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| Status |
Public on Apr 29, 2024 |
| Title |
Transcriptome analysis by total RNA sequencing of genetically modified Rhodobacter capsulatus strains for inducible expression of cas13a |
| Organism |
Rhodobacter capsulatus SB 1003 |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
In this study we analyzed the effects of an altered Cas13a expression in vivo, in presence or absence of ectopically expressed protospacer RNA (plasmid pCV2_SB6), by RNA-sequencing. The genomic modification of the cas13a controlling promoter enables altered expression of cas13a by adding either subinhibitory crystal violet (CV) concentrations (for transcriptional repression of cas13a), or additionally IPTG (for transcriptional induction of cas13a), to the mutant cultures. Transcriptome profiles were compared to corresponding wild type controls.
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| Overall design |
Comparative gene expression profiling analysis of RNA-seq data of independent biological triplicates of Rhodobacter capsulatus strains, grown either under cas13a inducing or cas13a repressing conditions.
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| Contributor(s) |
Klug G, Börner J, Kretz J, Friedrich T |
| Citation(s) |
38741736 |
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Function of the RNA-targeting class 2 type VI CRISPR Cas system of Rhodobacter capsulatus https://doi.org/10.3389/fmicb.2024.1384543
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| Submission date |
Feb 06, 2024 |
| Last update date |
May 31, 2024 |
| Contact name |
Gabriele Klug |
| E-mail(s) |
Gabriele.Klug@mikro.bio.uni-giessen.de
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| Organization name |
Justus-Liebig University Gießen
|
| Department |
Molecular- and Microbiology
|
| Street address |
Heinrich-Buff-Ring 26-32
|
| City |
Gießen |
| ZIP/Postal code |
35392 |
| Country |
Germany |
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| Platforms (1) |
| GPL34167 |
Illumina NovaSeq 6000 (Rhodobacter capsulatus SB 1003) |
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| Samples (21)
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| Relations |
| BioProject |
PRJNA1073936 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE255203_inducible_Cas13a_CV_pCV2_SB6_forw.wig.gz |
16.0 Mb |
(ftp)(http) |
WIG |
| GSE255203_inducible_Cas13a_CV_pCV2_SB6_reve.wig.gz |
15.5 Mb |
(ftp)(http) |
WIG |
| GSE255203_inducible_Cas13a_IPTG_forw.wig.gz |
12.7 Mb |
(ftp)(http) |
WIG |
| GSE255203_inducible_Cas13a_IPTG_pCV2_SB6_forw.wig.gz |
17.3 Mb |
(ftp)(http) |
WIG |
| GSE255203_inducible_Cas13a_IPTG_pCV2_SB6_reve.wig.gz |
16.6 Mb |
(ftp)(http) |
WIG |
| GSE255203_inducible_Cas13a_IPTG_reve.wig.gz |
12.0 Mb |
(ftp)(http) |
WIG |
| GSE255203_promoterless_Cas13a_forw.wig.gz |
13.0 Mb |
(ftp)(http) |
WIG |
| GSE255203_promoterless_Cas13a_pCV2_SB6_forw.wig.gz |
16.0 Mb |
(ftp)(http) |
WIG |
| GSE255203_promoterless_Cas13a_pCV2_SB6_reve.wig.gz |
15.6 Mb |
(ftp)(http) |
WIG |
| GSE255203_promoterless_Cas13a_reve.wig.gz |
12.8 Mb |
(ftp)(http) |
WIG |
SRA Run Selector |
| Raw data are available in SRA |
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