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RNA-seq of Acinetobacter baumannii ATCC 17978: deleted effects of dna adenine methylase

ABSTRACT: Comparison for gene expression of Acinetobacter baumannii ATCC 17978 by deleted effects of dna adenine methylase

ORGANISM(S): Acinetobacter baumannii ATCC 17978

PROVIDER: GSE195621 | GEO | 2022/01/31

REPOSITORIES: GEO

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The primary transcriptome of Acinetobacter baumannii ATCC 17978

Project description:Transcriptomics by RNA-seq provides unparalleled insight into bacterial gene expression networks, enabling a deeper understanding of the regulation of pathogenicity, mechanisms of antimicrobial resistance, metabolism, and other cellular processes. Here we present the transcriptome architecture of Acinetobacter baumannii ATCC 17978, a species emerging as a leading cause of antimicrobial resistant nosocomial infections. Differential RNA-seq (dRNA-seq) examination of model strain ATCC 17978 in 16 laboratory conditions identified 3731 transcriptional start sites (TSS), and 110 small RNAs, including the first identification of 22 sRNA encoded at the 3′ end of mRNA.

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Comparative transcriptional analysis of Acinetobacter baumannii strain ATCC 17978 and strain 17978hm

Project description:In this study the transcriptomes of Acinetobacter baumannii strains ATCC 17978 and 17978hm were compared. Strain 17978hm is a hns knockout derivative of strain ATCC 17978. Strain 17978hm displays a hyper-motile phenotype on semi-solid Mueller-Hinton (MH) media (0.25% agar). ATCC 17978 and 17978hm from an 37C overnight culture were transferred to the centre of the semi-solid MH plate and incubated at 37C for 8 hours. Only 17978hm cells displayed a motile phenotype and covered the complete surface of the plate. These motile 17978hm cells and the non-motile wild-type ATCC 17978 cells were harvested and RNA was isolated. The comparative transcriptome analysis was performed using the FairPlay labeling kit and a custom made Agilent MicroArray with probes designed to coding regions of the ATCC 17978 genome. The data was analyzed using Agilent GeneSpring GX9 and the significance analysis of microarray MS Excel add-on. The motile 17978hm cells and the non-motile wild-type ATCC 17978 cells were harvested and RNA was isolated. The comparative transcriptome analysis was performedThe probes on the microarray cover all predicted open reading frames (at least 4 per ORF) and additional replicates of housekeeping genes of the A. baumannii ATCC 17978 genome .

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RNA-Seq of Acinetobacter baumannii ATCC 17978 and a gene knockout strain of putative response regulator gene A1S_2006 from the ATCC 17978 background

Project description:The putative response regulator gene A1S_2006 of Acinetobacter baumannii ATCC 17978 was knocked out using a homologous recombination method to assess the effects of that gene knockout in a global transcriptome landscape. This was done with an objective to better understand the cellular processes that are regulated by the response regulator protein encoded by A1S_2006 gene.

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Comparative transcriptional analysis of Acinetobacter baumannii strain ATCC 17978 and strain 17978hm

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Transcriptional responses of Acinetobacter baumannii ATCC 17978 to limiting iron availability

Project description:A. baumannii ATCC 17978 cells were incubated under iron replete (mueller-hinton) and iron limiting (MH + 200 ÂµM 2,2'-dipyridyl) conditions, total RNA was extracted when cultures reached OD600=0.7. The probes on the microarray cover all predicted open reading frames (at least 4 per ORF) and additional replicates of housekeeping genes of the A. baumannii ATCC 17978 genome

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Acinetobacter baumannii ATCC 17978 Transcriptome Sequencing 37ºC Light/Dark

Project description: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.

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Expression Data from Acinetobacter baumannii strain ATCC 17978 and isogenic lpsB mutant cells

Project description:lpsB encodes a glycosyltransferase involved in lipopolysaccharide (LPS) synthesis. LPS is a major component of the Gram-negative bacterial outer membranes. We used custom-made Affymetrix A. baumannii strain ATCC 17978 derived GeneChips to compare the gene expression properties of wild type and isogenic lpsB mutant cells. Two mutants were evaluated; A. baumannii strain 5A7 is a ATCC 17978 derivative harboring a transposon (Tn5) within lpsB (A1S_0430 locus); A. baumannii strain containing a deletion of lpsB (A1S_0430). A. baumannii strain ATCC 17978, 5A7 (lpsB:Tn5) or IH1∆lpsB (∆lpsB) were grown to mid-exponential phase growth, total bacterial RNA was isolated and subjected to GeneChip hybridization and analysis. We sought to determine the transcription profile of lpsB mutated cells.

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RNA-seq of Acinetobacter baumannii ATCC 17978 Lab-WT: under blue light

Project description:Comparison for gene expression of Acinetobacter baumannii Lab-WT under blue light irradiation

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