U.S. flag

An official website of the United States government

Format
Items per page
Sort by

Send to:

Choose Destination

Search results

Items: 1 to 20 of 180

1.

Generation of Ionic Liquid Tolerant Pseudomonas putida KT2440 Strains via Adaptive Laboratory Evolution

(Submitter supplied) Transcriptome of the wildtype or evolved Pseudomonas putida KT2440
Organism:
Pseudomonas putida KT2440
Type:
Expression profiling by high throughput sequencing
Platform:
GPL28478
16 Samples
Download data: CSV
Series
Accession:
GSE149827
ID:
200149827
2.

Analysis of Pseudomonas putida growth on non-trivial carbon sources using transcriptomics and genome-scale modeling

(Submitter supplied) Pseudomonas putida is characterized by a versatile metabolism and stress tolerance traits that allow the bacterium to cope with different environmental conditions. In this work, the mechanisms that allow P. putida KT2440 to grow in the presence of four sole carbon sources (glucose, citrate, ferulic acid, serine) were investigated by RNA sequencing (RNA-seq) and genome-scale metabolic modeling. Transcriptomic data identified uptake systems for the four carbon sources, and candidates were subjected to preliminary experimental characterization by mutant strain growth to test their involvement in substrate assimilation. more...
Organism:
Pseudomonas putida KT2440
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17091
12 Samples
Download data: TXT
Series
Accession:
GSE118554
ID:
200118554
3.

Iron acquisition system and cell shape of host bacteria commonly respond to the carriage of three plasmids belonging to different incompatibility groups.

(Submitter supplied) Plasmids are one of the important mobile genetic elements in bacterial evolution. In this study, to evaluate the generality of the impact of plasmid carriage on host cell between different plasmids, we compared the response of Pseudomonas putida KT2440 to harboring three natural plasmids; RP4 (IncP-1, multidrug resistance, 60,099-bp), pCAR1 (IncP-7, carbazole-degradative, 200,231-bp) and NAH7 (IncP-9, naphthalene-degradative, 82,232-bp). more...
Organism:
Pseudomonas putida; Pseudomonas putida KT2440
Type:
Expression profiling by genome tiling array
Platform:
GPL8296
32 Samples
Download data: BAR, CEL
Series
Accession:
GSE110733
ID:
200110733
4.

Global transcriptional response of solvent-sensitive and solvent-tolerant Pseudomonas putida strains exposed to toluene

(Submitter supplied) We report the application of a high-throughput technique, RNA-seq, to study the transcriptomic response of P. putida KT2440 and DOT-T1E in the presence of toluene with the aim to study in more detail the mechanisms involved in toluene response in a toluene-sensitive and a toluene-tolerant strains.
Organism:
Pseudomonas putida DOT-T1E; Pseudomonas putida KT2440
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL17091 GPL18568
12 Samples
Download data: TXT
Series
Accession:
GSE86321
ID:
200086321
5.

Divalent cations promote the transfer of the IncP-7 plasmid pCAR1 among different Pseudomonas hosts

(Submitter supplied) An incompatibility P-7 plasmid pCAR1 can be efficiently transferred among artificial microcosms in the presence of divalent cations Ca2+ and Mg2+. One on one mating assays between Pseudomonas strains with different plasmids showed that the promotion of transfer efficiency by divalent cations was also found in other plasmids including pB10 and NAH7, whereas the impacts were larger in IncP-7 plasmids. more...
Organism:
Pseudomonas; Pseudomonas fluorescens Pf0-1; Pseudomonas putida KT2440
Type:
Expression profiling by genome tiling array
Platforms:
GPL8298 GPL8296 GPL6591
24 Samples
Download data: BAR, CEL
Series
Accession:
GSE97565
ID:
200097565
6.

Global transcriptional responses to osmotic, oxidative, and imipenem stress conditions in Pseudomonas putida

(Submitter supplied) Bacteria cope with and adapt to stress by modulating gene expression in response to specific environmental cues. In this study the transcriptional response of Pseudomonas putida KT2440 to oxidative, osmotic, and membrane stress conditions at two time points was investigated via identification of differentially expressed mRNAs and sRNAs. A total of 440 small RNA transcripts were detected, where 10% correspond to previously annotated sRNAs, 40% are novel intergenic transcripts and 50% are novel transcripts antisense to annotated genes. more...
Organism:
Pseudomonas putida KT2440
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17091
21 Samples
Download data: TXT, XLSX
Series
Accession:
GSE85475
ID:
200085475
7.

The genome-wide transcriptional response to light in Pseudomonas putida KT2440

(Submitter supplied) Pseudomonas putida KT2440 encodes 3 homologs of the LitR/CarH family (designated PplR1–PplR3; Pseudomonas putida light-induced transcription; regulator), which is an adenosyl B12-dependent light-sensitive MerR family transcriptional regulator. Transcriptome and individual transcriptional analysis revealed the existence of a number of photo-inducible genes including pplR1, phrB (encoding DNA photolyase), cfaA (cyclopropane synthase), folE (GTP cyclohydrolase I), cryB (cryptochrome-like protein), and multiple hypothetical genes. more...
Organism:
Pseudomonas putida KT2440; Pseudomonas putida
Type:
Expression profiling by genome tiling array
Platform:
GPL8296
2 Samples
Download data: BAR, BPMAP, CEL
Series
Accession:
GSE87863
ID:
200087863
8.

MvaT family proteins encoded on IncP-7 plasmid pCAR1 and the host chromosome regulate host transcriptome cooperatively but differently

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Pseudomonas; Pseudomonas putida; Pseudomonas putida KT2440
Type:
Expression profiling by genome tiling array; Genome binding/occupancy profiling by genome tiling array
Platforms:
GPL8296 GPL6591
18 Samples
Download data: BAR, CEL
Series
Accession:
GSE72639
ID:
200072639
9.

MvaT family proteins encoded on IncP-7 plasmid pCAR1 and the host chromosome regulate host transcriptome cooperatively but differently (KT2440)

(Submitter supplied) MvaT proteins are recognized as a member of H-NS family proteins in pseudomonads. IncP-7 conjugative plasmid pCAR1, which was originally found in Pseudomonas resinovorans, carries an mvaT homologous gene, pmr. In Pseudomonas putida KT2440 bearing pCAR1, it was previously reported that pmr and chromosomally-encoded homologous genes, turA and turB, are majorly transcribed, and that Pmr interacts with TurA and TurB in vitro (Yun et al. more...
Organism:
Pseudomonas putida KT2440; Pseudomonas putida
Type:
Expression profiling by genome tiling array; Genome binding/occupancy profiling by genome tiling array
Platform:
GPL8296
9 Samples
Download data: BAR, CEL
Series
Accession:
GSE72637
ID:
200072637
10.

The Crc/CrcZ-CrcY global regulatory system helps integrating gluconeogenic and glycolytic metabolism in Pseudomonas putida

(Submitter supplied) In metabolically versatile bacteria, carbon catabolite repression (CCR) facilitates the preferential assimilation of the most efficient carbon sources, improving growth rate and fitness. In Pseudomonas putida, the Crc protein and the CrcZ and CrcY small RNAs (sRNAs), which are believed to antagonise Crc, are key players in CCR. Contrary to what occurs in other bacterial species, succinate or glucose elicit a weak CCR in this bacterium. more...
Organism:
Pseudomonas putida KT2440
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17091
6 Samples
Download data: TXT
Series
Accession:
GSE63987
ID:
200063987
11.

Effects of carbazole-degradative plasmid pCAR1 on biofilm morphology in three Pseudomonas strains.

(Submitter supplied) To elucidate the impact of the carriage of carbazole-degradative plasmid pCAR1 on biofilm formation by host bacteria, we compared biofilm morphology of pCAR1-free and pCAR1-carrying three Pseudomonas hosts: P. putida KT2440, P. aeruginosa PAO1 and P. fluorescens Pf0-1 using confocal laser scanning microscopy. Although pCAR1 carriage had no significant influence on biofilm formed by PAO1 and Pf0-1, pCAR1-carrying KT2440 became filamentous and formed flat biofilm, whereas pCAR1-free KT2440 formed mushroom-like biofilm. more...
Organism:
Pseudomonas putida KT2440; Pseudomonas; Pseudomonas putida
Type:
Expression profiling by genome tiling array
Platforms:
GPL8296 GPL6591
7 Samples
Download data: BAR, BPMAP, CEL
Series
Accession:
GSE56856
ID:
200056856
12.

Expression data from Pseudomonas putida KT2440: Fuelling the central metabolism with aromatic compounds

(Submitter supplied) We used Progenika oligonucleotide arrays to monitore the gene expression of P. putida during carbon source stimulus experiments.
Organism:
Pseudomonas putida KT2440
Type:
Expression profiling by array
Platform:
GPL10933
50 Samples
Download data: TXT
Series
Accession:
GSE26785
ID:
200026785
13.

Cooperative function of the three different kinds of nucleoid-associated proteins encoded on the IncP-7 plasmid pCAR1

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Pseudomonas; Pseudomonas putida; Pseudomonas putida KT2440
Type:
Expression profiling by genome tiling array
Platforms:
GPL8296 GPL6591
12 Samples
Download data: BAR, CEL, TXT
Series
Accession:
GSE53069
ID:
200053069
14.

Cooperative function of the three different kinds of nucleoid-associated proteins encoded on the IncP-7 plasmid pCAR1 [KT2440 chromosome chip]

(Submitter supplied) Nucleoid-associated proteins (NAPs) are known to fold bacterial DNA and influence global transcription. Incompatibility P-7 plasmid pCAR1 carries three genes encoding NAPs: H-NS family protein Pmr, NdpA-like protein Pnd, and HU-like protein Phu. Because previous reports about plasmid-encoded NAPs mainly focused on H-NS homologs, functions and importance of different kinds of NAPs encoded on a plasmid remained unknown. more...
Organism:
Pseudomonas putida KT2440; Pseudomonas putida
Type:
Expression profiling by genome tiling array
Platform:
GPL8296
6 Samples
Download data: BAR, CEL, TXT
Series
Accession:
GSE53067
ID:
200053067
15.

The glycolytic and gluconeogenic transcriptome of Pseudomonas putida KT2440

(Submitter supplied) Pseudomonas putida KT2440 is a metabolically versatile soil bacterium useful both as a model biodegradative organism and as a host of catalytic activities of biotechnological interest. In this report, we present the high-resolution transcriptome of P. putida grown in different carbon sources as revealed by deep sequencing of the corresponding RNA pools. Examination of the data from growth on glycolytic (glucose, fructose) and gluconeogenic (succinate or glycerol) substrates revealed that > 20% of the P. more...
Organism:
Pseudomonas putida KT2440
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17091
4 Samples
Download data: TXT
Series
Accession:
GSE46491
ID:
200046491
16.

Production of cis, cis-muconate from benzoate at high rate and yield by a mutant of P. putida KT2440

(Submitter supplied) P. putida KT2440-JD1 was derived from P. putida KT2440 after NTG-mutagenesis and exposure to 3-fluorobenzoate. The strain was no longer able to grow with benzoate as a single source of carbon and energy. Instead, benzoate was co-metabolized to cis, cis-muconate, which accumulated in the culture medium while grown on glucose. During continuous cultivations with glucose as a growth substrate, benzoate was co-metabolized to cis, cis-muconate with a molar product yield (Y(P/S)) of 0.88 ±0.01 mol cis, cis-muconate/ mol benzoate and a specific production rate (qpm) of 0.18 ±0.03 g cis, cis-muconate/ (gDCW* h). more...
Organism:
Pseudomonas putida; Pseudomonas putida KT2440
Type:
Expression profiling by array
Platform:
GPL11207
8 Samples
Download data: CEL
Series
Accession:
GSE25329
ID:
200025329
17.

Modulation of primary cell function of host Pseudomonas bacteria by conjugative plasmid pCAR1

(Submitter supplied) Impacts of plasmid carriage on its host cell were comprehensively analyzed using conjugative plasmid pCAR1 in the three different kinds of hosts, Pseudomonas putida KT2440, P. aeruginosa PAO1, and P. fluorescens Pf0-1. Various analyses of the host phenotype showed that pCAR1 carriage reduced host fitness, swimming motility, and resistances to osmotic- or pH-stress, and brought about the alterations of primary metabolic capacities in the TCA cycle or those several steps away from the TCA cycle in the host cells. more...
Organism:
Pseudomonas aeruginosa; Pseudomonas putida KT2440; Pseudomonas fluorescens Pf0-1; Pseudomonas aeruginosa PAO1; Pseudomonas; Pseudomonas fluorescens; Pseudomonas putida
Type:
Expression profiling by genome tiling array
4 related Platforms
36 Samples
Download data: BAR, CEL
Series
Accession:
GSE39636
ID:
200039636
18.

Pseudomonas putida KT2440: Control vs. indole 1mM treated

(Submitter supplied) Transcriptional profiling of P. putida KT2440 cells comparing control untreated cells with 1 mM indole treated cells
Organism:
Pseudomonas putida; Pseudomonas putida KT2440
Type:
Expression profiling by array
Platform:
GPL10799
2 Samples
Download data: GPR
Series
Accession:
GSE41254
ID:
200041254
19.

Pseudomonas putida KT2440 cells: control vs. 2,4-dihydroxy-7-methoxy-1,4-benzoxazin-3-one (DIMBOA)

(Submitter supplied) Transcriptome profiling of Pseudomonas putida KT2440 comparing cells exposed for 1 hour to DIMBOA from maize (Zea mays) to unexposed cells
Organism:
Pseudomonas putida KT2440
Type:
Expression profiling by array
Platform:
GPL15347
3 Samples
Download data: MEV
Series
Accession:
GSE36489
ID:
200036489
20.

Pseudomonas putida KT2440 : Control vs. recG gene mutant with untreated or paraquat (PQ) treated

(Submitter supplied) Transcriptional profiling of P. putida KT2440 cells comparing control untreated wild type cells with untreated recG gene mutant cells or PQ treated recG gene mutant cells
Organism:
Pseudomonas putida KT2440; Pseudomonas putida
Type:
Expression profiling by array
Platform:
GPL10799
4 Samples
Download data: GPR
Series
Accession:
GSE34410
ID:
200034410
Format
Items per page
Sort by

Send to:

Choose Destination

Supplemental Content

db=gds|term=txid160488[orgn]%20AND%20%22strain%20KT2440%22[All%20Fields]|query=1|qty=9|blobid=MCID_666c9859909a3d46ad98891b|ismultiple=true|min_list=5|max_list=20|def_tree=20|def_list=|def_view=|url=/Taxonomy/backend/subset.cgi?|trace_url=/stat?
   Taxonomic Groups  [List]
Tree placeholder
    Top Organisms  [Tree]

Find related data

Search details

See more...

Recent activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...
Support Center