Complete genome sequence of solvent-tolerant pseudomonas putida S12 including megaplasmid pTTS12

Journal of Biotechnology

Volumn 200, Issue , 2015, Pages 17-18

  Kuepper, J ^a   Ruijssenaars, H J ^b   Blank, L M ^a   de Winde, J H ^c   Wierckx, N ^a  

^a RWTH AACHEN UNIVERSITY   (Germany)

^b Corbion Purac ^*  (Netherlands)

^c LEIDEN UNIVERSITY   (Netherlands)

Author keywords

Biocatalysis; Complete genome sequence; Pseudomonas putida S12; Solvent tolerance; Styrene

Indexed keywords

GENES; GENETIC ENGINEERING; SOLVENTS; STYRENE;

BIOCATALYSIS; COMPLETE GENOMES; PROTEOBACTERIUM; PSEUDOMONAS PUTIDA; SOLVENT TOLERANCE; SOLVENT TOLERANT; TRACK RECORD; UNIQUE FEATURES;

BACTERIA;

RIBOSOME RNA; SOLVENT;

ARTICLE; BACTERIAL GENOME; BACTERIAL STRAIN; BIOCATALYSIS; DNA BASE COMPOSITION; DNA TRANSFER; GENE INSERTION SEQUENCE; NONHUMAN; PLASMID; PRIORITY JOURNAL; PSEUDOMONAS PUTIDA; GENETICS; MOLECULAR GENETICS;

PROTEOBACTERIA; PSEUDOMONAS PUTIDA;

GENOME, BACTERIAL; MOLECULAR SEQUENCE DATA; PLASMIDS; PSEUDOMONAS PUTIDA; SOLVENTS;

EID: 84924632599     PISSN: 01681656     EISSN: 18734863     Source Type: Journal    
DOI: 10.1016/j.jbiotec.2015.02.027     Document Type: Article

References (26)

1. Blank L.M., Ionidis G., Ebert B.E., Buhler B., Schmid A. Metabolic response of Pseudomonas putida during redox biocatalysis in the presence of a second octanol phase. FEBS J. 2008, 275:5173-5190.
2. Boetzer M., Pirovano W. Toward almost closed genomes with GapFiller. Genome Biol. 2012, 13.
3. Boetzer M., Pirovano W. SSPACE-LongRead: scaffolding bacterial draft genomes using long read sequence information. BMC Bioinform. 2014, 15.
4. Chaisson M.J., Tesler G. Mapping single molecule sequencing reads using basic local alignment with successive refinement (BLASR): application and theory. BMC Bioinform. 2012, 13.
5. Hartmans S., van der Werf M.J., de Bont J.A.M. Bacterial degradation of styrene involving a novel flavin adenine dinucleotide-dependent styrene monooxygenase. Appl. Environ. Microbiol. 1990, 56:1347-1351.
6. Heipieper H.J., de Bont J.A.M. Adaptation of Pseudomonas putida S12 to ethanol and toluene at the level of fatty acid composition of membranes. Appl. Environ. Microbiol. 1994, 60:4440-4444.
7. Isken S., Derks A., Wolffs P.F.G., de Bont J.A.M. Effect of organic solvents on the yield of solvent-tolerant Pseudomonas putida S12. Appl. Environ. Microbiol. 1999, 65:2631-2635.
8. Kieboom J., Dennis J.J., de Bont J.A.M., Zylstra G.J. Identification and molecular characterization of an efflux pump involved in Pseudomonas putida S12 solvent tolerance. J. Biol. Chem. 1998, 273:85-91.
9. Meijnen J.P., de Winde J.H., Ruijssenaars H.J. Sustainable production of fine chemicals by the solvent-tolerant Pseudomonas putida S12 using lignocellulosic feedstock. Int. Sugar J. 2011, 113:24-30.
10. Molina L., Duque E., Gomez M.J., Krell T., Lacal J., Garcia-Puente A., Garcia V., Matilla M.A., Ramos J.L., Segura A. The pGRT1 plasmid of Pseudomonas putida DOT-T1E encodes functions relevant for survival under harsh conditions in the environment. Environ. Microbiol. 2011, 13:2315-2327.
11. Ruijssenaars H.J., Sperling E.M.G.M., Wiegerinck P.H.G., Brands F.T.L., Wery J., de Bont J.A.M. Testosterone 15 beta-hydroxylation by solvent tolerant Pseudomonas putida S12. J. Biotechnol. 2007, 131:205-208.
12. Sun X., Dennis J.J. A novel insertion sequence derepresses efflux pump expression and preadapts Pseudomonas putida S12 for extreme solvent stress. J. Bacteriol. 2009, 191:6773-6777.
13. Tao F., Shen Y.L., Fan Z.Q., Tang H.Z., Xu P. Genome sequence of Pseudomonas putida S12, a potential platform strain for industrial production of valuable chemicals. J. Bacteriol. 2012, 194:5985-5986.
14. Tatusova T., DiCuccio M., Badretdin A. About Prokaryotic Genome Processing and Tools. The NCBI Handbook [Internet] 2013, National Center for Biotechnology Information, Bethesda, US. 2nd ed.
15. Verhoef S., Ballerstedt H., Volkers R.J.M., de Winde J.H., Ruijssenaars H.J. Comparative transcriptomics and proteomics of p-hydroxybenzoate producing Pseudomonas putida S12: novel responses and implications for strain improvement. Appl. Environ. Microbiol. 2010, 87:679-690.
16. Verhoef S., Ruijssenaars H.J., de Bont J.A.M., Wery J. Bioproduction of p-hydroxybenzoate from renewable feedstock by solvent-tolerant Pseudomonas putida S12. J. Biotechnol. 2007, 132:49-56.
17. Verhoef S., Wierckx N., Westerhof R.G.M., de Winde J.H., Ruijssenaars H.J. Bioproduction of p-hydroxystyrene from glucose by the solvent-tolerant bacterium Pseudomonas putida S12 in a two-phase water-decanol fermentation. Appl. Environ. Microbiol. 2009, 75:931-936.
18. Volkers R.J., de Jong A.L., Hulst A.G., van Baar B.L., de Bont J.A., Wery J. Chemostat-based proteomic analysis of toluene-affected Pseudomonas putida S12. Environ. Microbiol. 2006, 8:1674-1679.
19. Volkers R.J.M., Ballerstedt H., de Winde J.H., Ruijssenaars H.J. Isolation and genetic characterization of an improved benzene-tolerant mutant of Pseudomonas putida S12. Environ. Microbiol. Rep. 2010, 2:456-460.
20. Weber F.J., Ooijkaas L.P., Schemen R.M., Hartmans S., de Bont J.A.M. Adaptation of Pseudomonas putida S12 to high concentrations of styrene and other organic solvents. Appl. Environ. Microbiol. 1993, 59:3502-3504.
21. Wery J., Mendes da Silva D.I., de Bont J.A. A genetically modified solvent-tolerant bacterium for optimized production of a toxic fine chemical. Appl. Microbiol. Biotechnol. 2000, 54:180-185.
22. Wery J.H., Kieboom B., de Bont J.J.A.M. An insertion sequence prepares Pseudomonas putida S12 for severe solvent stress. J. Biol. Chem. 2001, 276.
23. Wierckx N., Ruijssenaars H.J., de Winde J.H., Schmid A., Blank L.M. Metabolic flux analysis of a phenol producing mutant of Pseudomonas putida S12: verification and complementation of hypotheses derived from transcriptomics. J. Biotechnol. 2009, 143:124-129.
24. Wierckx N.J.P., Ballerstedt H., de Bont J.A.M., de Winde J.H., Ruijssenaars H.J., Wery J. Transcriptome analysis of a phenol-producing Pseudomonas putida S12 construct: genetic and physiological basis for improved production. J. Bacteriol. 2008, 190:2822-2830.
25. Wierckx N.J.P., Ballerstedt H., de Bont J.A.M., Wery J. Engineering of solvent-tolerant Pseudomonas putida S12 for bioproduction of phenol from glucose. Appl. Environ. Microbiol. 2005, 71:8221-8227.
26. Wijte D., van Baar B.L., Heck A.J., Altelaar A.F. Probing the proteome response to toluene exposure in the solvent tolerant Pseudomonas putida S12. J. Proteome Res. 2011, 10:394-403.