GEO DataSets

(Submitter supplied) To investigate the molecular mechanism of the increased bioethanol fermentability, we carried out RNA-Seq sequencing assays for the wild and mutant strain Z. mobilis after pretreated with cold plasma. We then performed gene expression profiling analysis using data obtained from RNA-seq of 2 different cells at one time points.

Organism:

Zymomonas mobilis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33295

6 Samples

Download data: TXT

(Submitter supplied) The conversion of sugars in lignocellulosic hydrolysates to bioethanol represents an industrially relevant system for understanding microbial physiology associated with production of bio-based fuels and chemicals. To this end we have developed a new version of synthetic hydrolysate (SynH) modeled on highly concentrated 9% AFEX-pretreated cornstove hydrolysate (ACSH) with and without lignocellulose-derived inhibitors (LDIs) added, termed SynH3 and SynH3- respectively. more...

Organism:

Zymomonas mobilis subsp. mobilis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27043

24 Samples

Download data: TXT

(Submitter supplied) In our previous study, we successfully constructed an engineered Zymomonas mobilis ZM532 strain tolerant these double inhibitors by genome shuffling, but the molecular mechanisms of tolerance to these inhibitors are still unknown. The goal of this study investigated the responses of ZM532 and wild-type ZM4 to acetic acid and furfural using Transcriptome

Organism:

Zymomonas mobilis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29852

12 Samples

Download data: TXT

(Submitter supplied) Looking at the expression levels of all the genes of Zymomonas mobilis ZM4; and in particular we would like to predict the strengths of the genes located on the native plasmids.

Organism:

Zymomonas mobilis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33295

3 Samples

Download data: TXT

(Submitter supplied) In this study, we reported the updated chromosome and plasmid sequence of ZM4, and its two engineered xylose-utilizing strains derivatives (strains 2032 and 8b). The majority of plasmid genes have either homologs from other organisms or some conserved domains. Our bioinformatics analysis suggested that several plasmid genes may be essential genes of ZM4. To further validate the function of these plasmid genes, an RNA-Seq pipeline was developed for Z. more...

Organism:

Zymomonas mobilis subsp. mobilis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24485

17 Samples

Download data: TXT

(Submitter supplied) We collected sample-matched multiomics data including RNA-seq, transcription start site sequencing (TSS-seq), termination sequencing (term-seq), ribosome profiling, and label-free shotgun proteomic mass spectrometry across different growth conditions to improve annotation and assign functional sites in the Zymomonas mobilis subsp. mobilils ZM4 genome. Proteomics and ribosome profiling informed revisions of protein-coding genes, which included 44 start codon changes and 42 added proteins. more...

Organism:

Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821

Type:

Expression profiling by high throughput sequencing; Other

Platforms:

GPL27722 GPL26046

94 Samples

Download data: BEDGRAPH, TXT

(Submitter supplied) Background Zymomonas mobilis ZM4 is a capable ethanologenic bacterium with high ethanol productivity and ethanol tolerance. Previous studies indicated that several stress-related proteins and changes in the ZM4 membrane lipid composition may contribute to ethanol tolerance. However, the molecular mechanisms of its ethanol stress response have not been elucidated fully. Methodology/Principal Findings In this study, ethanol stress responses were investigated using systems biology approaches. more...

Organism:

Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821

Type:

Expression profiling by array

Platform:

GPL10278

16 Samples

Download data: TXT

(Submitter supplied) Zymomonas mobilis is an excellent ethanologenic bacterium. Biomass pretreatment and saccharification provides access to simple sugars, but also produces inhibitors such as acetate and furfural. Our previous work has identified and confirmed the genetic change of a 1.5-kb deletion in the sodium acetate tolerant Z. mobilis mutant (AcR) leading to constitutively elevated expression of a sodium proton antiporter encoding gene nhaA, which contributes to the sodium acetate tolerance of AcR mutant. more...

Organism:

Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821

Type:

Expression profiling by array

Platform:

GPL11220

16 Samples

Download data: TXT

(Submitter supplied) The fermentation of Zymomonas mobilis 2032 was conducted in 6% and 9% glucan-loading AFEX-pretreated corn stover hydrolysates, as well as in 7% glucan-loading AFEX-pretreated switchgrass hydrolysate, and RNA samples were collected at both glucose and xylose growth stages. Here we present a comprehensive RNA-Seq data set at both growth stages.

Organism:

Zymomonas mobilis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29852

25 Samples

Download data: TXT

(Submitter supplied) Background Lignocellulosic biomass is a promising renewable feedstock for biofuel production. Acetate is one of the major inhibitors liberated from hemicelluloses during hydrolysis. An understanding of the toxic effects of acetate on the fermentation microorganism and the efficient utilization of mixed sugars of glucose and xylose in the presence of hydrolysate inhibitors is crucial for economic biofuel production. more...

Organism:

Zymomonas mobilis

Type:

Expression profiling by genome tiling array

Platform:

GPL18675

30 Samples

Download data: TXT