Complete genome sequence of the haloaromatic acid-degrading bacterium Achromobacter xylosoxidans A8
Jazyk angličtina Země Spojené státy americké Médium print-electronic
Typ dokumentu časopisecké články, práce podpořená grantem
PubMed
21097610
PubMed Central
PMC3021230
DOI
10.1128/jb.01299-10
PII: JB.01299-10
Knihovny.cz E-zdroje
- MeSH
- Achromobacter denitrificans genetika izolace a purifikace metabolismus MeSH
- bakteriální chromozomy MeSH
- chlorbenzoáty metabolismus MeSH
- DNA bakterií chemie genetika MeSH
- energetický metabolismus MeSH
- genom bakteriální * MeSH
- molekulární sekvence - údaje MeSH
- plazmidy MeSH
- půdní mikrobiologie MeSH
- sekvenční analýza DNA MeSH
- uhlík metabolismus MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
- Názvy látek
- 2-chlorobenzoic acid MeSH Prohlížeč
- 2,5-dichlorobenzoic acid MeSH Prohlížeč
- chlorbenzoáty MeSH
- DNA bakterií MeSH
- uhlík MeSH
Achromobacter xylosoxidans strain A8 was isolated from soil contaminated with polychlorinated biphenyls. It can use 2-chlorobenzoate and 2,5-dichlorobenzoate as sole sources of carbon and energy. This property makes it a good starting microorganism for further development toward a bioremediation tool. The genome of A. xylosoxidans consists of a 7-Mb chromosome and two large plasmids (98 kb and 248 kb). Besides genes for the utilization of xenobiotic organic substrates, it contains genes associated with pathogenesis, toxin production, and resistance. Here, we report the complete genome sequence.
Zobrazit více v PubMed
Aziz, R. K., et al. 2008. The RAST server: rapid annotations using subsystems technology. BMC Genomics 9:75. PubMed PMC
Badger, J. H., and G. J. Olsen. 1999. CRITICA: coding region identification tool invoking comparative analysis. Mol. Biol. Evol. 16:512-524. PubMed
Benson, D. A., I. Karsch-Mizrachi, D. J. Lipman, J. Ostell, and E. W. Sayers. 2010. GenBank. Nucleic Acids Res. 38:46-51. PubMed PMC
Carver, T., et al. 2008. Artemis and ACT: viewing, annotating and comparing sequences stored in a relational database. Bioinformatics 24:2672-2676. PubMed PMC
Delcher, A. L., D. Harmon, S. Kasif, O. White, and S. L. Salzberg. 1999. Improved microbial gene identification with GLIMMER. Nucleic Acids Res. 27:4636-4641. PubMed PMC
Hyatt, D., et al. 2010. Prodigal: prokaryotic gene recognition and translation initiation site identification. BMC Bioinform. 11:119. PubMed PMC
Jencova, V., et al. 2004. Chlorocatechol catabolic enzymes from Achromobacter xylosoxidans A8. Int. Biodeterior. Biodegradation 54:175-181.
Jencova, V., et al. 2008. Nucleotide sequence, organization and characterization of the (halo)aromatic acid catabolic plasmid pA81 from Achromobacter xylosoxidans A8. Res. Microbiol. 159:118-127. PubMed
Kanehisa, M., et al. 2008. KEGG for linking genomes to life and the environment. Nucleic Acids Res. 36:480-484. PubMed PMC
Lagesen, K., et al. 2007. RNAmmer: consistent and rapid annotation of ribosomal RNA genes. Nucleic Acids Res. 35:3100-3108. PubMed PMC
Laslett, D., and B. Canback. 2004. ARAGORN, a program to detect tRNA genes and tmRNA genes in nucleotide sequences. Nucleic Acids Res. 32:11-16. PubMed PMC
Lowe, T. M., and S. R. Eddy. 1997. tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res. 25:955-964. PubMed PMC
Margulies, M., et al. 2005. Genome sequencing in microfabricated high-density picolitre reactors. Nature 437:376-380. PubMed PMC
Paces, J., and V. Paces. 2002. DicodonUse: the programme for dicodon bias visualization in prokaryotes. Folia Biol. (Praha) 48:246-249. PubMed
Pavlu, L., et al. 1999. Characterization of chlorobenzoate degraders isolated from polychlorinated biphenyl-contaminated soil and sediment in the Czech Republic. J. Appl. Microbiol. 87:381-386. PubMed
Schattner, P., A. N. Brooks, and T. M. Lowe. 2005. The tRNAscan-SE, snoscan and snoGPS web servers for the detection of tRNAs and snoRNAs. Nucleic Acids Res. 33:686-689. PubMed PMC
Strnad, H., et al. 2010. Complete genome sequence of the photosynthetic purple nonsulfur bacterium Rhodobacter capsulatus SB 1003. J. Bacteriol. 192:3545-3546. PubMed PMC
Tatusov, R. L., E. V. Koonin, and D. J. Lipman. 1997. A genomic perspective on protein families. Science 278:631-637. PubMed
GENBANK
CP002287, CP002288, CP002289