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Genome-wide binding analysis of the transcriptional regulator TrmBL1 in Pyrococcus furiosus

ABSTRACT: Genome-wide binding analysis of the transcriptional regulator TrmBL1 in Pyrococcus furiosus

PROVIDER: PRJEB11398 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR1059380.fastq.gz	Fastqsanger.gz
	ERR1059381.fastq.gz	Fastqsanger.gz
	ERR1059382.fastq.gz	Fastqsanger.gz
	ERR1059383.fastq.gz	Fastqsanger.gz
	ERR1059384.fastq.gz	Fastqsanger.gz

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Genome-wide binding analysis of the transcriptional regulator TrmBL1 in Pyrococcus furiosus

Project description:The transcriptional regulator TrmBL1 from the hyperthermophilic euryarchaeon Pyrococcus furiosus functions as repressor as well as activator of genes encoding enzymes mainly involved in sugar uptake, glykolysis and gluconeogenesis. The aim of this study was to explore the genome-wide binding sites of TrmBL1 in Pyrococus furiosus by ChIP-seq in vivo. Two different growth conditions were tested. Pyrococcus furiosus was cultured on pyruvate to induce gluconeogenic growth and on starch to induce glycolytic growth.

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The transcriptional regulator TFB-RF1 activates transcription of a putative ABC transporter in Pyrococcus furiosus

Project description:Transcription factor B recruiting factor 1 (TFB-RF1; PF1088) is a transcription regulator which activates transcription on archaeal promoters containing weak TFB recognition elements (BRE) by recruiting TFB to the promoter. The mechanism of activation is described in detail, but nothing is known about the biological function of this protein in Pyrococcus furiosus. The protein is located in an operon structure together with the hypothetical gene pf1089 and the expression rates of both proteins are low under standard growth conditions. By introducing an additional copy of tfb-RF1 using a Pyrococcus shuttle vector we could circumvent the lacking expression and perform a ChIP-seq experiment. This revealed an additional binding site of TFB-RF1 in the upstream region of the pf1011/1012 operon, beside the expected target of the pf1089/tfb-RF1 region.

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Pyrococcus furiosus crRNAs associated with the Cas RAMP module complex

Project description:Analysis of CRISPR RNAs from both total Pyrococcus furiosus RNA and those that co-purify with the Cmr complex, which has been predicted to be involved in RNA-mediated targeting of foreign RNAs in prokaryotes. Small RNAs (20 - 70 nts) were isolated either from total Pyrococcus furiosus RNA or RNAs isolated from immunopurified Cmr complexes. The RNAs were cloned and sequenced using the Illumina platform. Results provide insight into the anatomy of Cmr2-associated CRISPR RNAs.

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Project description:We designed an experimental setup to investigate the transcriptomic and proteomic responses of the hyperthermophilic archaeon Pyrococcus furiosus to heat and cold shock. P. furiosus is a model organism for studying microbial adaptation to extreme environments, including deep-sea hydrothermal vents with temperature gradients ranging from 1°C to 400°C. We aimed to simulate critical conditions where P. furiosus cannot grow and to examine the immediate response to thermal stress as well as the recovery process.

2023-10-11 | PXD041262 | Pride

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