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The TroR transcription factor regulates iron homeostasis in the halophilic archaeon Haloferax volcanii [RNA-Seq]

ABSTRACT: The TroR transcription factor regulates iron homeostasis in the halophilic archaeon Haloferax volcanii [RNA-Seq]

PROVIDER: PRJNA1004320 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR25604736.fastq.gz	Fastqsanger.gz
	SRR25604737.fastq.gz	Fastqsanger.gz
	SRR25604738.fastq.gz	Fastqsanger.gz
	SRR25604739.fastq.gz	Fastqsanger.gz
	SRR25604740.fastq.gz	Fastqsanger.gz

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The TroR transcription factor regulates iron homeostasis in the halophilic archaeon Haloferax volcanii [RNA-Seq]

Project description:Iron is essential for almost all organisms, but can be toxic in excess. Cells use regulatory mechanisms to control the iron uptake, iron utilization and iron release mechanisms to ensure the availability of enough iron to be used for biological processess but minimizing the oxidative stress caused by the oxidation of free molecules of iron. In this paper we show that TroR is a transcription factor from the conserved family of proteins DtxR that works as the major regulator of iron homeostasis in the halophilic archaeon Haloferax volcanii.

2023-11-16 | GSE240621 | GEO

The TroR transcription factor genome-wide binding analysis in the halophilic archaeon Haloferax volcanii [ChIP-Seq]

Project description:Iron is essential for almost all organisms, but can be toxic in excess. Cells use regulatory mechanisms to control the iron uptake, iron utilization and iron release mechanisms to ensure the availability of enough iron to be used for biological processess but minimizing the oxidative stress caused by the oxidation of free molecules of iron. In this paper we show that TroR is a transcription factor from the conserved family of proteins DtxR that directly binds the promoter of a set of genes involved in iron homeostasis meanwhile SirR is not a major regulator of iron homeostasis in the halophilic archaeon Haloferax volcanii.

2023-11-16 | GSE240518 | GEO

The TroR transcription factor regulates iron homeostasis in the halophilic archaeon Haloferax volcanii

Project description:The TroR transcription factor regulates iron homeostasis in the halophilic archaeon Haloferax volcanii

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Response of Haloferax volcanii to low-iron stress

Project description:We analyzed the response of the haloarchaeal model organism Haloferax volcanii to low iron stress on the proteome level by label-free mass spectrometry. Cells grown in minimal medium with normal iron levels were compared to those grown under low iron conditions. We separated the samples into soluble and membrane fraction to focus specifically on import/export processes which are frequently associated with metal uptake. Using a comprehensive annotated spectral library and data-independent acquisition mass spectrometry, we identified significant changes to both the membrane and the soluble proteomes of Haloferax volcanii under iron starvation.

2024-08-04 | PXD029036 | Pride

Revealing the small proteome of Haloferax volcanii by ribosome profiling and small-protein optimised mass spectrometry

Project description:We present a combinatorial approach, integrating experimental data from small protein-optimized mass spectrometry (MS) and ribosome profiling (Ribo-seq), to generate a high confidence inventory of small proteins in the model archaeon Haloferax volcanii.

2023-01-18 | GSE208086 | GEO

Regulated Iron Siderophore Production of the Halophilic Archaeon Haloferax volcanii.

Project description:Iron is part of many redox and other enzymes and, thus, it is essential for all living beings. Many oxic environments have extremely low concentrations of free iron. Therefore, many prokaryotic species evolved siderophores, i.e., small organic molecules that complex Fe3+ with very high affinity. Siderophores of bacteria are intensely studied, in contrast to those of archaea. The haloarchaeon Haloferax volcanii contains a gene cluster that putatively encodes siderophore biosynthesis genes, including four iron uptake chelate (iuc) genes. Underscoring this hypothesis, Northern blot analyses revealed that a hexacistronic transcript is generated that is highly induced under iron starvation. A quadruple iuc deletion mutant was generated, which had a growth defect solely at very low concentrations of Fe3+, not Fe2+. Two experimental approaches showed that the wild type produced and exported an Fe3+-specific siderophore under low iron concentrations, in contrast to the iuc deletion mutant. Bioinformatic analyses revealed that haloarchaea obtained the gene cluster by lateral transfer from bacteria and enabled the prediction of enzymatic functions of all six gene products. Notably, a biosynthetic pathway is proposed that starts with aspartic acid, uses several group donors and citrate, and leads to the hydroxamate siderophore Schizokinen.

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Evolution of genome architecture in Archaea: spontaneous generation of a new chromosome in Haloferax volcanii by homologous recombination

Project description:Eukaryotic genomes typically consist of multiple (linear) chromosomes that are replicated from multiple origins. Several hypothetical scenarios have been proposed to account for the evolution of multi-origin/multi-chromosome genomes, which are encountered in modern eukaryotes and archaea. Here we report an example of the generation of a new chromosome in the halophilic archaeon Haloferax volcanii through one of these scenarios: acquisition of new replication origins and splitting of an ancestral chromosome into two replication-competent chromosomes. The multi-origin main chromosome has split into two genome elements via homologous recombination. The newly generated elements possess all the features of bona fide chromosomes. To our knowledge, the spontaneous generation of a new chromosome in prokaryotes without horizontal gene transfer has not been reported previously.

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