title: Transcriptional responses to flooding stress in roots including hypocotyl of soybean seedlings.
abstract: To understand the transcriptional responses to flooding stress in roots including hypocotyl of soybean seedlings, genome-wide changes in gene expression were analyzed using a soybean microarray chip containing 42,034 60-mer oligonucleotide probes. More than 6,000 of flooding-responsive genes in the roots including hypocotyl of soybean seedlings were identified. The transcriptional analysis showed that genes related to photosynthesis, glycolysis, Ser-Gly-Cys group amino acid synthesis, regulation of transcription, ubiquitin-mediated protein degradation and cell death were significantly up-regulated by flooding. Meanwhile, genes related to cell wall synthesis, secondary metabolism, metabolite transport, cell organization, chromatin structure synthesis, and degradation of aspartate family amino acid were significantly down-regulated. Comparison of the responses with other plants showed that genes encoding pyrophosphate dependent phosphofructokinase were down-regulated in flooded soybean seedlings, however, those in tolerant plants were up-regulated. Additionally, genes related to RNA processing and initiation of protein synthesis were not up-regulated in soybean, however, those in tolerant plants were up-regulated. Furthermore, we found that flooding-specific up-regulation of genes encoding small proteins which might have roles in acclimation to flooding. These results suggest that functional disorder of acclimative responses to flooding through transcriptional and post-transcriptional regulations is involved in occurring flooding injury to soybean seedlings.
authors.affiliation: National Institute of Crop Science, Tsukuba 305-8518, Japan.
authors.forename: Yohei
authors.initials: Y
authors.lastname: Nanjo
authors.forename: Kyonoshin
authors.initials: K
authors.lastname: Maruyama
authors.forename: Hiroshi
authors.initials: H
authors.lastname: Yasue
authors.forename: Kazuko
authors.initials: K
authors.lastname: Yamaguchi-Shinozaki
authors.forename: Kazuo
authors.initials: K
authors.lastname: Shinozaki
authors.forename: Setsuko
authors.initials: S
authors.lastname: Komatsu
mesh_terms: D004734:Energy Metabolism / Q000235:genetics; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant; D018546:Hypocotyl / Q000235:genetics / Q000378:metabolism; D053858:Metabolic Networks and Pathways / Q000235:genetics; D020411:Oligonucleotide Array Sequence Analysis; D010788:Photosynthesis / Q000235:genetics; D010940:Plant Proteins / Q000235:genetics* / Q000378:metabolism; D018517:Plant Roots / Q000235:genetics / Q000378:metabolism; D036226:Seedlings / Q000235:genetics / Q000378:metabolism; D013025:Glycine max / Q000235:genetics* / Q000378:metabolism; D013312:Stress, Physiological / Q000235:genetics*; D014158:Transcription, Genetic; D014867:Water / Q000378:metabolism
chemical_list: D010940:Plant Proteins; D014867:Water