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Transcriptional responses of Escherichia coli k12 TPEN

ABSTRACT: DNA microarrays were conducted on E. coli K12 cells stressed with 10 μM in N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine (TPEN). Overall, 260 genes varied in expression, 114 up-regulated and 146 down-regulated by Zn deprivation Keywords: TPEN stress

ORGANISM(S): Escherichia coli

PROVIDER: GSE11303 | GEO | 2008/12/31

SECONDARY ACCESSION(S): PRJNA106611

REPOSITORIES: GEO

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Transcriptional responses of Escherichia coli k12 TPEN

Project description:DNA microarrays were conducted on E. coli K12 cells stressed with 10 μM in N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine (TPEN). Overall, 260 genes varied in expression, 114 up-regulated and 146 down-regulated by Zn deprivation Keywords: TPEN stress Array hybridizations were carried out for three RNA samples prepared from three independent cultures (control or TPEN-treated).

2008-12-31 | E-GEOD-11303 | biostudies-arrayexpress

Transcriptional response of E. coli to TPEN

Project description:DNA microarrays were used to probe the transcriptional response of E. coli to N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine (TPEN). Fifty-five transcripts were significantly up-regulated including all of the genes that are regulated by Zur and many genes regulated by Fur. In these same TPEN-treated cells, forty-six transcripts were significantly down-regulated. Keywords: E. coli, TPEN, zinc

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Transcriptomics of Mycobacterium tuberculosis exposed to zinc limitation, zinc depletion by calprotectin and TPEN, and zinc toxicity

Project description:The purpose of this study was to determine the transcriptomes of Mycobacterium tuberculosis m2 6206 (Mtb) exposed to varying concentration of zinc (Zn2+) in vitro that mimic the concentrations of Zn2+ experienced in vivo during infection. Mtb were grown in the chemically defined Sauton's medium without Zn2+ added until expression of Zur-regulated genes were observed, indicating the onset of Zn-limitation. Cells were then treated with with different concentrations of Zn2+ through addition of 500 uM Zn2+, 6uM Zn2+, no added Zn2+, 0.35 mg/mL recombinant calprotectin (CP) or 0.8 µM N,N,N′,N′-tetrakis(2-pyridinylmethyl)-1,2-ethanediamine (TPEN). After 24 hours of exposure to the different [Zn2+] conditions, RNA was harvested, prepared for RNA-seq, and sequenced on the Illumina HiSeq platform with a paired-end (2x150bp) configuration.

2021-04-21 | GSE168659 | GEO

Gene expression analysis of RNAs isolated from TPEN-untreated and TPEN-treated human keratinocytes

Project description:In order to identify the zinc responsive genes, we performed a gene expression microarray analysis for the RNAs isolated from TPEN-untreated and TPEN-treated human keratinocytes

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Transcriptional responses of V. parahaemolyticus to Zn limitation.

Project description:RNA sequencing analysis of the transcriptome of V. parahaemolyticus RIMD2210633 strain grown under Zn-deficient (LB pretreated with 35 μM TPEN) and Zn-replete conditions (LB pretreated with 35 μM TPEN along with 500 μM Zn).

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Effect of zinc chelator TPEN on gene expression of retinal ganglion cells during optic nerve injury

Project description:Retinal ganglion cells (RGCs) convey the major output of information collected from the eye to the brain. RGCs are irreversibly lost when injured in degenerative diseases such as glaucoma; this failure can be partially reversed by eliminating the retinal mobile zinc (Zn2+) and leads to substantial axon regeneration. Here, we conducted an mRNA sequencing of flow cytometry-isolated RGCs 3 days after optic nerve injury (NC) with or without TPEN treatment. We identified differentially expressed genes using a cutoff of at least 1.5-fold change and FDR of at least 0.05. We focused on the intersecting genes that were upregulated after NC and recovered in TPEN (TPEN/NC; fold change < -1.5; P < 0.05), namely, TPEN target genes.

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Escherichia coli

Project description:Transcriptional responses of Escherichia coli k12 TPEN

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miR-K12-9 expression and inhibition

Project description:Transcriptional profiling of BJAB cells expressing miR-K12-9 and BCBL cells treated with miR-K12-9 inhibitor. To identify host RNA targets of KSHV miRNAs, we took advantage of the observation that RNAs targeted by miRNAs often display small reductions in their steady-state levels, perhaps as a result of their impaired translation. Accordingly, we examined cellular transcript accumulation by array-based expression profiling under four sets of conditions in which KSHV miRNAs were expressed or inhibited.

2012-11-01 | GSE40093 | GEO

miR-K12-9 expression and inhibition

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Project description:Proteomics analysis in Escherichia coli K12 (E. coli K12) at DMP concentrations of 0 mg·kg-1 (CK) and 80 mg·kg-1 (DMP) revealed the toxicity of DMP

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