txid72407[Organism] - GEO DataSets

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Select item 2002607381.

RNA interactome profiling in hypervirulent Klebsiella pneumoniae reveals small RNA ArcZ as an inhibitor of mucoviscosity and virulence

(Submitter supplied) Hypervirulent Klebsiella pneumoniae (HvKP) is an emerging human pathogen causing invasive infection in immune-competent hosts. The hypervirulence is strongly linked to the overproduction of hypermucovisous capsule, but the underlining regulatory mechanism of hypermucoviscosity (HMV) has been elusive, especially at the post-transcriptional level mediated by small RNAs (sRNAs). Using a recently developed RNA interactome profiling approach, we have investigated the Hfq-associated sRNA regulatory network and established the first in vivo RNA-RNA interactome in HvKP. more...

Organism:: Klebsiella pneumoniae subsp. pneumoniae ATCC 43816

Type:: Expression profiling by high throughput sequencing

Platform:: GPL33764
14 Samples

Download data: TXT

Series

Accession:: GSE260738

ID:: 200260738

PubMed Full text in PMC Similar studies

Select item 2002432462.

RNA interactome profiling in hypervirulent Klebsiella pneumoniae

(Submitter supplied) To map the Hfq-mediated RNA regulatory network in HvKP, we harnessed the LiRIP-seq approach recently established in our lab, which enabled global profiling of RNA-RNA interactomes in live bacteria. Transformation of the pBAD-t4rnl1 plasmid into Klebsiella allowed us to express T4 RNA ligase 1 for proximity-ligation of RNAs in vivo, followed by co-immunoprecipitation (coIP) to enrich the Hfq-bound RNA transcripts (singleton reads) and ligated RNA fragments (chimeras: sRNA-mRNA, sRNA-sRNA, etc).

Organism:: Klebsiella pneumoniae subsp. pneumoniae ATCC 43816

Type:: Other

Platform:: GPL33764
6 Samples

Download data: TXT

Series

Accession:: GSE243246

ID:: 200243246

PubMed Full text in PMC Similar studies

Select item 2002446403.

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:: GPL33822 GPL33821
20 Samples

Download data

Series

Accession:: GSE244640

ID:: 200244640

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Select item 2002446394.

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

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Select item 2002446385.

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

Organism:: Klebsiella pneumoniae subsp. pneumoniae

Type:: Other

Platform:: GPL33822
4 Samples

Download data: XLSX

Series

Accession:: GSE244638

ID:: 200244638

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Select item 2002446356.

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

Organism:: Klebsiella pneumoniae subsp. pneumoniae

Type:: Other

Platform:: GPL33821
8 Samples

Download data: XLSX

Series

Accession:: GSE244635

ID:: 200244635

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Select item 2002374907.

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

Select item 2001845638.

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

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000246889.

Gene expression in Klebsiella pneumoniae

(Submitter supplied) Elucidating the RamA Regulon in Klebsiella pneumoniae and the transcriptome profiles of multidrug resistant Klebsiella pneumoniae

Organism:: Klebsiella pneumoniae; Klebsiella pneumoniae subsp. pneumoniae MGH 78578

Type:: Expression profiling by array

Platform:: GPL11049
30 Samples

Download data: TXT

Series

Accession:: GSE24688

ID:: 200024688

Analyze with GEO2R

Select item 20004001110.

Expression analysis of Klebsiella pneumoniae MGH 78578 and capsule deletion mutant

(Submitter supplied) To investigate the whole-genome gene expression difference between the wild-type and capsule deletion mutant in Klebsiella pneumoniae MGH 78578. The mutants analyzed in this study are further described in Huang T.W., Stapleton J.C., Chang H.Y., Tsai S.F., Palsson B.O., Charusanti P. Capsule removal via lambda-Red knockout system perturbs biofilm formation and fimbriae extression in Klesiella pneumoniae MGH 78578 (manuscript submission)

Organism:: Klebsiella pneumoniae subsp. pneumoniae MGH 78578

Type:: Expression profiling by array

Platform:: GPL15223
6 Samples

Download data: PAIR

Series

Accession:: GSE40011

ID:: 200040011

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20002944811.

Klebsiella pneumoniae: WT vs. Hfq mutant

(Submitter supplied) Transcriptional profiling of K. pneumoniae comparing the wild type strain (S5) with a hfq deletion mutant (H0201). Goal was to determine the effects of Hfq absence on global K. pneumoniae gene expression.

Organism:: Klebsiella pneumoniae subsp. pneumoniae NTUH-K2044; Klebsiella pneumoniae

Type:: Expression profiling by array

Platform:: GPL13638
1 Sample

Download data: TXT, XLS

Series

Accession:: GSE29448

ID:: 200029448

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20003605512.

Genome-wide gene expression and identification of RNA polymerase, RpoD, and RpoS binding sites in Klebsiella pneumoniae MGH 78578

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

Organism:: Klebsiella pneumoniae subsp. pneumoniae MGH 78578

Type:: Expression profiling by genome tiling array; Genome binding/occupancy profiling by genome tiling array

Platform:: GPL15252
15 Samples

Download data: CALLS, GFF, PAIR

Series

Accession:: GSE36055

ID:: 200036055

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20003592713.

Genome-wide identification of RNA polymerase, RpoD, and RpoS binding sites in Klebsiella pneumoniae MGH 78578

(Submitter supplied) Genome-wide identification of RNA polymerase (RNAP) binding sites were performed in Klebsiella pneumoniae MGH 78578 (KP). Anti-RNAP is used to capture the RNAP in KP. ChIP-chip was performed on tiling array specifically made for KP.

Organism:: Klebsiella pneumoniae subsp. pneumoniae MGH 78578

Type:: Genome binding/occupancy profiling by genome tiling array

Platform:: GPL15252
9 Samples

Download data: GFF, PAIR

Series

Accession:: GSE35927

ID:: 200035927

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20003592614.

Genome-wide gene expression analysis for Klebsiella pneumoniae MGH 78578

(Submitter supplied) Genome-wide gene expression analysis was performed with the cells in exponential and stationary growth phases. Through these two growth status, 89.6% of currently annotated genes were expressed.

Organism:: Klebsiella pneumoniae subsp. pneumoniae MGH 78578

Type:: Expression profiling by genome tiling array

Platform:: GPL15252
6 Samples

Download data: CALLS, GFF, PAIR

Series

Accession:: GSE35926

ID:: 200035926

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20003582215.

Comparative analysis of regulatory elements between Escherichia coli and Klebsiella pneumoniae by genome-wide transcription start site profiling

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

Organism:: Klebsiella pneumoniae subsp. pneumoniae MGH 78578; Klebsiella pneumoniae; Escherichia coli K-12

Type:: Expression profiling by array; Expression profiling by high throughput sequencing; Other

Platforms:: GPL15232 GPL15233 GPL15223
6 Samples

Download data: PAIR

Series

Accession:: GSE35822

ID:: 200035822

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20003574616.

Comparative analysis of regulatory elements between Escherichia coli and Klebsiella pneumoniae by genome-wide transcription start site profiling [tiling arrays]

(Submitter supplied) Investigation of whole genome gene expression level in Klebsiella pneumoniae MGH78578 grown up to mid-exponential phase in M9 minimal media supplemented with 0.2% glucose