Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0

Genome-wide maps of primary and processed start-sites of transcripts revealed mechanism controlling in vivo stoichiometry of protein complex in bacteria

ABSTRACT: Here a differential mRNA-sequencing (dRNA-Seq) strategy was employed to distinguish transcriptional start-sites (TSs) and post-transcriptional processed sites (PSs) of transcripts in the cellulolytic mesophile Clostridium cellulolyticum. PS-harboring genes usually  encode heteromultimeric complexes such as flagella, ribosomes, F-type ATPases, and cellulosomes. Intriguingly, PSs located in intergenic reigons (iPSs) were appear to be associated with a particular set of operons that expressed as a complex ratio, in which stem-loops were often  found at upstream and/or downstream of highly-expressed processed transcripts; among operons, the folding free energy (deltaG) of the stem-loops is negatively correlated with polarity in transcript level of the operon. mRNA profiles of C. cellulolyticum H10 grown under three carbon sources in two RNA treatments were generated by deep sequencing, in duplicate, using Illumina HiSeq 2000

ORGANISM(S): [Clostridium] cellulolyticum

SUBMITTER: Jian Xu 

PROVIDER: E-GEOD-57652 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

Json Xml
altmetric image

Publications

Cellulosome stoichiometry in Clostridium cellulolyticum is regulated by selective RNA processing and stabilization.

Xu Chenggang C   Huang Ranran R   Teng Lin L   Jing Xiaoyan X   Hu Jianqiang J   Cui Guzhen G   Wang Yilin Y   Cui Qiu Q   Xu Jian J  

Nature communications 20150424

The mechanism, physiological relevance and evolutionary implication of selective RNA processing and stabilization (SRPS) remain elusive. Here we report the genome-wide maps of transcriptional start sites (TSs) and post-transcriptional processed sites (PSs) for Clostridium cellulolyticum. The PS-associated genes are preferably associated with subunits of heteromultimeric protein complexes, and the intergenic PSs (iPSs) are enriched in operons exhibiting highly skewed transcript-abundance landscap  ...[more]

Similar Datasets

Transcriptomics Genome-wide maps of primary and processed start-sites of transcripts revealed mechanism controlling in vivo stoichiometry of protein complex in bacteria
2015-04-27 | GSE57652 | GEO
Genomics
| PRJNA856785 | ENA
Transcriptomics De novo Epstein-Barr virus infection of pseudostratified nasopharynx epithelial cells differentiated at the air-liquid interface (ALI)
2021-04-06 | GSE157243 | GEO
Transcriptomics cDNA array expression in cotton fiber secondary cell wall development from two germplasm lines that differ in fiber strength
2015-07-22 | E-GEOD-30944 | biostudies-arrayexpress
Transcriptomics The primary transcriptome of barley (Hordeum vulgare L.) chloroplasts
2011-11-23 | E-GEOD-33773 | biostudies-arrayexpress
Transcriptomics CXCR2 may serve as a useful index of disease activity in interstitial lung disease associated with primary Sjögren’s syndrome
2021-06-02 | GSE171896 | GEO
Methylation profiling DNA Methylation Barcodes in Human Fetal Tissues and Human Induced Pluripotent Stem Cells II
2017-07-26 | GSE76640 | GEO
Proteomics Proteomics of saliva, plasma, and salivary gland tissue in Sjögren’s syndrome and non-Sjögren patients identify novel biomarker candidates
2020-07-09 | PXD016231 | Pride
Proteomics TLR7 agonism accelerates disease in a mouse model of primary Sjögren’s syndrome and drives expansion of age-associated B cells
2022-09-01 | GSE212467 | GEO
Transcriptomics Transcriptome analysis of CCR9+, CXCR5+ and CCR9-CXCR5- Th cells in primary Sjögren's syndrome (pSS) patients and healthy controls (HC)
2021-07-26 | GSE173635 | GEO