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Volumn 164, Issue 5, 2013, Pages 439-449

The genome sequence of the hydrocarbon-degrading acinetobacter venetianus VE-C3

Author keywords

Acinetobacter; Alkane metabolism; Bioremediation; Microbial genomics

Indexed keywords

ALKANE DERIVATIVE; ARSENIC; BACTERIAL DNA; CADMIUM; COBALT; CYTOCHROME P450; FUEL OIL; HYDROCARBON; INTEGRASE; TRANSPOSASE; ZINC;

EID: 84878631697     PISSN: 09232508     EISSN: 17697123     Source Type: Journal    
DOI: 10.1016/j.resmic.2013.03.003     Document Type: Article
Times cited : (29)

References (63)
  • 1
    • 0032584521 scopus 로고    scopus 로고
    • Novel glycine containing glucolipids from the alkane using bacterium Alcanivorax borkumensis
    • Abraham W.R., Meyer H., Yakimov M. Novel glycine containing glucolipids from the alkane using bacterium Alcanivorax borkumensis. Biochim. Biophys. Acta 1998, 1393:57-62.
    • (1998) Biochim. Biophys. Acta , vol.1393 , pp. 57-62
    • Abraham, W.R.1    Meyer, H.2    Yakimov, M.3
  • 2
    • 33747892409 scopus 로고    scopus 로고
    • Automatic clustering of orthologs and inparalogs shared by multiple proteomes
    • Alexeyenko A., Tamas I., Liu G., Sonnhammer E.L. Automatic clustering of orthologs and inparalogs shared by multiple proteomes. Bioinformatics 2006, 22:9-15.
    • (2006) Bioinformatics , vol.22 , pp. 9-15
    • Alexeyenko, A.1    Tamas, I.2    Liu, G.3    Sonnhammer, E.L.4
  • 3
    • 35248834244 scopus 로고    scopus 로고
    • The sediments of the Venice Lagoon (Italy) evaluated in a screening risk assessment approach: part I - application of international sediment quality guidelines
    • Apitz S.E., Barbanti A., Bocci M., Carlin A., Montobbio L., Bernstein A.G. The sediments of the Venice Lagoon (Italy) evaluated in a screening risk assessment approach: part I - application of international sediment quality guidelines. Integr. Environ. Assess. Manag. 2007, 3:393-414.
    • (2007) Integr. Environ. Assess. Manag. , vol.3 , pp. 393-414
    • Apitz, S.E.1    Barbanti, A.2    Bocci, M.3    Carlin, A.4    Montobbio, L.5    Bernstein, A.G.6
  • 5
    • 0037639483 scopus 로고    scopus 로고
    • Complementary degradation of n-paraffins by aerobic Gram-negative bacteria isolated from Venice Lagoon
    • Baldi F., Pepi M., Fani R., Di Cello F., Da Ros L., Fossato V.U. Complementary degradation of n-paraffins by aerobic Gram-negative bacteria isolated from Venice Lagoon. Croat. Chem. Acta 1997, 70:333-346.
    • (1997) Croat. Chem. Acta , vol.70 , pp. 333-346
    • Baldi, F.1    Pepi, M.2    Fani, R.3    Di Cello, F.4    Da Ros, L.5    Fossato, V.U.6
  • 6
    • 0041706292 scopus 로고    scopus 로고
    • Envelope glycosylation determined by lectins in microscopy sections of Acinetobacter venetianus induced by diesel fuel
    • Baldi F., Pepi M., Capone A., della Giovampaola C., Milanesi C., Fani R., Focarelli R. Envelope glycosylation determined by lectins in microscopy sections of Acinetobacter venetianus induced by diesel fuel. Res. Microbiol. 2003, 154:417-424.
    • (2003) Res. Microbiol. , vol.154 , pp. 417-424
    • Baldi, F.1    Pepi, M.2    Capone, A.3    della Giovampaola, C.4    Milanesi, C.5    Fani, R.6    Focarelli, R.7
  • 7
    • 50549177801 scopus 로고
    • Hydrocarbon oxidation by a bacterial enzyme system. I. Products of octane oxidation
    • Baptist J.N., Gholson R.K., Coon M.J. Hydrocarbon oxidation by a bacterial enzyme system. I. Products of octane oxidation. Biochim. Biophys. Acta 1963, 69:40-47.
    • (1963) Biochim. Biophys. Acta , vol.69 , pp. 40-47
    • Baptist, J.N.1    Gholson, R.K.2    Coon, M.J.3
  • 9
    • 33846621913 scopus 로고    scopus 로고
    • Alkane hydroxylases involved in microbial alkane degradation
    • van Beilen J.B., Funhoff E.G. Alkane hydroxylases involved in microbial alkane degradation. Appl. Microbiol. Biotechnol. 2007, 74:13-21.
    • (2007) Appl. Microbiol. Biotechnol. , vol.74 , pp. 13-21
    • van Beilen, J.B.1    Funhoff, E.G.2
  • 10
    • 0034969905 scopus 로고    scopus 로고
    • Analysis of Pseudomonas putida alkane-degradation gene clusters and flanking insertion sequences: evolution and regulation of the alk genes
    • van Beilen J.B., Panke S., Lucchini S., Franchini A.G., Rothlisberger M., Witholt B. Analysis of Pseudomonas putida alkane-degradation gene clusters and flanking insertion sequences: evolution and regulation of the alk genes. Microbiology 2001, 147:1621-1630.
    • (2001) Microbiology , vol.147 , pp. 1621-1630
    • van Beilen, J.B.1    Panke, S.2    Lucchini, S.3    Franchini, A.G.4    Rothlisberger, M.5    Witholt, B.6
  • 11
    • 17444405636 scopus 로고    scopus 로고
    • Biocatalytic production of perillyl alcohol from limonene by using a novel Mycobacterium sp. cytochrome P450 alkane hydroxylase expressed in Pseudomonas putida
    • van Beilen J.B., Holtackers R., Luscher D., Bauer U., Witholt B., Duetz W.A. Biocatalytic production of perillyl alcohol from limonene by using a novel Mycobacterium sp. cytochrome P450 alkane hydroxylase expressed in Pseudomonas putida. Appl. Environ. Microbiol. 2005, 71:1737-1744.
    • (2005) Appl. Environ. Microbiol. , vol.71 , pp. 1737-1744
    • van Beilen, J.B.1    Holtackers, R.2    Luscher, D.3    Bauer, U.4    Witholt, B.5    Duetz, W.A.6
  • 13
    • 79961102682 scopus 로고    scopus 로고
    • The mosaicism of plasmids revealed by atypical genes detection and analysis
    • Bosi E., Fani R., Fondi M. The mosaicism of plasmids revealed by atypical genes detection and analysis. BMC Genomics 2011, 12:403.
    • (2011) BMC Genomics , vol.12 , pp. 403
    • Bosi, E.1    Fani, R.2    Fondi, M.3
  • 15
    • 60749136020 scopus 로고    scopus 로고
    • Analysis of plasmid genes by phylogenetic profiling and visualization of homology relationships using Blast2 Network
    • Brilli M., Mengoni A., Fondi M., Bazzicalupo M., Lio P., Fani R. Analysis of plasmid genes by phylogenetic profiling and visualization of homology relationships using Blast2 Network. BMC Bioinformatics 2008, 9:551.
    • (2008) BMC Bioinformatics , vol.9 , pp. 551
    • Brilli, M.1    Mengoni, A.2    Fondi, M.3    Bazzicalupo, M.4    Lio, P.5    Fani, R.6
  • 16
    • 77957151956 scopus 로고    scopus 로고
    • SolexaQA: at-a-glance quality assessment of Illumina second-generation sequencing data
    • Cox M.P., Peterson D.A., Biggs P.J. SolexaQA: at-a-glance quality assessment of Illumina second-generation sequencing data. BMC Bioinformatics 2010, 11:485.
    • (2010) BMC Bioinformatics , vol.11 , pp. 485
    • Cox, M.P.1    Peterson, D.A.2    Biggs, P.J.3
  • 17
    • 3042666256 scopus 로고    scopus 로고
    • MUSCLE: multiple sequence alignment with high accuracy and high throughput
    • Edgar R.C. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 2004, 32:1792-1797.
    • (2004) Nucleic Acids Res. , vol.32 , pp. 1792-1797
    • Edgar, R.C.1
  • 18
    • 0023644761 scopus 로고
    • Structure of the Pseudomonas putida alkBAC operon. Identification of transcription and translation products
    • Eggink G., van Lelyveld P.H., Arnberg A., Arfman N., Witteveen C., Witholt B. Structure of the Pseudomonas putida alkBAC operon. Identification of transcription and translation products. J. Biol. Chem. 1987, 262:6400-6406.
    • (1987) J. Biol. Chem. , vol.262 , pp. 6400-6406
    • Eggink, G.1    van Lelyveld, P.H.2    Arnberg, A.3    Arfman, N.4    Witteveen, C.5    Witholt, B.6
  • 22
    • 0011323942 scopus 로고
    • Bacterial oxidation of hydrocarbons
    • Academic, New York, J.W. Foster (Ed.)
    • Foster J.W. Bacterial oxidation of hydrocarbons. Oxygenases 1962, 241-261. Academic, New York. J.W. Foster (Ed.).
    • (1962) Oxygenases , pp. 241-261
    • Foster, J.W.1
  • 24
    • 41349112730 scopus 로고    scopus 로고
    • Ori-Finder: a web-based system for finding oriCs in unannotated bacterial genomes
    • Gao F., Zhang C.T. Ori-Finder: a web-based system for finding oriCs in unannotated bacterial genomes. BMC Bioinformatics 2008, 9:79.
    • (2008) BMC Bioinformatics , vol.9 , pp. 79
    • Gao, F.1    Zhang, C.T.2
  • 26
    • 23144433822 scopus 로고    scopus 로고
    • PHYML online - a web server for fast maximum likelihood-based phylogenetic inference
    • Guindon S., Lethiec F., Duroux P., Gascuel O. PHYML online - a web server for fast maximum likelihood-based phylogenetic inference. Nucleic Acids Res. 2005, 33:W557-W559.
    • (2005) Nucleic Acids Res. , vol.33
    • Guindon, S.1    Lethiec, F.2    Duroux, P.3    Gascuel, O.4
  • 28
    • 0033153161 scopus 로고    scopus 로고
    • Bioremediation of petroleum hydrocarbon contaminants in marine habitats
    • Head I.M., Swannell R.P. Bioremediation of petroleum hydrocarbon contaminants in marine habitats. Curr. Opin. Biotechnol. 1999, 10:234-239.
    • (1999) Curr. Opin. Biotechnol. , vol.10 , pp. 234-239
    • Head, I.M.1    Swannell, R.P.2
  • 29
    • 0025525952 scopus 로고
    • Formation and physiological role of biosurfactants produced by hydrocarbon-utilizing microorganisms. Biosurfactants in hydrocarbon utilization
    • Hommel R.K. Formation and physiological role of biosurfactants produced by hydrocarbon-utilizing microorganisms. Biosurfactants in hydrocarbon utilization. Biodegradation 1990, 1:107-119.
    • (1990) Biodegradation , vol.1 , pp. 107-119
    • Hommel, R.K.1
  • 30
    • 79960939630 scopus 로고    scopus 로고
    • The genomics of Acinetobacter baumannii: insights into genome plasticity, antimicrobial resistance and pathogenicity
    • Imperi F., Antunes L.C., Blom J., Villa L., Iacono M., Visca P., Carattoli A. The genomics of Acinetobacter baumannii: insights into genome plasticity, antimicrobial resistance and pathogenicity. IUBMB Life 2011, 63:1068-1074.
    • (2011) IUBMB Life , vol.63 , pp. 1068-1074
    • Imperi, F.1    Antunes, L.C.2    Blom, J.3    Villa, L.4    Iacono, M.5    Visca, P.6    Carattoli, A.7
  • 31
    • 79952226956 scopus 로고    scopus 로고
    • Acinetobacter oleivorans sp. nov. is capable of adhering to and growing on diesel-oil
    • Kang Y.S., Jung J., Jeon C.O., Park W. Acinetobacter oleivorans sp. nov. is capable of adhering to and growing on diesel-oil. J. Microbiol. 2011, 49:29-34.
    • (2011) J. Microbiol. , vol.49 , pp. 29-34
    • Kang, Y.S.1    Jung, J.2    Jeon, C.O.3    Park, W.4
  • 34
    • 0034801865 scopus 로고    scopus 로고
    • Molecular characterization of the 56-kDa CYP153 from Acinetobacter sp. EB104
    • Maier T., Forster H.H., Asperger O., Hahn U. Molecular characterization of the 56-kDa CYP153 from Acinetobacter sp. EB104. Biochem. Biophys. Res. Commun. 2001, 286:652-658.
    • (2001) Biochem. Biophys. Res. Commun. , vol.286 , pp. 652-658
    • Maier, T.1    Forster, H.H.2    Asperger, O.3    Hahn, U.4
  • 36
    • 38849148518 scopus 로고    scopus 로고
    • Sequencing and analysis of plasmids pAV1 and pAV2 of Acinetobacter venetianus VE-C3 involved in diesel fuel degradation
    • Mengoni A., Richi S., Brilli M., Baldi F., Fani R. Sequencing and analysis of plasmids pAV1 and pAV2 of Acinetobacter venetianus VE-C3 involved in diesel fuel degradation. Ann. Microbiol. 2007, 57:521-526.
    • (2007) Ann. Microbiol. , vol.57 , pp. 521-526
    • Mengoni, A.1    Richi, S.2    Brilli, M.3    Baldi, F.4    Fani, R.5
  • 37
    • 48449096698 scopus 로고    scopus 로고
    • Discovery of the dual polysaccharide composition of emulsan and the isolation of the emulsion stabilizing component
    • Mercaldi M.P., Dams-Kozlowska H., Panilaitis B., Joyce A.P., Kaplan D.L. Discovery of the dual polysaccharide composition of emulsan and the isolation of the emulsion stabilizing component. Biomacromolecules 2008, 9:1988-1996.
    • (2008) Biomacromolecules , vol.9 , pp. 1988-1996
    • Mercaldi, M.P.1    Dams-Kozlowska, H.2    Panilaitis, B.3    Joyce, A.P.4    Kaplan, D.L.5
  • 39
    • 0034915596 scopus 로고    scopus 로고
    • Analysis of the wee gene cluster responsible for the biosynthesis of the polymeric bioemulsifier from the oil-degrading strain Acinetobacter lwoffii RAG-1
    • Nakar D., Gutnick D.L. Analysis of the wee gene cluster responsible for the biosynthesis of the polymeric bioemulsifier from the oil-degrading strain Acinetobacter lwoffii RAG-1. Microbiology 2001, 147:1937-1946.
    • (2001) Microbiology , vol.147 , pp. 1937-1946
    • Nakar, D.1    Gutnick, D.L.2
  • 42
    • 0020535257 scopus 로고
    • Localization of emulsan-like polymers associated with the cell surface of Acinetobacter calcoaceticus
    • Pines O., Bayer E.A., Gutnick D.L. Localization of emulsan-like polymers associated with the cell surface of Acinetobacter calcoaceticus. J. Bacteriol. 1983, 154:893-905.
    • (1983) J. Bacteriol. , vol.154 , pp. 893-905
    • Pines, O.1    Bayer, E.A.2    Gutnick, D.L.3
  • 44
    • 0015400912 scopus 로고
    • Microbial degradation of crude oil: factors affecting the dispersion in sea water by mixed and pure cultures
    • Reisfeld A., Rosenberg E., Gutnick D. Microbial degradation of crude oil: factors affecting the dispersion in sea water by mixed and pure cultures. Appl. Microbiol. 1972, 24:363-368.
    • (1972) Appl. Microbiol. , vol.24 , pp. 363-368
    • Reisfeld, A.1    Rosenberg, E.2    Gutnick, D.3
  • 45
    • 0035861990 scopus 로고    scopus 로고
    • Automatic clustering of orthologs and in-paralogs from pairwise species comparisons
    • Remm M., Storm C.E., Sonnhammer E.L. Automatic clustering of orthologs and in-paralogs from pairwise species comparisons. J. Mol. Biol. 2001, 314:1041-1052.
    • (2001) J. Mol. Biol. , vol.314 , pp. 1041-1052
    • Remm, M.1    Storm, C.E.2    Sonnhammer, E.L.3
  • 46
    • 70349655393 scopus 로고    scopus 로고
    • Degradation of alkanes by bacteria
    • Rojo F. Degradation of alkanes by bacteria. Environ. Microbiol. 2009, 11:2477-2490.
    • (2009) Environ. Microbiol. , vol.11 , pp. 2477-2490
    • Rojo, F.1
  • 47
    • 0036624819 scopus 로고    scopus 로고
    • Biosurfactants and oil bioremediation
    • Ron E.Z., Rosenberg E. Biosurfactants and oil bioremediation. Curr. Opin. Biotechnol. 2002, 13:249-252.
    • (2002) Curr. Opin. Biotechnol. , vol.13 , pp. 249-252
    • Ron, E.Z.1    Rosenberg, E.2
  • 51
    • 28644437016 scopus 로고    scopus 로고
    • A bacterial view of the periodic table: genes and proteins for toxic inorganic ions
    • Silver S., Phung le T. A bacterial view of the periodic table: genes and proteins for toxic inorganic ions. J. Ind. Microbiol. Biotechnol. 2005, 32:587-605.
    • (2005) J. Ind. Microbiol. Biotechnol. , vol.32 , pp. 587-605
    • Silver, S.1    Phung le, T.2
  • 53
    • 0036188547 scopus 로고    scopus 로고
    • Functional analysis of alkane hydroxylases from gram-negative and gram-positive bacteria
    • Smits T.H., Balada S.B., Witholt B., van Beilen J.B. Functional analysis of alkane hydroxylases from gram-negative and gram-positive bacteria. J. Bacteriol. 2002, 184:1733-1742.
    • (2002) J. Bacteriol. , vol.184 , pp. 1733-1742
    • Smits, T.H.1    Balada, S.B.2    Witholt, B.3    van Beilen, J.B.4
  • 54
    • 84858406041 scopus 로고    scopus 로고
    • Large-scale analysis of plasmid relationships through gene-sharing networks
    • Tamminen M., Virta M., Fani R., Fondi M. Large-scale analysis of plasmid relationships through gene-sharing networks. Mol. Biol. Evol. 2012, 29:1225-1240.
    • (2012) Mol. Biol. Evol. , vol.29 , pp. 1225-1240
    • Tamminen, M.1    Virta, M.2    Fani, R.3    Fondi, M.4
  • 56
  • 57
    • 34249658423 scopus 로고    scopus 로고
    • Identification of novel genes involved in long-chain n-alkane degradation by Acinetobacter sp. strain DSM 17874
    • Throne-Holst M., Wentzel A., Ellingsen T.E., Kotlar H.K., Zotchev S.B. Identification of novel genes involved in long-chain n-alkane degradation by Acinetobacter sp. strain DSM 17874. Appl. Environ. Microbiol. 2007, 73:3327-3332.
    • (2007) Appl. Environ. Microbiol. , vol.73 , pp. 3327-3332
    • Throne-Holst, M.1    Wentzel, A.2    Ellingsen, T.E.3    Kotlar, H.K.4    Zotchev, S.B.5
  • 59
    • 0032724921 scopus 로고    scopus 로고
    • Oil-degrading Acinetobacter strain RAG-1 and strains described as 'Acinetobacter venetianus sp. nov.' belong to the same genomic species
    • Vaneechoutte M., Tjernberg I., Baldi F., Pepi M., Fani R., Sullivan E.R., van der Toorn J., Dijkshoorn L. Oil-degrading Acinetobacter strain RAG-1 and strains described as 'Acinetobacter venetianus sp. nov.' belong to the same genomic species. Res. Microbiol. 1999, 150:69-73.
    • (1999) Res. Microbiol. , vol.150 , pp. 69-73
    • Vaneechoutte, M.1    Tjernberg, I.2    Baldi, F.3    Pepi, M.4    Fani, R.5    Sullivan, E.R.6    van der Toorn, J.7    Dijkshoorn, L.8
  • 60
    • 33748689309 scopus 로고    scopus 로고
    • Interpolated variable order motifs for identification of horizontally acquired DNA: revisiting the Salmonella pathogenicity islands
    • Vernikos G.S., Parkhill J. Interpolated variable order motifs for identification of horizontally acquired DNA: revisiting the Salmonella pathogenicity islands. Bioinformatics 2006, 22:2196-2203.
    • (2006) Bioinformatics , vol.22 , pp. 2196-2203
    • Vernikos, G.S.1    Parkhill, J.2
  • 62
    • 84855957663 scopus 로고    scopus 로고
    • Comparative analysis of the complete genome of an Acinetobacter calcoaceticus strain adapted to a phenol-polluted environment
    • Zhan Y., Yan Y., Zhang W., Chen M., Lu W., Ping S., Lin M. Comparative analysis of the complete genome of an Acinetobacter calcoaceticus strain adapted to a phenol-polluted environment. Res. Microbiol. 2012, 163:36-43.
    • (2012) Res. Microbiol. , vol.163 , pp. 36-43
    • Zhan, Y.1    Yan, Y.2    Zhang, W.3    Chen, M.4    Lu, W.5    Ping, S.6    Lin, M.7


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