Transcriptome sequencing analysis of novel sRNAs of Kineococcus radiotolerans in response to ionizing radiation.
Kineococcus radiotolerans is a Gram-positive, radio-resistant bacterium isolated from a radioactive environment. The small noncoding RNAs (sRNAs) in bacteria are reported to play roles in the immediate response to stress and/or the recovery from stress. The analysis of K. radiotolerans transcriptome sequencing results can identify these sRNAs in a genome-wide detection, using RNA sequencing (RNA-seq) by the deep sequencing technique. In this study, the raw data of radiation-exposed samples (RS) and control samples (CS) were acquired separately from the sequencing platform. There were 217 common sRNA candidates in the two samples screened in the genome-wide scale by bioinformatics analysis. There were 43 differentially expressed sRNA candidates, including 28 up-regulated and 15 down-regulated ones. The down-regulated sRNAs were selected for the sRNA target prediction, of which 12 sRNAs that may modulate the genes related to the transcription regulation and DNA repair were considered as the candidates involved in the radio-resistance regulation system.
College of Life Sciences, Zhejiang Sci-Tech University, No. 2 Road, Xiasha, Hangzhou, Zhejiang, PR China, PR China; Zhejiang Institute of Microbiology, Hangzhou, Zhejiang, PR China.
Zhouwei
Z
Chen
College of Life Sciences, Zhejiang Sci-Tech University, No. 2 Road, Xiasha, Hangzhou, Zhejiang, PR China, PR China.
Lufeng
L
Li
College of Life Sciences, Zhejiang Sci-Tech University, No. 2 Road, Xiasha, Hangzhou, Zhejiang, PR China, PR China.
Zhan
Z
Shan
Department of Applied Engineering, Zhejiang Economic & Trade Polytechnic, Hangzhou, Zhejiang, PR China.
Hannian
H
Huang
Zhejiang Institute of Microbiology, Hangzhou, Zhejiang, PR China.
Huan
H
Chen
College of Life Sciences, Zhejiang Sci-Tech University, No. 2 Road, Xiasha, Hangzhou, Zhejiang, PR China, PR China.
Xianfeng
X
Ding
College of Life Sciences, Zhejiang Sci-Tech University, No. 2 Road, Xiasha, Hangzhou, Zhejiang, PR China, PR China. Electronic address: 603422689@qq.com.
Jiangfeng
J
Guo
College of Life Sciences, Zhejiang Sci-Tech University, No. 2 Road, Xiasha, Hangzhou, Zhejiang, PR China, PR China. Electronic address: llliu@zstu.edu.cn.
Lili
L
Liu
D039903:Actinobacteria / Q000235:genetics* / Q000528:radiation effects*; D019295:Computational Biology; D020869:Gene Expression Profiling; D015964:Gene Expression Regulation, Bacterial / Q000528:radiation effects*; D059014:High-Throughput Nucleotide Sequencing; D009690:Nucleic Acid Conformation; D034622:RNA Interference; D058727:RNA, Small Untranslated / Q000737:chemistry / Q000235:genetics*; D011836:Radiation Tolerance / Q000235:genetics*; D011839:Radiation, Ionizing; D015203:Reproducibility of Results; D059467:Transcriptome
D058727:RNA, Small Untranslated
Kineococcus radiotolerans; Novel sRNAs; RNA regulation; Radio-resistance; Transcriptome sequencing