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Pyrococcus furiosus DSM 3638

ABSTRACT: Transcriptome analysis of robustness against heat shock stress in the hyperthermophilic archaeon Pyrococcus furiosus

PROVIDER: PRJDB13268 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	DRR355548_1.fastq.gz	Fastqsanger.gz
	DRR355548_2.fastq.gz	Fastqsanger.gz
	DRR355549_1.fastq.gz	Fastqsanger.gz
	DRR355549_2.fastq.gz	Fastqsanger.gz
	DRR355550_1.fastq.gz	Fastqsanger.gz

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Heat and Cold Shock Response in Pyrococcus furiosus

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.

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Pyrococcus furiosus DSM 3638

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Pyrococcus furiosus DSM 3638 growth curve, tiling arrays

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Hyperthermophilic archaeon Pyrococcus furiosus response to hydrogen peroxide

Project description:Oxidative Stress Protection and the Repair Response To Hydrogen Peroxide in the Hyperthermophilic Archaeon Pyrococcus furiosus Pyrococcus furiosus is a shallow marine, anaerobic archaeon that grows optimally at 100°C. Addition of H2O2 (0.5 mM) to a growing culture resulted in cessation of growth with a 2 hour lag before normal growth resumed. Whole genome transcriptional profiling revealed that the main response occurs within 30 min of peroxide addition, with the up-regulation of 62 open reading frames (ORFs), 36 of which are part of 10 potential operons. More than half of the up-regulated ORFs are of unknown function while some others encode proteins that are involved potentially in sequestering iron and sulfide, in DNA repair and in generating NADPH. This response is thought to involve primarily damage repair rather than protection, since cultures exposed to sub-toxic levels of H2O2 were not more resistant to the subsequent addition of H2O2 (0.5 – 5.0 mM). Consequently, there is little if any induced protective response to peroxide, rather, the organism maintains a constitutive protective mechanism involving high levels of oxidoreductase-type enzymes such as superoxide reductase, rubrerythrin and alkyl hydroperoxide reductase I. The related hyperthermophiles P. woesei and Thermococcus kodakaraensis were more sensitive to peroxide than P. furiosus, apparently due to the lack of several of its peroxide-responsive ORFs.

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Pyrococcus furiosus

Project description:Microarray analysis of the hyperthermophilic archaeon Pyrococcus furiosus exposed to gamma irradiation

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Pyrococcus furiosus DSM 3638 growth curve, tiling arrays

Project description:Experimentally mapped transcriptome structure of Pyrococcus furiosus DSM 3638 by hybridizing total RNA (including RNA species <200 nt) to genome-wide high-density tiling arrays (60 mer probes tiled every 16 nt). Pyrococcus furiosus DSM 3638 growth curve experiments were conducted in batch culture. Reference samples were cultured at mid-log phase (OD600 = 0.096). Seven samples were collected that spanned the key phases of the growth curve. Total RNA from samples of growth curve and reference were directly labeled with Cy3 or Cy5, and were hybridized to the tiling array. Dye-flip experiments were done for each sample. Log ratios were calculated for each probe (growth curve sample/reference). Transcriptome browser is available at http://baliga.systemsbiology.net/enigma/.

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Pyrococcus furiosus psiRNAs

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RiboMeth-seq data from Pyrococcus furiosus

Project description:Semiconductor sequencing of alkaline degraded total RNA from Pyrococcus furiosus annotated for ”The 23S ribosomal RNA from Pyrococcus furiosus is circularly permuted” published in Frontiers in Microbiology”

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Pyrococcus furiosus

Project description:Insights into the Metabolism of Elemental Sulfur by the Hyperthermophilic Archaeon Pyrococcus furiosus

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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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