Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Next generation sequencing (NGS) allows identification of differentially regulated genes during Bacteroides growth on xylose:arabinose and insoluble wheat arabinoxylan

ABSTRACT: Purpose: Identify differentially regulated genes in three Bacteroides species (B. intestinalis, B. cellulosylitycus, and B. oleiciplenus) under xylose:arabinose growth compared to insoluble wheat arabinoxylan Methods: Bacterial mRNA profiles of mid-log cultures were generated by deep sequencing using Illumina 4000, in duplicates. The sequences were trimmed based on quality scores using Trimmomatic.

ORGANISM(S): Bacteroides intestinalis Bacteroides oleiciplenus Bacteroides cellulosilyticus

PROVIDER: GSE161471 | GEO | 2020/11/14

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Next generation sequencing (NGS) allows identification of differentially regulated genes during Bacteroides growth on xylose:arabinose and insoluble wheat arabinoxylan

Project description:Next generation sequencing (NGS) allows identification of differentially regulated genes during Bacteroides growth on xylose:arabinose and insoluble wheat arabinoxylan

| PRJNA678359 | ENA

Aspergillus niger : Control (fructose) vs. xylose + arabinose (XA)

Project description:Transcriptional profiling of A. niger comparing different strains (WT, ΔXlnR, ΔaraR and ΔaraRΔXlnR) treated with 25mM xylose + 25mM arabinose for 2 and 8h. The main objective was to identifiy genes related to primary metabolism and carbohydrate metabolism in general, for instance, cellulases and hemicellulases. The study will compare the differences between WT strain and the strains with the disrupted xylanolytic transcriptional activator gene, XlnR, the arabinolytic transcriptional activator gene, AraR, and the double mutant,after treatment with xylose+arabinose (XA treatment). The experiment was further validated by real-time PCR and enzymatic assays.

2012-05-07 | GSE37760 | GEO

Aspergillus niger : Control (fructose) vs. xylose + arabinose (XA)

Project description:Transcriptional profiling of A. niger comparing different strains (WT, M-NM-^TXlnR, M-NM-^TaraR and M-NM-^TaraRM-NM-^TXlnR) treated with 25mM xylose + 25mM arabinose for 2 and 8h. The main objective was to identifiy genes related to primary metabolism and carbohydrate metabolism in general, for instance, cellulases and hemicellulases. The study will compare the differences between WT strain and the strains with the disrupted xylanolytic transcriptional activator gene, XlnR, the arabinolytic transcriptional activator gene, AraR, and the double mutant,after treatment with xylose+arabinose (XA treatment). The experiment was further validated by real-time PCR and enzymatic assays. Two-condition experiment : A. niger mutant strains on XA for 2 and 8 h at 30 oC in batch culture. Firstly, the strains were pre-grown in minimal medium with fructose as carbon source (control), and then transferred to xylose+arabinose (25 mM each) as carbon source.

2012-05-06 | E-GEOD-37760 | biostudies-arrayexpress

Transcriptional comparison of the filamentous fungus Neurospora crassa growing on three major monosaccharides D-glucose, D-xylose and L-arabinose

Project description:D-glucose, D-xylose and L-arabinose are three major monosaccharides in the plant cell wall. Complete utilization of all three sugars is still a bottleneck for second-generation cellulolytic bioethanol production, especially for L-arabinose. However, little is known about the gene expression profiles during L-arabinose utilization in fungi at genome-wide level and a comparison of the genome-wide fungal response to these three major monosaccharides has not yet been reported. To better understand the microbial response and utilization of L-arabinose for subsequent microbial engineering for co-fermentation all three sugars, we performed transcriptome analysis of N. crassa grown on L-arabinose, compared with that on D-xylose and D-glucose.

2014-03-17 | GSE51091 | GEO

Transcriptional comparison of the filamentous fungus Neurospora crassa growing on three major monosaccharides D-glucose, D-xylose and L-arabinose

2014-03-17 | E-GEOD-51091 | biostudies-arrayexpress

Bacteroides intestinalis CAG:315

Project description:Bacteroides intestinalis CAG:315 overview

| PRJNA207250 | ENA

Bacteroides intestinalis CAG:564

Project description:Bacteroides intestinalis CAG:564 overview

| PRJNA207227 | ENA

Bacteroides intestinalis EK2

Project description:Bacteroides intestinalis EK2 genome sequencing project

| PRJNA42753 | ENA

Transcriptome analysis of arabinose fermentation by engineered Saccharomyces cerevisiae

Project description:Saccharomyces cerevisiae IMS0002 which, after metabolic and evolutionary engineering, ferments the pentose sugar arabinose. Glucose and arabinose-limited anaerobic chemostat cultures of IMS0002 and its non-evolved ancestor IMS0001 were subjected to transcriptome analysis to identify key genetic changes contributing to efficient arabinose utilization by strain IMS0002.

2011-03-01 | GSE27539 | GEO

Bj_Heterotrophy vs. Arabinose supplemented chemoautotrophy

Project description:Transcriptional profiling of arabinose supplemented chemoautotrophically grown cells Keywords: Comparison of different lifestyles

2008-07-19 | GSE10295 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data