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| Status |
Public on May 04, 2018 |
| Title |
RNA-seq-based Transcriptome Analysis of A LuxR-like (DqsR) Mutant of Deinococcus radiodurans Under Oxidative and Non-oxidative Stresses. |
| Organism |
Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539 |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Purpose: The goal of this study is to explore the role of DqsR of D. radiodurans R1 in transcriptome profiling under oxidative and non-oxidative stresses.
Methods: mRNA profiles of wild-type D. radiodurans R1 and DqsR knockout strain with 100 mM H2O2 treatment or not were generated by deep sequencing using IIllumina Solexa.
Results: A total of 17.03 million (M) and 19.61 M clean reads were obtained from the wild-type R1 and mutant strains; of these, 14.81 M and 16.78 M reads were mapped to the genome, respectively. A total of 427 genes were repressed and 396 genes were induced at least one-fold (log2) (p<0.05) in the mutant under non-oxidative stress conditions in transcription.
Conclusions: Our study reveals that deletion of DqsR changes the transcriptional levels of a number of genes, both under normal conditions and oxidative stresses, including genes involved in translation, transcription, replication, recombination and repair, inorganic ion transport and metabolism, etc.
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| Overall design |
Examination of mRNA levels in wild-type D. radiodurans R1 and the DqsR mutant under oxidative and non-oxidative stresses by deep sequencing using Illumina Solexa.
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| Contributor(s) |
Lin L, Tian B |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| |
| Submission date |
May 04, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Lin Lin |
| E-mail(s) |
lin834943150@163.com
|
| Phone |
+86-571-86971215
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| Organization name |
Zhejiang University
|
| Department |
Institute of Nuclear-Agricultural Sciences
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| Street address |
No.268, Kaixuan Road
|
| City |
Hangzhou |
| State/province |
Zhejiang |
| ZIP/Postal code |
310029 |
| Country |
China |
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| Platforms (1) |
| GPL19650 |
Illumina HiSeq 2000 (Deinococcus radiodurans R1) |
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| Samples (8)
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| Relations |
| BioProject |
PRJNA282923 |
| SRA |
SRP057959 |
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