Biochemical and molecular characterization of the polyhydroxybutyrate depolymerase of Comamonas acidovorans YM1609, isolated from freshwater

Applied and Environmental Microbiology

Volumn 63, Issue 12, 1997, Pages 4844-4852

  Kasuya, Ken Ichi ^a   Inoue, Yoshio ^a   Tanaka, Takao ^b   Akehata, Takeshi ^b   Iwata, Tadahisa ^c   Fukui, Toshiaki ^c   Doi, Yoshiharu ^c  

^a TOKYO INSTITUTE OF TECHNOLOGY   (Japan)

^b TOKYO UNIVERSITY OF SCIENCE   (Japan)

^c INST OF PHYS AND CHEMICAL RESEARCH   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL ENZYME; FRESH WATER;

AMINO ACID SEQUENCE; ARTICLE; CONTROLLED STUDY; DELFTIA ACIDOVORANS; DEPOLYMERIZATION; ENZYME ACTIVITY; ENZYME ANALYSIS; ENZYME ISOLATION; ENZYME KINETICS; ENZYME STRUCTURE; GENE LIBRARY; GRAM NEGATIVE BACTERIUM; MOLECULAR WEIGHT; NONHUMAN;

BACTERIA (MICROORGANISMS); COMAMONAS; DELFTIA ACIDOVORANS; NEGIBACTERIA; PSEUDOMONAS;

EID: 0030777589     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/aem.63.12.4844-4852.1997     Document Type: Article

References (49)

1. Abe, H., I. Matsubara, Y. Doi, Y. Hori, and A. Yamaguchi. 1994. Physical properties and enzymatic degradability of poly(3-hydroxybutyrate) stereo-isomers with different stereoregularities. Macromolecules 27:6018-6025.
2. Anderson, A. J., and E. A. Dawes. 1990. Occurrence, metabolism, metabolic role, and industrial uses of bacterial polyhydroxyalkanoates. Microbiol. Rev. 54:450-477.
3. Ausubel, F. M., R. Burent, R. E. Kingston, D. D. Moore, J. G. Seidman, J. A. Smith, and K. Struhl. 1987. Current protocols in molecular biology. John Wiley & Sons, Inc., New York, N.Y.
4. Behrends, A., B. Klingbeil, and D. Jendrossek. 1996. Poly(3-hydroxybutyrate) depolymerases bind to their substrate by a C-terminal located substrate binding site. FEMS Microbiol. Lett. 143:191-194.
5. Birnboim, H. C., and J. A. Doly. 1979. Rapid alkaline extraction procedure for screening recombinant plasmid DNA. Nucleic Acids Res. 7:1513-1523.
6. Blaak, H., and H. Schrempf. 1995. Binding and substrate specificities of a Streptomyces olivaceoviridis chitinase in comparison with its proteolytically processed form. Eur. J. Biochem. 229:132-139.
7. Bradford, M. M. 1976. A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal. Biochem. 72:248-254.
8. Briese, B. H., B. Schmidt, and D. Jendrossek. 1994. Pseudomonas lemoignei has five poly(hydroxyalkanoic acid) (PHA) depolymerase genes: a comparative study of bacterial and eukaryotic PHA depolymerases. J. Environ. Polym. Degrad. 2:75-87.
9. Brucato, C. L., and S. S. Wong. 1991. Extracellular poly(3-hydroxybutyrate) depolymerase from Penicillium funiculosum: general characteristics and active site studies. Arch. Biochem. Biophys. 290:497-502.
10. Chowdhury, A. A. 1963. Poly-β-hydroxybuttersäure abbauende Bakterien und Exoenzym. Arch. Mikrobiol. 47:167-200.
11. Delafield, F. P., M. Doudoroff, N. J. Palleroni, C. J. Lusty, and R. Contopoulos. 1965. Decomposition of poly-β-hydroxybutyrate by pseudomonads. J. Bacteriol. 90:1455-1466.
12. Doi, Y. 1990. Microorganisms and poly(3-hydroxyalkanoates), p. 33-62. In Microbial polyesters. VCH Publishers, New York, N.Y.
13. Doi, Y., A. Tamaki, M. Kunioka, and K. Soga. 1988. Production of copolyesters of 3-hydroxybutyrate and 3-hydroxyvalerate by Alcaligenes eutrophus from butyric and pentanoic acids. Appl. Microbiol. Biotechnol. 28:330-334.
14. Fukui, T., T. Narikawa, K. Miwa, Y. Shirakura, T. Saito, and K. Tomita. 1988. Effect of limited tryptic modification of bacterial poly(3-hydroxybutyrate) depolymerase on its catalytic activity. Biochim. Biophys. Acta 952: 164-171.
15. Gilkes, N. R., B. Henrissat, D. G. Kilburn, R. C. Miller, and R. A. J. Warren. 1991. Domains in microbial β-1,4-glycanases: sequence conservation, function, and enzyme families. Microbiol. Rev. 55:303-315.
16. Hansen, C. K. 1992. Fibronectin type III-like sequences and new domain type in prokaryotic depolymerases with insoluble substrates. FEBS Lett. 305:91-96.
17. Henrissat, B. 1994. Cellulases and interaction with cellulose. Cellulose 1: 169-196.
18. Holmes, P. A. 1985. Application of PHB: a microbially produced biodegradable thermoplastic. Phys. Technol. 16:32-36.
19. Janssen, P. H., and C. G. Harfoot. 1990. Hyobacter delafieldii sp. nov., a metabolically restricted anaerobic bacterium fermenting PHB. Arch. Microbiol. 154:253-259.
20. Jendrossek, D., M. Backhaus, and M. Andermann. 1995. Characterization of the extracellular poly(3-hydroxybutyrate) depolymerase of Comamonas sp. and its structural gene. Can. J. Microbiol. 41:160-169.
21. Jendrossek, D., A. Frisse, A. Behrends, M. Andermann, H. D. Kratzin, T. Stanislawski, and H. G. Schlegel. 1995. Biochemical and molecular characterization of the Pseudomonas lemoignei polyhydroxyalkanoate depolymerase system. J. Bacteriol. 177:596-607.
22. Jendrossek, D., I. Knoke, R. B. Habibian, A. Steinbüchel, and G. Schlegel. 1993. Degradation of poly(3-hydroxybutyrate), PHB, by bacteria and purification of a novel PHB depolymerase from Comamonas sp. J. Environ. Polym. Degrad. 1:53-63.
23. Jendrossek, D., B. Müller, and H. G. Schlegel. 1993. Cloning and characterization of poly(hydroxyalkanoic acid) depolymerase locus, phaZ1, of Pseudomonas lemoignei and its gene product. Eur. J. Biochem. 218:701-710.
24. Jendrossek, D., A. Schirmer, and H. G. Schlegel. 1996. Biodegradation of polyhydroxyalkanoic acids. Appl. Microbiol. Biotechnol. 46:451-463.
25. Kasuya, K., Y. Doi, and T. Yao. 1994. Enzymatic degradation of poly((R)-3-hydroxybutyrate) by Comamonas testosteroni ATSU of soil bacterium. Polym. Deg. Stab. 45:379-386.
26. Kasuya, K., Y. Inoue, Y. Yamada, and Y. Doi. 1995. Kinetics of surface hydrolysis of poly((R)-3-hydroxybutyrate) film by PHB depolymerase from Alcaligenes faecalis T1. Polym. Deg. Stab. 48:167-174.
27. Kita, K., K. Ishimaru, M. Teraoka, H. Yanase, and N. Kato. 1995. Properties of poly(3-hydroxybutyrate) depolymerase from a marine bacterium, Alcaligenes faecalis AE122. Appl. Environ. Microbiol. 61:1727-1730.
28. Klingbeil, B., R. Kroppenstedt, and D. Jendrossek. 1996. Taxonomical identification of Streptomyces exfoliatus K10 and characterization of its poly(3-hydroxybutyrate) depolymerase genes. FEMS Microbiol. Lett. 142:215-221.
29. Kurusu, Y., K. Kohama, Y. Uchida, T. Saito, and H. Yukawa. 1994. Cloning and nucleotide sequencing of the poly(3-hydroxybutyrate) depolymerase gene from Pseudomonas pickettii, p. 357-361. In Y. Doi and K. Fukuda (ed.), Biodegradable plastics and polymers. Elsevier Science B.V., London, England.
30. Laemmli, U. K. 1970. Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature 227:680-685.
31. Lusty, C. J., and M. Doudoroff. 1966. Poly-β-hydroxybutyrate depolymerase of Pseudomonas lemoignei. Proc. Natl. Acad. Sci. USA 56:960-965.
32. Marchessault, R. H., S. Coulombe, H. Morikawa, K. Okamura, and J. F. Revol. 1981. Solid-state properties of poly-β-hydroxybutyrate and of its oligomers. Can. J. Chem. 59:38-44.
33. Mergaert, J., C. Anderson, A. Wouters, J. Swings, and K. Kersters. 1992. Biodegradation of polyhydroxyalkanoates. FEMS Microbiol. Rev. 103:317-322.
34. Mergaert, J., A. Weeb, C. Anderson, A. Wouters, and J. Swings. 1993. Microbial degradation of poly(3-hydroxybutyrate) and poly(3-hydroxybutyrate-co-3-hydroxyvalerate) in soils. Appl. Environ. Microbiol. 59:3233-3238.
35. Mukai, K., K. Yamada, and Y. Doi. 1993. Enzymatic degradation of poly-(hydroxy-alkanoates) by a marine bacterium. Polym. Deg. Stab. 41:85-91.
36. Mukai, K., K. Yamada, and Y. Doi. 1993. Kinetics and mechanism of heterogeneous hydrolysis of poly((R)-3-hydroxybutyrate) film by PHA depolymerases. Int. J. Biol. Macromol. 15:361-366.
37. Mukai, K., K. Yamada, and Y. Doi. 1994. Efficient hydrolysis of polyhydroxyalkanoates by Pseudomonas stutzeri YM1414 isolated from lake water. Polym. Deg. Stab. 43:319-327.
38. Nakayama, K., T. Saito, T. Fukui, Y. Shirakura, and K. Tomita. 1985. Purification and properties of extracellular poly(3-hydroxybutyrate) depolymerase from Pseudomonas lemoignei. Biochim. Biophys. Acta 827:63-72.
39. Nobes, G. A. R., R. H. Marchessault, H. Chanzy, B. H. Briese, and D. Jendrossek. 1996. Splintering of poly(3-hydroxybutyrate) single crystals by PHB-depolymerase A from Pseudomonas lemoignei. Macromolecules 29: 8330-8333.
40. Saito, T., K. Suzuki, J. Yamamoto, T. Fukui, K. Miwa, K. Tomita, S. Nakanishi, S. Odani, J. Suzuki, and K. Ishikawa. 1989. Cloning, nucleotide and expression in Escherichia coli of the gene for poly(3-hydroxybutyrate) depolymerase from Alcaligenes faecalis. J. Bacteriol. 171:184-189.
41. Sanger, F., S. Nicklen, and A. R. Coulson. 1977. DNA sequencing with chain-terminating inhibitors. Proc. Natl. Acad. Sci. USA 74:5463-5467.
42. Shinomiya, M., T. Iwata, K. Kasuya, and Y. Doi. 1997. Cloning of the gene for poly(3-hydroxybutyric acid) depolymerase of Comamonas testosteroni and functional analysis of its substrate-binding domain. FEMS Microbiol. Lett. 154:89-94.
43. Steinbüchel, A. 1991. Polyhydroxyalkanoic acids, p. 123-213. In D. Byrom (ed.), Biomaterials. Macmillan, London, England.
44. Tanio, T., T. Fukui, Y. Shirakura, T. Saito, K. Tomita, T. Kaiho, and S. Masamune. 1982. An extracellular poly(3-hydroxybutyrate) depolymerase from Alcaligenes faecalis. Eur. J. Biochem. 124:71-77.
45. Tomasi, G., M. Scandola, B. H. Briese, and D. Jendrossek. 1996. Enzymatic degradation of bacterial poly(3-hydroxybutyrate) by a depolymerase from Pseudomonas lemoignei. Macromolecules 29:507-513.
46. Uefuji, M., K. Kasuya, and Y. Doi. Enzymatic degradation of poly[(R)-3-hydroxybutyrate]: secretion and properties of PHB depolymerase from Pseudomonas stutzeri. Polym. Deg. Stab., in press.
47. Vieira, J., and J. Messing. 1987. Production of single-stranded plasmid DNA. Methods Enzymol. 153:3-11.
48. Yamada, K., K. Mukai, and Y. Doi. 1993. Enzymatic degradation of poly-(hydroxy-alkanoates) by Pseudomonas pickettii. Int. J. Biol. Macromol. 15: 215-220.
49. Yanisch-Perron, C., J. Vieira, and J. Messing. 1985. Improved M13 phage cloning vectors and host strains: nucleotide sequence of the M13mp18 and pUC19 vectors. Gene 33:103-119.