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Items: 1 to 20 of 604

1.

The transcriptional response to low temperature is weakly conserved across Enterobacteriales

(Submitter supplied) Bacteria respond to changes in their external environment like temperature by changing the transcription of their genes, but we know little about how these regulatory patterns evolve. We used RNA-seq to study the transcriptional response of a shift from 37°C to 15°C in wild-type Escherichia coli, Salmonella enterica, Citrobacter rodentium, Enterobacter cloacae, Klebsiella pneumoniae, and Serratia marcescens, as well as ∆rpoS strains of E. more...
Organism:
Enterobacter cloacae; Escherichia coli; Klebsiella pneumoniae; Citrobacter rodentium; Serratia marcescens; Salmonella enterica
Type:
Expression profiling by high throughput sequencing
6 related Platforms
64 Samples
Download data: TXT
Series
Accession:
GSE267531
ID:
200267531
2.

Understanding resistance to polymyxin and amikacin in Klebsiella pneumoniae

(Submitter supplied) Klebsiella pneumoniae poses a significant global health threat primarily attributable to its pronounced resistance. Here, we report an in vitro acquired resistance analyses of K. pneumoniae to the combination of amikacin and polymyxin B. We found some differentially expressed genes associated with the resistome of K. pneumoniae. The main differences were found in the genes aphA, asmA, phoP, and in the arn operon. more...
Organism:
Klebsiella pneumoniae
Type:
Expression profiling by high throughput sequencing
Platform:
GPL32198
6 Samples
Download data: CSV
Series
Accession:
GSE264574
ID:
200264574
3.

Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and ompR mutant of K. pneumoniae ATCC43816 Transcriptomes.

(Submitter supplied) Purpose: This study aims to compare the transcriptome profiling (RNA-seq) of ompR mutant to that of WT and to evaluate the transcrptional regulation of OmpR in K. pneumoniae in exponential phase.
Organism:
Klebsiella pneumoniae ATCC 43816
Type:
Expression profiling by high throughput sequencing
Platform:
GPL31955
4 Samples
Download data: XLS
Series
Accession:
GSE205098
ID:
200205098
4.

The global RNA-RNA interactome of Klebsiella pneumoniae unveils a small RNA regulator of cell division

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Klebsiella pneumoniae subsp. pneumoniae
Type:
Other
Platforms:
GPL33821 GPL33822
20 Samples
Download data
Series
Accession:
GSE244640
ID:
200244640
5.

The global RNA-RNA interactome of Klebsiella pneumoniae unveils a small RNA regulator of cell division (RIP-Seq)

(Submitter supplied) The ubiquitous RNA chaperone Hfq is involved in the regulation of key biological processes in many species across the bacterial kingdom. In the opportunistic human pathogen Klebsiella pneumoniae, deletion of the hfq gene affects the global transcriptome, virulence, and stress-resistance, however, the ligands of the major RNA-binding protein in this species have remained elusive. In this study, we have combined transcriptomic, co-immunoprecipitation and global RNA interactome analyses to compile an inventory of conserved and species-specific RNAs bound by Hfq, and to monitor Hfq-mediated RNA-RNA interactions. more...
Organism:
Klebsiella pneumoniae subsp. pneumoniae
Type:
Other
Platform:
GPL33821
8 Samples
Download data: XLSX
Series
Accession:
GSE244639
ID:
200244639
6.

The global RNA-RNA interactome of Klebsiella pneumoniae unveils a small RNA regulator of cell division (RIL-Seq)

(Submitter supplied) The ubiquitous RNA chaperone Hfq is involved in the regulation of key biological processes in many species across the bacterial kingdom. In the opportunistic human pathogen Klebsiella pneumoniae, deletion of the hfq gene affects the global transcriptome, virulence, and stress-resistance, however, the ligands of the major RNA-binding protein in this species have remained elusive. In this study, we have combined transcriptomic, co-immunoprecipitation and global RNA interactome analyses to compile an inventory of conserved and species-specific RNAs bound by Hfq, and to monitor Hfq-mediated RNA-RNA interactions. more...
Organism:
Klebsiella pneumoniae subsp. pneumoniae
Type:
Other
Platform:
GPL33822
4 Samples
Download data: XLSX
Series
Accession:
GSE244638
ID:
200244638
7.

The global RNA-RNA interactome of Klebsiella pneumoniae unveils a small RNA regulator of cell division (dRNA-Seq)

(Submitter supplied) The ubiquitous RNA chaperone Hfq is involved in the regulation of key biological processes in many species across the bacterial kingdom. In the opportunistic human pathogen Klebsiella pneumoniae, deletion of the hfq gene affects the global transcriptome, virulence, and stress-resistance, however, the ligands of the major RNA-binding protein in this species have remained elusive. In this study, we have combined transcriptomic, co-immunoprecipitation and global RNA interactome analyses to compile an inventory of conserved and species-specific RNAs bound by Hfq, and to monitor Hfq-mediated RNA-RNA interactions. more...
Organism:
Klebsiella pneumoniae subsp. pneumoniae
Type:
Other
Platform:
GPL33821
8 Samples
Download data: XLSX
Series
Accession:
GSE244635
ID:
200244635
8.

Intestinal carbapenem-resistant Klebsiella pneumoniae undergoes complex transcriptional reprogramming following immune activation

(Submitter supplied) Carbapenem-resistantKlebsiella pneumoniae(CR-Kp) is significant threat to public health worldwide. The primary reservoir for CR-Kp is the intestinal tract, where the bacterium is usually present at low density, but can bloom following antibiotic treatment, mostly in hospital settings. The impact of disturbances in the intestinal environment on the fitness, survival, expansion, and drug susceptibility of this pathogen is not well-understood. more...
Organism:
Klebsiella pneumoniae
Type:
Expression profiling by high throughput sequencing
Platform:
GPL28669
23 Samples
Download data: TXT
Series
Accession:
GSE249468
ID:
200249468
9.

Next Generation Sequencing Facilitates Quantitative Analysis of Klebsiella pneumoniae strain HKE9, HKE9-M-rpoS,HKE9-C-M-ropS

(Submitter supplied) Compared with HKE9, HKE9-M-rpoS (rpoS knockout in hypervirulent Klebsiella pneumoniae strain HKE9) had 624 genes expressed significantly different, among which 148 genes were significantly up-regulated and 476 genes were significantly down-regulated, 586 genes on chromosomes, 10 genes on circular plasmid and 28 genes on linear plasmid; HKE9-C-M-rpoS had 746 genes expressed significantly different, among which 286 genes were significantly up-regulated and 460 genes were significantly down-regulated, 727 genes on chromosomes, 11 genes on circular plasmid and 8 genes on linear plasmid. more...
Organism:
Klebsiella pneumoniae
Type:
Expression profiling by high throughput sequencing
Platform:
GPL28669
9 Samples
Download data: TXT
Series
Accession:
GSE224709
ID:
200224709
10.

Phage-Antibiotic Combinations Against Klebsiella pneumoniae

(Submitter supplied) hvKP ATCC43816 and its lytic phage H5 were employed as a phage-antibiotic combination model. Based on the comprehensive characterization of phages, including cryo-electron microscopy, we evaluated the synergic effect of H5 on bacterial killing in vitro when combined with multiple antibiotics, and analyzed the advantages of phage-antibiotic combinations from an evolutionary perspective and proposes a novel PAS mechanism by using ceftazidime as an example.
Organism:
Klebsiella pneumoniae subsp. pneumoniae
Type:
Expression profiling by high throughput sequencing
Platform:
GPL30661
15 Samples
Download data: TXT
Series
Accession:
GSE237490
ID:
200237490
11.

Differential gene expression between Kp209_CSTR and Kp209 by RNA-seq

(Submitter supplied) Determination of the effect of the mutation in PhoQ on global gene expression of Kp209
Organism:
Klebsiella pneumoniae
Type:
Expression profiling by high throughput sequencing
Platform:
GPL25165
6 Samples
Download data: XLSX
Series
Accession:
GSE212413
ID:
200212413
12.

Systematic interrogation of CRISPR-based antimicrobials in Klebsiella pneumoniae reveals nuclease-, guide-, and strain-specific factors influencing antimicrobial activity

(Submitter supplied) CRISPR-Cas systems can be utilized as programmable-spectrum antimicrobials to combat bacterial infections. However, how CRISPR nucleases perform as antimicrobials across target sites and strains remains poorly explored. Here, we address this knowledge gap by systematically interrogating the use of CRISPR antimicrobials against multidrug-resistant and hypervirulent strains of Klebsiella pneumoniae. Comparing different Cas nucleases, we found that AsCas12a exhibited robust targeting across different strains. more...
Organism:
Klebsiella pneumoniae; Escherichia coli
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL21222 GPL25165
20 Samples
Download data: TSV
Series
Accession:
GSE237136
ID:
200237136
13.

Use of a combined antibacterial synergy approach and the ANNOgesic tool to identify novel targets within the gene networks of multidrug-resistant Klebsiella pneumoniae

(Submitter supplied) To investigate of phenotypic effects of antibacterial synergy and gene expression analysis
Organism:
Klebsiella pneumoniae
Type:
Expression profiling by high throughput sequencing
Platform:
GPL32198
4 Samples
Download data: TXT
Series
Accession:
GSE233610
ID:
200233610
14.

Transcriptome analyses reveal antibiotic-resistant pathways in Klebsiella pneumonia

(Submitter supplied) The increasing antibiotic resistance of Klebsiella pneumoniae poses a serious threat to global public health. To investigate the antibiotic resistance mechanism of Klebsiella pneumonia, we performed gene expression profiling analysis using RNA-seq data for clinical isolates of Klebsiella pneumonia, KPN16 and ATCC13883. Our results showed that mutant strain KPN16 is likely to act against the antibiotics through increased increased butanoate metabolism and lipopolysaccharide biosynthesis, and decreased transmembrane transport activity.
Organism:
Klebsiella pneumoniae
Type:
Expression profiling by high throughput sequencing
Platform:
GPL28669
6 Samples
Download data: TXT
Series
Accession:
GSE229867
ID:
200229867
15.

Quantitative Transcriptomes Analysis of Wild Type and ompR mutant of K. pneumoniae ATCC43816 .

(Submitter supplied) Purpose: This study aims to compare the transcriptome profiling (RNA-seq) of ompR mutant to that of WT and to evaluate the transcrptional regulation of OmpR in K. pneumoniae.
Organism:
Klebsiella pneumoniae ATCC 43816
Type:
Expression profiling by high throughput sequencing
Platform:
GPL31955
4 Samples
Download data: XLS
Series
Accession:
GSE197039
ID:
200197039
16.

Bacterial droplet-based single-cell RNA-seq reveals antibiotic-associated heterogeneous cellular states

(Submitter supplied) In this study, we introduce BacDrop, a bacterial droplet-based high throughput scRNA-seq technology that can be applied to large cell numbers. We applied BacDrop to study Klebsiella pneumoniae clinical isolates and elucidated their critical, genome-wide heterogeneity in the absence and presence of antibiotic perturbations.
Organism:
Enterococcus faecalis; Escherichia coli; Pseudomonas aeruginosa; Klebsiella pneumoniae
Type:
Expression profiling by high throughput sequencing
5 related Platforms
35 Samples
Download data: TSV, TXT
Series
Accession:
GSE180237
ID:
200180237
17.

Genomic and Transcriptional Characterisation of Carbapenem and Colistin Resistance Mechanisms in Klebsiella pneumoniae

(Submitter supplied) The transcriptional, epigenomic, and genomic profiles of K. pneumoniae isolates were characterised to identify novel colistin and carbapenem resistance mechanisms. The genomic DNA and total RNA of the isolates were isolated and sequenced on PacBio.
Organism:
Enterobacter bugandensis; Enterobacter cloacae complex sp. R_G8; Enterobacter cloacae; Klebsiella pneumoniae; Acinetobacter baumannii; Enterobacter asburiae
Type:
Expression profiling by high throughput sequencing; Other
12 related Platforms
22 Samples
Download data: CSV, DIFF, GFF, PDF
Series
Accession:
GSE217148
ID:
200217148
18.

Subinhibitory Concentrations of Antibiotics Alter the Response of Klebsiella pneumoniae to Components of Innate Host Defense

(Submitter supplied) Carbapenem-resistant Klebsiella pneumoniae classified as multilocus sequence type 258 (ST258)are a problem in healthcare settings in many countries globally. ST258 isolates are resistant tomultiple classes of antibiotics and can cause life-threatening infections, such as pneumonia andsepsis, in susceptible individuals. Treatment strategies for such infections are limited. Hence,understanding the response of K. more...
Organism:
Klebsiella pneumoniae
Type:
Expression profiling by high throughput sequencing
Platform:
GPL32198
18 Samples
Download data: TXT
Series
Accession:
GSE201383
ID:
200201383
19.

Growth in a multispecies biofilm results in remodelling of central metabolism

(Submitter supplied) Multispecies biofilms are the predominant form of bacterial growth in natural and human-associated environments. Although the pathways involved in monospecies biofilm have been well characterized, less is known about the metabolic pathways and emergent traits of a multispecies biofilm community. Here, we performed a transcriptome survey of the developmental stages of a 3-species biofilm community and combined it with quantitative imaging and growth experiments. more...
Organism:
Pseudomonas aeruginosa PAO1; Klebsiella pneumoniae KP-1; Pseudomonas protegens Pf-5
Type:
Expression profiling by high throughput sequencing
4 related Platforms
48 Samples
Download data: TXT
Series
Accession:
GSE214543
ID:
200214543
20.

K. pneumoniae induced metabolic stress promotes immunotolerance

(Submitter supplied) Metabolites generated in response to infection have a major role in shaping the nature of the immune response. We predicted that the metabolic response to the highly prevalent Klebsiella pneumoniae sequence type 258 (Kp ST258) strains is responsible for their ability to persist in the lungs, despite the expected proinflammatory signaling evoked by LPS. By combining in situ metabolic imaging and comprehensive transcriptional analyses, we demonstrate that Kp ST258 activates host glutaminolysis and fatty acid oxidation (FAO), generating an oxidant-rich microenvironment predisposed to the accumulation of anti-inflammatory monocyte populations. more...
Organism:
Mus musculus; Klebsiella pneumoniae subsp. pneumoniae
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL30661 GPL30662 GPL24247
15 Samples
Download data: H5, TSV, TXT
Series
Accession:
GSE184563
ID:
200184563
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