Dataset Information

Thermus thermophilus HB27 WT vs HB27Δago RNAseq

ABSTRACT: raw RNAseq data from mid-log phase Thermus thermophilus HB27 WT and HB27Δago RNA Biological triplicates for each strain

OTHER RELATED OMICS DATASETS IN: PRJNA229953

ORGANISM(S): Thermus thermophilus HB8

SUBMITTER: daan christianus swarts J VanderOost E R Westra D C Swarts

PROVIDER: E-GEOD-52738 | ArrayExpress | 2014-02-17

SECONDARY ACCESSION(S): SRP033332GSE52738PRJNA229953

REPOSITORIES: GEO, ArrayExpress, ENA

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Dataset's files

Source:

			Action	DRS
	E-GEOD-52738.additional.1.zip	Other
	E-GEOD-52738.idf.txt	Idf
	E-GEOD-52738.sdrf.txt	Txt

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Publications

DNA-guided DNA interference by a prokaryotic Argonaute.

Swarts Daan C DC Jore Matthijs M MM Westra Edze R ER Zhu Yifan Y Janssen Jorijn H JH Snijders Ambrosius P AP Wang Yanli Y Patel Dinshaw J DJ Berenguer José J Brouns Stan J J SJJ van der Oost John J

Nature 20140216 7491

RNA interference is widely distributed in eukaryotes and has a variety of functions, including antiviral defence and gene regulation. All RNA interference pathways use small single-stranded RNA (ssRNA) molecules that guide proteins of the Argonaute (Ago) family to complementary ssRNA targets: RNA-guided RNA interference. The role of prokaryotic Ago variants has remained elusive, although bioinformatics analysis has suggested their involvement in host defence. Here we demonstrate that Ago of the ...[more]

PMID: 24531762

Similar Datasets

Project description:BACKGROUND: Many strains of Thermus have been isolated from hot environments around the world. Thermus scotoductus SA-01 was isolated from fissure water collected 3.2 km below surface in a South African gold mine. The isolate is capable of dissimilatory iron reduction, growth with oxygen and nitrate as terminal electron acceptors and the ability to reduce a variety of metal ions, including gold, chromate and uranium, was demonstrated. The genomes from two different Thermus thermophilus strains have been completed. This paper represents the completed genome from a second Thermus species - T. scotoductus. RESULTS: The genome of Thermus scotoductus SA-01 consists of a chromosome of 2,346,803 bp and a small plasmid which, together are about 11% larger than the Thermus thermophilus genomes. The T. thermophilus megaplasmid genes are part of the T. scotoductus chromosome and extensive rearrangement, deletion of nonessential genes and acquisition of gene islands have occurred, leading to a loss of synteny between the chromosomes of T. scotoductus and T. thermophilus. At least nine large inserts of which seven were identified as alien, were found, the most remarkable being a denitrification cluster and two operons relating to the metabolism of phenolics which appear to have been acquired from Meiothermus ruber. The majority of acquired genes are from closely related species of the Deinococcus-Thermus group, and many of the remaining genes are from microorganisms with a thermophilic or hyperthermophilic lifestyle. The natural competence of Thermus scotoductus was confirmed experimentally as expected as most of the proteins of the natural transformation system of Thermus thermophilus are present. Analysis of the metabolic capabilities revealed an extensive energy metabolism with many aerobic and anaerobic respiratory options. An abundance of sensor histidine kinases, response regulators and transporters for a wide variety of compounds are indicative of an oligotrophic lifestyle. CONCLUSIONS: The genome of Thermus scotoductus SA-01 shows remarkable plasticity with the loss, acquisition and rearrangement of large portions of its genome compared to Thermus thermophilus. Its ability to naturally take up foreign DNA has helped it adapt rapidly to a subsurface lifestyle in the presence of a dense and diverse population which acted as source of nutrients. The genome of Thermus scotoductus illustrates how rapid adaptation can be achieved by a highly dynamic and plastic genome.