GEO DataSets

(Submitter supplied) Inosine 5’-monophosphate dehydrogenase (IMPDH) catalyzes the rate-limiting step in the de novo guanine biosynthesis and is conserved from humans to bacteria, where it is called GuaB. We developed a series of potent inhibitors that selectively target GuaB over its human homolog. Here we show that these GuaB inhibitors are bactericidal, generate phenotypic signatures that are distinct from other antibiotics, and elicit different time-kill kinetics and regulatory responses in two important gram-negative pathogens: Acinetobacter baumannii and Escherichia coli. more...

Organism:

Escherichia coli; Acinetobacter baumannii

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL22143 GPL21433

24 Samples

Download data: TXT

(Submitter supplied) Staphylococcus aureus (Sa) and Acinetobacter baumannii (Ab) are frequently co-isolated from polymicrobial infections that are severe and recalcitrant to therapy. Here, we apply a combination of wet-lab experiments and in silico modeling to unveil the intricate nature of the Ab/Sa interaction using both, representative laboratory strains and strains co-isolated from clinical samples. This comprehensive methodology allowed uncovering Sa's capability to exert a partial interference on Ab by the expression of phenol-soluble modulins. more...

Organism:

Staphylococcus aureus subsp. aureus USA300; Acinetobacter baumannii A118

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL34012 GPL29525

16 Samples

Download data: TXT, XLSX

(Submitter supplied) Petroleum hydrocarbons are recalcitrant contaminants, which has caused most serious environmental problems. Acinetobacter calcoaceticus Aca13 was isolated from petroleum polluted soil for petroleum biodegradation. Hexadecane and naphthalene were used to incubate with Acinetobacter calcoaceticus Aca13. After incubation, the whole transcriptome was obtained from treated groups and control groups, and then used for RNA sequence and analysis. more...

Organism:

Acinetobacter calcoaceticus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33521

9 Samples

Download data: TXT

(Submitter supplied) We perform RNA-seq comparing a treatment with 0.375 mM Kaempferol to a mock treatment (DMSO) in A. baumannii AB5075 in order to describe the alterations in global transcription produced by this phytochemical. A. baumannii AB5075 cultures were grown in LB medium in the presence of 0.375 mM Kaempferol or a DMSO control (3 biological replicates per condition) until reaching mid-exponential phase. At this point, cells were harvested, treated with RNAlater for preservation of total RNA and stored at -80 C. more...

Organism:

Acinetobacter baumannii AB5075

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32092

6 Samples

Download data: TSV

(Submitter supplied) Carbapenem-resistant Acinetobacter baumannii (CRAB) is a recognized nosocomial pathogen with limited therapeutics options. Lactic acid bacteria (LAB) constitute a promising therapeutic alternative. Here we aimed to study the antibacterial properties of a collection of LAB strains using phenotypic and transcriptomic analysis against A. baumannii clinical strains. One strain, Lacticaseibacillus rhamnosus CRL 2244, exerts a strong inhibitory capacity on A. more...

Organism:

Acinetobacter baumannii; Lacticaseibacillus rhamnosus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL28641 GPL33555

6 Samples

Download data: TXT

(Submitter supplied) We report the transcriptomic information of wild type (Lab-WT) A.baumannii 98-37-09 and A1S_3277 transposon mutant during the growth in human serum with 0.15 µg/mL levofloxacin

Organism:

Acinetobacter baumannii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28641

4 Samples

Download data: CSV, TXT

(Submitter supplied) Carbapenem-resistant Acinetobacter baumannii (CRAB) is a Priority 1 (Critical) pathogen urgently requiring new antibiotics. Polymyxins are a last-line option against CRAB-associated infections. This transcriptomic study utilized a CRAB strain to investigate mechanisms of bacterial killing with polymyxin B, colistin, colistin B and colistin/sulbactam combination therapy. After 4 h of 2 mg/L polymyxin monotherapy, all polymyxins exhibited common modes of action which primarily involved disruption to amino acid and fatty acid metabolism. more...

Organism:

Acinetobacter baumannii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28641

18 Samples

Download data: XLSX

(Submitter supplied) RNA sequencing transcriptomics was performed on a highly multidrug resistant A. baumannii strain belonging to international clone I, AB5075_UW and a transposon insertion inactivated mutant of ABUW_0182 (acmS), which encodes a hybrid histidine kinase.Transcriptomics suggests that AcmS controls expression of the genes involved in short-chain fatty acid metabolism in A. baumannii. Biophysical analyses showed ABUW_0182 binds acetic and propionic acid with affinities in a low micromolar range, suggesting they represent the physiological ligands for this hybrid histidine kinase system.

Organism:

Acinetobacter baumannii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23966

6 Samples

Download data: TXT, XLSX

(Submitter supplied) The trancriptomic changes in Acinetobacter baumannii after Sono-Fenton inactivation was reported. A total of 148 genes were significantly expressed after the treatment. The genes involved in stress related response were up-regulated while the genes responsible for vital cell functioning were down-regulated.

Organism:

Acinetobacter baumannii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30101

2 Samples

Download data: TXT

(Submitter supplied) Acinetobacter baumannii is a nosocomial Gram-negative pathogen that often displays multidrug-resistance due to its robust outer membrane and its ability to acquire and retain extracellular DNA. Moreover, it can survive for prolonged durations on surfaces and is resistant to desiccation. Discovering new antibiotics against A. baumannii has proven challenging through conventional screening approaches. more...

Organism:

Acinetobacter baumannii ATCC 17978

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33052

7 Samples

Download data: CSV, TSV

(Submitter supplied) RNA sequencing transcriptomics was performed on a highly multidrug resistant A. baumannii strain belonging to international clone I, AB5075_UW and a transposon insertion inactivated mutant of ABUW_1016 (cbl), which encodes a LysR-type transcriptional regulator.Transcriptomics suggests that Cbl controls expression of the genes involved in acquisition and reduction of various sulfur sources in A. baumannii.

Organism:

Acinetobacter baumannii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23966

6 Samples

Download data: TXT, XLSX

(Submitter supplied) Comparison for gene expression of Acinetobacter baumannii NCCP 16007 by evolved strains

Organism:

Acinetobacter baumannii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28641

3 Samples

Download data: XLSX

(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 cloacae; Klebsiella pneumoniae; Acinetobacter baumannii; Enterobacter asburiae; Enterobacter bugandensis; Enterobacter cloacae complex sp. R_G8

Type:

Expression profiling by high throughput sequencing; Other

12 related Platforms

22 Samples

Download data: CSV, DIFF, GFF, PDF

(Submitter supplied) We perform RNA-seq comparing a treatment with 1.33% acesulfame K to a mock treatment in A. baumannii AB5075 in order to describe the alterations in global transcription produced by this artificial sweetener. A. baumannii AB5075 cultures were grown in LB medium in the presence of 1.33% acesulfame K or a water control (3 biological replicates per condition) until reaching mid-exponential phase. At this point, cells were harvested, treated with RNAlate for preservation of total RNA and stored at -80 C. more...

Organism:

Acinetobacter baumannii AB5075

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32092

6 Samples

Download data: TSV

(Submitter supplied) Ability to redirect limiting cellular resources accurately is key to bacteria for surviving in harsh environments that they often encounter during their lifetime. DksA, a transcriptional initiating factor, plays critical roles in regulating stress responses and antibiotic tolerance. Acinetobacter baumannii has become a major healthcare threat and responsible for both nosocomial and community acquired deadly infections worldwide. more...

Organism:

Acinetobacter baumannii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28641

24 Samples

Download data: TSV

(Submitter supplied) The goals of this study are to use Next-generation sequencing (NGS)to detect bacterial mRNA profiles of E. coli K-12 LE392, P. putida KT2440 and Acinetobacter baylyi ADP1 in response to various antidepressant concentrations for 2 h, in triplicate, using Illumina HiSeq 2500.The NGS QC toolkit (version 2.3.3) was used to treat the raw sequence reads to trim the 3’-end residual adaptors and primers, and the ambiguous characters in the reads were removed. more...

Organism:

Pseudomonas putida; Acinetobacter baylyi; Escherichia coli

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30502

24 Samples

Download data: XLS

(Submitter supplied) Cefiderocol (CFDC) is a novel chlorocatechol-substituted siderophore approved to treat complicated urinary tract infections and for hospital-acquired and ventilator-acquired pneumonia. In previous work, human fluids, were shown to increase the minimum inhibitory concentration (MICs) of Acinetobacter baumannii against CFDC and reduce the expression of genes related to iron uptake systems, which could explain the need for higher concentrations of CFDC to exert inhibitory action. more...

Organism:

Acinetobacter baumannii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28641

12 Samples

Download data: TXT

(Submitter supplied) We report transcriptome sequencing analysis on A. baumannii strain ATCC 17978 cultures treated with or without meropnem at 0.5, 3 and 9 h, in triplicate.

Organism:

Acinetobacter baumannii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL31042

18 Samples

Download data: TXT

(Submitter supplied) We performed RNA sequencing analysis with differential expression analysis to compare the expression of genes between A. baumannii 17978 wildtype strain grown in the light and the dark. The purpose was to determine any genes whose expression was mediated by light at 37ºC, a temperature at which the currently best studied photoreceptor for A. baumannii BlsA, is unfunctional.

Organism:

Acinetobacter baumannii ATCC 17978

Type:

Expression profiling by high throughput sequencing

Platform:

GPL31244

6 Samples

Download data: TXT

(Submitter supplied) We apply RNAseq of mutant and wild-type strains to study the role of peptidoglycan-associated lipoprotein in A. baumanni.

Organism:

Acinetobacter baumannii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30101

6 Samples

Download data: TXT