Premium
Transcriptome profiling in response to different types of ionizing radiation and identification of multiple radio marker genes in rice
Author(s) -
Hwang Jung Eun,
Hwang SunGoo,
Kim SunHee,
Lee Kyung Jun,
Jang Cheol Seong,
Kim JinBaek,
Kim Sang Hoon,
Ha BoKeun,
Ahn JoonWoo,
Kang SiYong,
Kim Dong Sub
Publication year - 2014
Publication title -
physiologia plantarum
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.351
H-Index - 146
eISSN - 1399-3054
pISSN - 0031-9317
DOI - 10.1111/ppl.12121
Subject(s) - gene , biology , transcriptome , gene expression , genome , gene expression profiling , genetics , dna microarray , computational biology , microbiology and biotechnology
Ionizing radiation ( IR ) affects gene expression from plant genomes. To monitor the genome‐wide transcriptional changes induced by three types of IR , we used the rice Affymetrix GeneChip microarray to identify genes that are up‐ or down‐regulated by gamma rays ( GAs ), cosmic rays ( CRs ) and ion beams ( IBs ). The overall expression patterns in rice seedlings generated from seeds exposed to GAs and IBs were similar but differed for CRs exposure. Expression profiles of genes involved in metabolic pathways and cellular response were identified using MapMan analysis. This result revealed that IR s induced gene expression related to sucrose–starch metabolisms; sugar and starch accumulation was significantly increased in response to three types of IR in rice. In addition, we compared the genes commonly up‐ or down‐regulated by exposure to three types of IR and identified 53 candidate radio marker genes ( RMG s) that were differentially regulated by radiation exposure but not by other stresses. Among these genes, we selected six RMG s commonly applicable to different types of IR by specific coexpression networks using the algorithm for the reconstruction of accurate cellular networks ( aracne) and confirmed the expression of these genes by reverse transcription‐polymerase chain reaction ( RT‐PCR ) analysis. Our results provided insight into the mechanisms of the responses to different types of IR and identified multiple marker genes to predict sensitivity to three types of IR .