Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Caldicellulosiruptor bescii

ABSTRACT: Metabolic and Expression Regulation by the rex Gene in Caldicellulosiruptor bescii

PROVIDER: PRJNA396455 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR5882600.fastq.gz	Fastqsanger.gz
	SRR5882610.fastq.gz	Fastqsanger.gz
	SRR5882620.fastq.gz	Fastqsanger.gz
	SRR5882630.fastq.gz	Fastqsanger.gz
	SRR5882601.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 36

Similar Datasets

Metabolic and Expression Regulation by the rex Gene in Caldicellulosiruptor bescii

Project description:Metabolic and Expression Regulation by the rex Gene in Caldicellulosiruptor bescii

2018-07-30 | GSE102041 | GEO

Metabolic and Expression Regulation in Caldicellulosiruptor bescii

Project description:Metabolic and Expression Regulation in Caldicellulosiruptor bescii

| PRJNA419959 | ENA

Transcriptional regulation of plant biomass degradation and carbohydrate utilization genes in Caldicellulosiruptor bescii [RNA-Seq]

Project description:Extremely thermophilic bacteria from the genus Caldicellulosiruptor can degrade various polysaccharide components of plant cell walls. Previous experimental studies identified a variety of carbohydrate-active enzymes in model species C. saccharolyticus and C.bescii, while prior transcriptomic experiments identified their putative carbohydrate uptake transporters. We investigated the mechanisms of transcriptional regulation of carbohydrate utilization genes using a comparative genomics approach applied to fourteen Caldicellulosiruptor species. The reconstruction of carbohydrate utilization regulatory network includes the predicted binding sites for 34 mostly local regulators and point to the regulatory mechanisms controlling expression of genes involved in degradation of plant biomass. The Rex and CggR regulons control the central glycolytic and primary redox reactions. The identified transcription factor binding sites and regulons were validated with transcriptomic and transcription start site data for C. bescii grown on cellulose, cellobiose, glucose, xylan, and xylose. The XylR and XynR regulons control xylan-induced transcriptional response of genes involved in degradation of xylan and xylose utilization. The reconstructed regulons informed the carbohydrate utilization reconstruction analysis and improved functional annotations of 51 transporters and 11 catabolic enzymes. Using gene deletion, we confirmed that the shared ATPase component MsmK is essential for growth on oligo- and polysaccharides but not for the utilization of monosaccharides. By elucidating the carbohydrate utilization framework in C. bescii, strategies for metabolic engineering can be pursued to optimize yields of bio-based fuels and chemicals from lignocellulose.

2021-02-23 | GSE163472 | GEO

Transcriptional regulation of plant biomass degradation and carbohydrate utilization genes in Caldicellulosiruptor bescii [RNA-Seq (TSS)]

2021-02-23 | GSE163473 | GEO

Caldicellulosiruptor bescii

Project description:Caldicellulosiruptor bescii Genome sequencing and assembly

| PRJNA1123652 | ENA

Caldicellulosiruptor bescii strain:RKCB126

Project description:Caldicellulosiruptor bescii RKCB126 genome sequencing

| PRJNA371183 | ENA

Caldicellulosiruptor bescii strain:RKCB128

Project description:Caldicellulosiruptor bescii RKCB128 genome sequencing

| PRJNA371185 | ENA