analysis of two well-characterized, genetically related rice genotypes differing in salinity tolerance during a gradually imposed salinity stress under greenhouse conditions.
authors.affiliation: Department of Botany and Plant Sciences, University of California, Riverside, 92521, USA.
authors.forename: Harkamal
authors.initials: H
authors.lastname: Walia
authors.forename: Clyde
authors.initials: C
authors.lastname: Wilson
authors.forename: Pascal
authors.initials: P
authors.lastname: Condamine
authors.forename: Xuan
authors.initials: X
authors.lastname: Liu
authors.forename: Abdelbagi M
authors.initials: AM
authors.lastname: Ismail
authors.forename: Linghe
authors.initials: L
authors.lastname: Zeng
authors.forename: Steve I
authors.initials: SI
authors.lastname: Wanamaker
authors.forename: Jayati
authors.initials: J
authors.lastname: Mandal
authors.forename: Jin
authors.initials: J
authors.lastname: Xu
authors.forename: Xinping
authors.initials: X
authors.lastname: Cui
authors.forename: Timothy J
authors.initials: TJ
authors.lastname: Close
mesh_terms: D001483:Base Sequence; D002473:Cell Wall / Q000235:genetics; D002874:Chromosome Mapping; D032461:Chromosomes, Plant / Q000235:genetics; D018744:DNA, Plant / Q000235:genetics; D005419:Flavonoids / Q000096:biosynthesis; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant; D005838:Genotype; D005810:Multigene Family; D020411:Oligonucleotide Array Sequence Analysis; D012275:Oryza / Q000235:genetics* / Q000254:growth & development / Q000378:metabolism; D009997:Osmotic Pressure; D010641:Phenotype; D040641:Quantitative Trait Loci; D012965:Sodium Chloride; D014158:Transcription, Genetic; D015854:Up-Regulation
chemical_list: D018744:DNA, Plant; D005419:Flavonoids; D012965:Sodium Chloride