GEO DataSets

(Submitter supplied) Genomic mutations allow bacteria to adapt rapidly to adverse stress environments. The three-dimensional conformation of the genome also may plays an important role in transcriptional regulation and environmental adaptation. Here, using chromosome conformation capture, we investigate the high-order architecture of the Zymomonas mobilis chromosome in response to genomic mutant and ambient stimuli (acetic acid and furfural, derived from lignocellulosic hydrolysate). more...

Organism:

Zymomonas mobilis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32966

15 Samples

Download data: TXT

(Submitter supplied) Genomic mutations allow bacteria to adapt rapidly to adverse stress environments. The three-dimensional conformation of the genome also may plays an important role in transcriptional regulation and environmental adaptation. Here, using chromosome conformation capture, we investigate the high-order architecture of the Zymomonas mobilis chromosome in response to genomic mutant and ambient stimuli (acetic acid and furfural, derived from lignocellulosic hydrolysate). more...

Organism:

Zymomonas mobilis

Type:

Other

Platform:

GPL32966

10 Samples

Download data: MCOOL, TXT

(Submitter supplied) Genomic mutations allow bacteria to adapt rapidly to adverse stress environments. The three-dimensional conformation of the genome also may play an important role in transcriptional regulation and environmental adaptation. Here, using chromosome conformation capture, we investigate the high-order architecture of the Zymomonas mobilis chromosome in response to genomic mutant and ambient stimuli (acetic acid and furfural, derived from lignocellulosic hydrolysate). more...

Organism:

Zymomonas mobilis

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL32966

10 Samples

Download data: BW, NARROWPEAK

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Zymomonas mobilis

Type:

Genome binding/occupancy profiling by high throughput sequencing; Other; Expression profiling by high throughput sequencing

Platform:

GPL32966

35 Samples

Download data: BW, NARROWPEAK, 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 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) 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 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) sRNAs represent a powerful class of regulators that influence multiple mRNA targets but remain largely uncharacterized outside of model organisms. Zymomonas mobilis is a natural ethanol-producing bacterium in which multiple small RNAs (sRNAs) have recently been identified, some of which show differential expression in ethanol stress. In this study, we show that sRNAs Zms4 and Zms6 have significant impacts on ethanol tolerance in Z. more...

Organism:

Zymomonas mobilis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24294

21 Samples

Download data: GFF

(Submitter supplied) The induction of Z. mobilis sRNAs Zms4 and Zms6 reveals their regulatory impacts on gene networks.

Organism:

Zymomonas mobilis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24294

12 Samples

Download data: GFF

(Submitter supplied) The MS2-affinity purification coupled to RNA-sequencing (MAPS) approach was used to identify RNA targets that physically associate in vivo with Zymomonas mobilis small RNAs Zms4 and Zms6.

Organism:

Zymomonas mobilis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24294

9 Samples

Download data: GFF

(Submitter supplied) Background: Lignocellulosic biomass is a promising renewable feedstock for the microbial production of fuels. To release the major fermentable sugars such as glucose and xylose, pretreatment, hydrolysis, and subsequent conditioning of biomass feedstock are needed. During this process, many toxic compounds are produced or introduced which subsequently inhibit microbial growth and in many cases the production titer and rate. more...

Organism:

Zymomonas mobilis

Type:

Expression profiling by genome tiling array

Platform:

GPL18675

30 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

(Submitter supplied) Investigation of the expression profiling of the ethanologenic Zymomonas mobilis in response to ethanol stress.

Organism:

Zymomonas mobilis; Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821

Type:

Expression profiling by array

Platform:

GPL15541

6 Samples

Download data: PAIR

(Submitter supplied) We report the genome changes associated with a Zymomonas mobilis sodium acetate-tolerant mutant (AcR). We used comparative genomics, transcriptomics, and genetics to show nhaA over-expression conferred sodium acetate (NaAc) tolerance in Z. mobilis. We observed a synergistic effect for sodium and acetate ions that enhanced toxicity against the wild-type strain (ZM4), which was not observed for similar concentrations of potassium and ammonium acetate under controlled laboratory conditions. more...

Organism:

Zymomonas mobilis

Type:

Expression profiling by array

Platform:

GPL9192

20 Samples

Download data: CALLS, PAIR

(Submitter supplied) Zymomonas mobilis ZM4 produces near theoretical yields of ethanol with high specific productivity and recombinant strains are able to ferment both C-5 and C-6 sugars. However, the genetic and physiological basis of the ZM4 response to various industrially-relevant stresses is poorly understood. In this study, the dynamics of ZM4 oxygen stress responses were elucidated by characterizing the transcriptomic and metabolomic profiles of aerobic and anaerobic fermentations using whole-genome microarray analysis and gas chromatography-mass spectrometry. more...

Organism:

Zymomonas mobilis

Type:

Expression profiling by array

Platform:

GPL6431

24 Samples

Download data: TXT