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Genome analysis and genome-wide proteomics of Thermococcus gammatolerans, the most radioresistant organism known amongst the Archaea
- Source :
- Genome Biology, Genome Biology, BioMed Central, 2009, 10 (6), pp.R70. ⟨10.1186/gb-2009-10-6-r70⟩, Genome Biology, 2009, 10 (6), pp.R70. ⟨10.1186/gb-2009-10-6-r70⟩
- Publication Year :
- 2009
- Publisher :
- HAL CCSD, 2009.
-
Abstract
- The genome sequence of Thermococcus gammatolerans, a radioresistant archaeon, is described; a proteomic analysis reveals that radioresistance may be due to unknown DNA repair enzymes.<br />Background Thermococcus gammatolerans was isolated from samples collected from hydrothermal chimneys. It is one of the most radioresistant organisms known amongst the Archaea. We report the determination and annotation of its complete genome sequence, its comparison with other Thermococcales genomes, and a proteomic analysis. Results T. gammatolerans has a circular chromosome of 2.045 Mbp without any extra-chromosomal elements, coding for 2,157 proteins. A thorough comparative genomics analysis revealed important but unsuspected genome plasticity differences between sequenced Thermococcus and Pyrococcus species that could not be attributed to the presence of specific mobile elements. Two virus-related regions, tgv1 and tgv2, are the only mobile elements identified in this genome. A proteogenome analysis was performed by a shotgun liquid chromatography-tandem mass spectrometry approach, allowing the identification of 10,931 unique peptides corresponding to 951 proteins. This information concurrently validates the accuracy of the genome annotation. Semi-quantification of proteins by spectral count was done on exponential- and stationary-phase cells. Insights into general catabolism, hydrogenase complexes, detoxification systems, and the DNA repair toolbox of this archaeon are revealed through this genome and proteome analysis. Conclusions This work is the first archaeal proteome investigation done at the stage of primary genome annotation. This archaeon is shown to use a large variety of metabolic pathways even under a rich medium growth condition. This proteogenomic study also indicates that the high radiotolerance of T. gammatolerans is probably due to proteins that remain to be characterized rather than a larger arsenal of known DNA repair enzymes.
- Subjects :
- Proteomics
DNA Repair
Proteome
Archaeal Proteins
Codon, Initiator
Biology
Radiation Tolerance
Genome
Chromosomes
Mass Spectrometry
03 medical and health sciences
Hydrogenase
Genome, Archaeal
[SDV.BBM]Life Sciences [q-bio]/Biochemistry, Molecular Biology
030304 developmental biology
Genetics
Whole genome sequencing
0303 health sciences
Microbial Viability
030306 microbiology
Research
Cell Membrane
Reproducibility of Results
Thermococcus gammatolerans
Biological Transport
Sequence Analysis, DNA
biology.organism_classification
Thermococcales
Thermococcus
[SDV.MP]Life Sciences [q-bio]/Microbiology and Parasitology
Gamma Rays
Protein Biosynthesis
DNA Transposable Elements
Protein Processing, Post-Translational
Archaea
Subjects
Details
- Language :
- English
- ISSN :
- 14656906 and 1474760X
- Database :
- OpenAIRE
- Journal :
- Genome Biology, Genome Biology, BioMed Central, 2009, 10 (6), pp.R70. ⟨10.1186/gb-2009-10-6-r70⟩, Genome Biology, 2009, 10 (6), pp.R70. ⟨10.1186/gb-2009-10-6-r70⟩
- Accession number :
- edsair.doi.dedup.....8822f1f0425084a7ed712788229b8566