Arabidopsis transcriptome analysis under drought, cold, high-salinity and ABA treatment conditions using a tiling array

被引：381

作者：

Matsui, Akihiro ^{[1
]}

Ishida, Junko ^{[1
]}

Morosawa, Taeko ^{[1
]}

Mochizuki, Yoshiki ^{[2
]}

Kaminuma, Eli ^{[2
]}

Endo, Takaho A. ^{[2
]}

Okamoto, Masanori ^{[1
]}

Nambara, Eiji ^{[3
]}

Nakajima, Maiko ^{[1
]}

Kawashima, Makiko ^{[1
]}

Satou, Masakazu ^{[1
]}

Kim, Jong-Myong ^{[1
]}

Kobayashi, Norio ^{[2
]}

Toyoda, Tetsuro ^{[2
]}

Shinozaki, Kazuo ^{[4
]}

Seki, Motoaki ^{[1
,5
]}

机构：

[1] RIKEN, Plant Sci Ctr, Plant Funct Genom Res Grp, Plant Genom Network Res Team,Tsurumi Ku, Kanagawa 2300045, Japan

[2] RIKEN, Yokohama Inst, Bioinformat & Syst Engn Div, Tsurumi Ku, Kanagawa 2300045, Japan

[3] RIKEN, Plant Sci Ctr, Growth Regulat Res Grp, Dormancy & Adaptat Res Team,Tsurumi Ku, Kanagawa 2300045, Japan

[4] RIKEN, Plant Sci Ctr, Gene Discovery Res Grp, Gene Discovery Res Team, Tsukuba, Ibaraki 3050074, Japan

[5] Yokohama City Univ, Kihara Inst Biol Res, Totsuka Ku, Yokohama, Kanagawa 2440813, Japan

来源：

PLANT AND CELL PHYSIOLOGY | 2008年 / 49卷 / 08期

关键词：

abiotic stress; antisense RNA; Arabidopsis; non-protein-coding RNA; tiling array;

D O I：

10.1093/pcp/pcn101

中图分类号：

Q94 [植物学];

学科分类号：

071001 ;

摘要：

Plants respond and adapt to drought, cold and high-salinity stresses in order to survive. In this study, we applied Arabidopsis Affymetrix tiling arrays to study the whole genome transcriptome under drought, cold, high-salinity and ABA treatment conditions. The bioinformatic analysis using the tiling array data showed that 7,719 non-AGI transcriptional units (TUs) exist in the unannotated intergenic regions of Arabidopsis genome. These include 1,275 and 181 TUs that are induced and downregulated, respectively, by the stress or ABA treatments. Most of the non-AGI TUs are hypothetical non-protein-coding RNAs. About 80 of the non-AGI TUs belong to pairs of the fully overlapping sense-antisense transcripts (fSATs). Significant linear correlation between the expression ratios (treated/untreated) of the sense TUs and the ratios of the antisense TUs was observed in the SATs of AGI code/non-AGI TU. We studied the biogenesis mechanisms of the stress- or ABA-inducible antisense RNAs and found that the expression of sense TUs is necessary for the stress- or ABA-inducible expression of the antisense TUs in the fSATs (AGI code/non-AGI TU).

引用

页码：1135 / 1149

页数：15

共 89 条

[31] Genome-wide transcription analyses in rice using tiling microarrays [J].