title: Transcriptome-Based Identification of Differently Expressed Genes from Xanthomonas oryzae pv. oryzae Strains Exhibiting Different Virulence in Rice Varieties.
abstract: Xanthomonas oryzae pv. oryzae (Xoo) causes bacterial blight (BB) in rice (Oryza sativa L.). In this study, we investigated the genome-wide transcription patterns of two Xoo strains (KACC10331 and HB1009), which showed different virulence patterns against eight rice cultivars, including IRBB21 (carrying Xa21). In total, 743 genes showed a significant change (p-value < 0.001 in t-tests) in their mRNA expression levels in the HB1009 (K3a race) strain compared with the Xoo KACC10331 strain (K1 race). Among them, four remarkably enriched GO terms, DNA binding, transposition, cellular nitrogen compound metabolic process, and cellular macromolecule metabolic process, were identified in the upregulated genes. In addition, the expression of 44 genes was considerably higher (log2 fold changes > 2) in the HB1009 (K3a race) strain than in the Xoo KACC10331 (K1 race) strain. Furthermore, 13 and 12 genes involved in hypersensitive response and pathogenicity (hrp) and two-component regulatory systems (TCSs), respectively, were upregulated in the HB1009 (K3a race) strain compared with the Xoo KACC10331 (K1 race) strain, which we determined using either quantitative real-time PCR analysis or next-generation RNA sequencing. These results will be helpful to improve our understanding of Xoo and to gain a better insight into the Xoo-rice interactions.
authors.affiliation: National Institute of Crop Science, Rural Development Administration, Wanju-gun 55365, Korea. nohtw831@korea.kr.
authors.forename: Tae-Hwan
authors.initials: TH
authors.lastname: Noh
authors.affiliation: National Institute of Agricultural Science, Rural Development Administration, Jeonju 54874, Korea. ses5494@korea.kr.
authors.forename: Eun-Sung
authors.initials: ES
authors.lastname: Song
authors.affiliation: Department of Biomedical Chemistry, Konkuk University, Chungju 27478, Korea. kwangdae7@kku.ac.kr.
authors.forename: Hong-Il
authors.initials: HI
authors.lastname: Kim
authors.affiliation: National Institute of Crop Science, Rural Development Administration, Wanju-gun 55365, Korea. kangmh@korea.kr.
authors.forename: Mi-Hyung
authors.initials: MH
authors.lastname: Kang
authors.affiliation: Department of Biomedical Chemistry, Konkuk University, Chungju 27478, Korea. yjpark@kku.ac.kr.
authors.forename: Young-Jin
authors.initials: YJ
authors.lastname: Park
mesh_terms: D001426:Bacterial Proteins / Q000235:genetics*; D020869:Gene Expression Profiling / Q000379:methods; D015964:Gene Expression Regulation, Bacterial; D063990:Gene Ontology; D012275:Oryza / Q000382:microbiology*; D017423:Sequence Analysis, RNA / Q000379:methods; D059467:Transcriptome; D014774:Virulence; D014974:Xanthomonas / Q000235:genetics / Q000472:pathogenicity*
chemical_list: D001426:Bacterial Proteins
keywords: Xanthomonas oryzae pv. oryzae; bacterial blight; differently expressed gene; transcriptome; virulence