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Transcriptomic response of Dickeya dadantii to DNA relaxation by novobiocin

ABSTRACT: Transcriptomic response of Dickeya dadantii to DNA relaxation by novobiocin

PROVIDER: PRJEB31087 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR3139810_1.fastq.gz	Fastqsanger.gz
	ERR3139810_2.fastq.gz	Fastqsanger.gz
	ERR3139811_1.fastq.gz	Fastqsanger.gz
	ERR3139811_2.fastq.gz	Fastqsanger.gz
	ERR3139812_1.fastq.gz	Fastqsanger.gz

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Transcriptomic response of Dickeya dadantii to DNA relaxation by novobiocin

Project description:We analyze the transcriptomic response of the phytopathogenic enterobacterium Dickeya dadantii to a DNA supercoiling relaxation shock using the gyrase inhibitor novobiocin. The shock was applied to Dickeya cells grown in minimal medium supplemented with sucrose, in exponential or transition to stationary phase, and in minimal medium with sucrose + PGA (a pectin derivative) in transition to stationary phase.

2019-04-16 | E-MTAB-7650 | biostudies-arrayexpress

Transcriptomic response of Dickeya dadantii ihfA mutant to DNA relaxation by novobiocin

Project description:We analyze the transcriptomic response of the phytopathogenic enterobacterium Dickeya dadantii ihfA mutant to a DNA supercoiling relaxation shock using the gyrase inhibitor novobiocin. The shock was applied to Dickeya cells grown in minimal medium supplemented with sucrose, in exponential or transition to stationary phase, and in minimal medium with sucrose + PGA (a pectin derivative) in transition to stationary phase.

2021-02-10 | E-MTAB-9025 | biostudies-arrayexpress

Analysis of DNA relaxation in Dickeya dadantii wild type, fis and hns strains

Project description:We have analyzed the transcriptomes of Dickeya dadantii wild type, fis and hns strains in condition of DNA relaxation induced by novobiocin, a DNA gyrase inhibitor. For DNA relaxation novobiocin was added for 15 min to 100µg/ml final concentration to exponentially growing wild type, hns and fis strains (OD600= 0.2) grown in M63 medium supplemented by sucrose 0.2% (w/v). At this concentration, novobiocin has no impact on D. dadantii growth The micro-arrays used in this study were custom designed and produced by Roche NimbleGen, Inc. (Madison, WI) based on the annotated sequence of D. dadantii, available at Genbank accession number n° CP002038, which comprises 4597 CDS. The 4plex expression micro-arrays consist of 60-mer oligonucleotides, triplicated in three blocks on the array (5 oligonucleotides per CDS). For micro-array analyses, cDNA was synthesized, labeled and hybridized by Roche NimbleGen Inc.

2015-04-16 | E-MTAB-2597 | biostudies-arrayexpress

Transcriptomic response of Dickeya dadantii ihfA mutant to DNA relaxation by novobiocin

Project description:Transcriptomic response of Dickeya dadantii ihfA mutant to DNA relaxation by novobiocin

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Influence of NaCl on gene expression in Dickeya dadantii

Project description:Growth in 0.3 M NaCl M63 minimal medium affects the transcriptome of Dickeya dadantii 3937.in comparison to that of cells grown in M63 medium.

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Project description:We analyze the transcriptomic response of the phytopathogenic enterobacterium Dickeya dadantii to an increase of DNA supercoiling induced by seconeolitsine, a topoisomerase I inhibitor. The shock was applied to Dickeya cells grown in minimal medium supplemented with sucrose, in exponential or transition to stationary phase.

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2012-12-01 | GSE42585 | GEO

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