Pyrococcus abyssi: Difference between revisions
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The genome of P. abyssi is circular and contains 1.76Mb. The genome content has not been explored as of yet. Most of the functionality that is known of the P. abyssi genome has come from the comparison to similiar genomes with known functions through BLAST. The comparison of the genome's of P. abyssi and P. horikoshii revealed that archaea's terminus of replication is a major region for replication, similar to that of bacteria. Comparison to another species of pyrococcus, P. furiosus, reveals an "identification of DNA reorganization linked to IS-like elements and DNA integration within tRNA genes" (1). Besides similiarities to these 2 other pyrococcus species, P. abyssi also contains genes which are crenarchaeal and bacterial like. However, these genes are mainly for the use of transport. | The genome of P. abyssi is circular and contains 1.76Mb. The genome content has not been explored as of yet. Most of the functionality that is known of the P. abyssi genome has come from the comparison to similiar genomes with known functions through BLAST. The comparison of the genome's of P. abyssi and P. horikoshii revealed that archaea's terminus of replication is a major region for replication, similar to that of bacteria. Comparison to another species of pyrococcus, P. furiosus, reveals an "identification of DNA reorganization linked to IS-like elements and DNA integration within tRNA genes" (1). Besides similiarities to these 2 other pyrococcus species, P. abyssi also contains genes which are crenarchaeal and bacterial like. However, these genes are mainly for the use of transport. | ||
P. abyssi has a plasmid, pGT5, which replicates via a rolling circle mechanism. The plasmids of hyperthermophiles have not been studied extensively as some of the other archaea's due to the limited number of organisms that can survive in extreme conditions. The importance of the study of these organism's genomes and plasmids is to understand their DNA replication, repair, and recombination mechanisms, especially since it is so different from our own. | P. abyssi has a plasmid, pGT5, which replicates via a rolling circle mechanism. The plasmids of hyperthermophiles have not been studied extensively as some of the other archaea's due to the limited number of organisms that can survive in extreme conditions. The importance of the study of these organism's genomes and plasmids is to understand their DNA replication, repair, and recombination mechanisms, especially since it is so different from our own(3). | ||
The genome encodes for the following amino acids: Trp, Lys, Ser, Gly, Cys, Glu, Gln, Ala, Asp, and Asn. The remainder of the amino acids are not synthesized by P. abyssi. | The genome encodes for the following amino acids: Trp, Lys, Ser, Gly, Cys, Glu, Gln, Ala, Asp, and Asn. The remainder of the amino acids are not synthesized by P. abyssi. | ||
Revision as of 21:04, 3 June 2007
A Microbial Biorealm page on the genus Pyrococcus abyssi
Classification
Higher order taxa
Archaea; Euryarchaeota; Thermococci; Thermococcales; Thermococcaceae; Pyrococcus
Species
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NCBI: Taxonomy |
Pyrococcus abyssi; 272844
Description and significance
Pyrococcus abyssi is found near deep sea hyperthermal vents off of the Southwest region of the Pacific Ocean where the temperatures can reach as high as 102C and pressures can be up to 200 atm. This organism was collected in the smoker material and sea water surrounding these hyperthermal vents. Because of their ability to survive in these extreme conditions, the genome of P. abyssi has been completely sequenced. Since not much has been studied on hyperthermophiles, P. abyssi has been used as a model organism in the laboratories. Hopefully through the analysis of this organism, better understanding and greater genetic tools can be achieved through it's study.
Genome structure
The genome of P. abyssi is circular and contains 1.76Mb. The genome content has not been explored as of yet. Most of the functionality that is known of the P. abyssi genome has come from the comparison to similiar genomes with known functions through BLAST. The comparison of the genome's of P. abyssi and P. horikoshii revealed that archaea's terminus of replication is a major region for replication, similar to that of bacteria. Comparison to another species of pyrococcus, P. furiosus, reveals an "identification of DNA reorganization linked to IS-like elements and DNA integration within tRNA genes" (1). Besides similiarities to these 2 other pyrococcus species, P. abyssi also contains genes which are crenarchaeal and bacterial like. However, these genes are mainly for the use of transport.
P. abyssi has a plasmid, pGT5, which replicates via a rolling circle mechanism. The plasmids of hyperthermophiles have not been studied extensively as some of the other archaea's due to the limited number of organisms that can survive in extreme conditions. The importance of the study of these organism's genomes and plasmids is to understand their DNA replication, repair, and recombination mechanisms, especially since it is so different from our own(3).
The genome encodes for the following amino acids: Trp, Lys, Ser, Gly, Cys, Glu, Gln, Ala, Asp, and Asn. The remainder of the amino acids are not synthesized by P. abyssi.
Cell structure and metabolism
P. abyssi utilizes ATP as an energy source but has a reductant, ferrodoxin, that is different than our own (NADH). Nonetheless, ferrodoxin functions in a similar manner when it is reoxidized, leading to the creation of a electrochemical gradient which is needed for ATP synthesis. An ATPase is needed for pumping ions across the membrane, thus creating ATP. It is not known whether hydrogen or sodium ions are pumped across the membrane to create the membrane potential.
Ecology
Pathology
This organism is not known to be pathogenic to humans, plants or animals.
Application to Biotechnology
Current Research
References
1.Georges N. Cohen, Valérie Barbe, Didier Flament, Michael Galperin, Roland Heilig, Odile Lecompte, Olivier Poch, Daniel Prieur, Joël Quérellou, Raymond Ripp, Jean-Claude Thierry, John Van der Oost, Jean Weissenbach, Yvan Zivanovic, Patrick Forterre (2003) An integrated analysis of the genome of the hyperthermophilic archaeon Pyrococcus abyssi Molecular Microbiology 47 (6), 1495–1512.
2.C. Geslin,* M. Le Romancer, G. Erauso, M. Gaillard, G. Perrot, and D. Prieur. 2003. PAV1, the First Virus-Like Particle Isolated from a Hyperthermophilic Euryarchaeote, “Pyrococcus abyssi”.J Bacteriol. 2003 July; 185(13): 3888–3894.
3.G Erauso, S Marsin, N Benbouzid-Rollet, M F Baucher, T Barbeyron, Y Zivanovic, D Prieur, and P Forterre. "Sequence of plasmid pGT5 from the archaeon Pyrococcus abyssi: evidence for rolling-circle replication in a hyperthermophile". J Bacteriol. 1996 June; 178(11): 3232–3237.
Edited by Stephine Chow
