Genome-wide transcriptome and antioxidant analyses on gamma-irradiated phases of Deinococcus Radiodurans R1

Luan, Hemi, Meng, Nan, Fu, Jin, Chen, Xiaomin, Xu, Xun, Feng, Qiang, Jiang, Hui, Dai, Jun, Yuan, Xune, Lu, Yanping, Roberts, Alexandra A., Luo, Xiao, Chen, Maoshan, Xu, Shengtao, Li, Jun, Hamilton, Chris J., Fang, Chengxiang, and Wang, Jun (2014) Genome-wide transcriptome and antioxidant analyses on gamma-irradiated phases of Deinococcus Radiodurans R1. PLoS ONE, 9 (1). e85649. pp. 1-11.

[img]
Preview
PDF (Published Version) - Published Version
Available under License Creative Commons Attribution.

Download (1MB) | Preview
View at Publisher Website: http://dx.doi.org/10.1371/journal.pone.0...
 
22
117


Abstract

Adaptation of D. radiodurans cells to extreme irradiation environments requires dynamic interactions between gene expression and metabolic regulatory networks, but studies typically address only a single layer of regulation during the recovery period after irradiation. Dynamic transcriptome analysis of D. radiodurans cells using strand-specific RNA sequencing (ssRNA-seq), combined with LC-MS based metabolite analysis, allowed an estimate of the immediate expression pattern of genes and antioxidants in response to irradiation. Transcriptome dynamics were examined in cells by ssRNA-seq covering its predicted genes. Of the 144 non-coding RNAs that were annotated, 49 of these were transfer RNAs and 95 were putative novel antisense RNAs. Genes differentially expressed during irradiation and recovery included those involved in DNA repair, degradation of damaged proteins and tricarboxylic acid (TCA) cycle metabolism. The knockout mutant crtB (phytoene synthase gene) was unable to produce carotenoids, and exhibited a decreased survival rate after irradiation, suggesting a role for these pigments in radiation resistance. Network components identified in this study, including repair and metabolic genes and antioxidants, provided new insights into the complex mechanism of radiation resistance in D. radiodurans.

Item ID: 34165
Item Type: Article (Research - C1)
ISSN: 1932-6203
Additional Information:

© 2014 Luan et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

Funders: Shenzhen Key Laboratory of Environmental Genomics of Microbes and Applications, Shenzhen Key Laboratory of Trans-omics Biotechnologies, National Natural Science Foundation of China (NNSF)
Projects and Grants: NNSF No. 31300003
Date Deposited: 07 Aug 2014 02:03
FoR Codes: 06 BIOLOGICAL SCIENCES > 0601 Biochemistry and Cell Biology > 060104 Cell Metabolism @ 70%
06 BIOLOGICAL SCIENCES > 0605 Microbiology > 060501 Bacteriology @ 20%
06 BIOLOGICAL SCIENCES > 0601 Biochemistry and Cell Biology > 060102 Bioinformatics @ 10%
SEO Codes: 97 EXPANDING KNOWLEDGE > 970106 Expanding Knowledge in the Biological Sciences @ 100%
Downloads: Total: 117
Last 12 Months: 28
More Statistics

Actions (Repository Staff Only)

Item Control Page Item Control Page