Chitinolytic bacteria in the intestinal tract of Japanese coastal fishes

Canadian Journal of Microbiology

Volumn 52, Issue 12, 2006, Pages 1158-1163

  Itoi, Shiro ^a   Okamura, Toshihiro ^a   Koyama, Yuki ^a   Sugita, Haruo ^a  

^a NIHON UNIVERSITY   (Japan)

Author keywords

chitin; 16S rRNA; Chitinolytic bacteria; Coastal fish; Intestinal bacteria

Indexed keywords

Α-CHITIN; 16S RRNA; CHITINOLYTIC BACTERIA; COASTAL FISHES; INTESTINAL BACTERIA;

CHITIN; COASTAL ZONES; COLLOIDS; FISH; RNA;

BACTERIA;

BETA CHITIN; CHITIN; RNA 16S; UNCLASSIFIED DRUG;

BACTERIUM; CHITIN; FISH; PHYLOGENETICS;

ARTICLE; BACTERIUM CULTURE; CHITINOLYTIC BACTERIUM; CONTROLLED STUDY; GENE SEQUENCE; INTESTINE FLORA; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PRIORITY JOURNAL; VIBRIONACEAE;

ANIMALS; BACTERIA; CHITIN; DNA, BACTERIAL; FISHES; INTESTINES; MOLECULAR SEQUENCE DATA; PHYLOGENY; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, RNA; VIBRIONACEAE;

ASIA; EURASIA; FAR EAST; JAPAN;

BACTERIA (MICROORGANISMS); PISCES; VIBRIONACEAE;

EID: 34247335066     PISSN: 00084166     EISSN: None     Source Type: Journal    
DOI: 10.1139/W06-082     Document Type: Article

References (33)

1. Altschul, S.F., Madden, T.L., Schaffer, A.A., Zhang, J., Zhang, Z., Miller, W., and Lipman, D.J. 1997. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25: 3389-3402.
2. Austin, B. 1988. Marine microbiology. Cambridge University Press, Cambridge.
3. 14C-chitin by water column and sediment inocula of the York River estuary, Virginia. Appl. Environ. Microbiol. 60: 174-179.
4. Cottrell, M.T., Moore, J.A., and Kirchman, L. 1999. Chitinases from uncultured marine microorganisms. Appl. Environ. Microbiol. 65: 2553-2557.
5. Hiraishi, A. 1992. Direct automated sequencing of 16S rDNA amplified by polymerase chain reaction from bacterial cultures without DNA purification. Lett. Appl. Microbiol. 15: 210-213.
6. Hood, M.A., and Meyers, S.P. 1973. Microbial aspects of penaeid shrimp digestion. Proc. Gulf Carib. Fish. Inst. 26: 81-92.
7. Hood, M.A., and Meyers, S.P. 1977. Rates of chitin degradation in an estuarine environment. J. Oceanogr. Soc. Jpn. 33: 328-334.
8. Hsu, S.C., and Lockwood, J.L. 1975. Powdered chitin agar as a selective medium for enumeration of actinomycetes in water and soil. Appl. Microbiol. 29: 422-426.
9. Huelsenbeck, J.P., and Ronquist, F. 2001. MRBAYES: Bayesian inference of phylogeny. Bioinformatics, 17: 754-755.
10. Jang, M.-K., Kong, B.-G., Jeong, Y.-I., Lee, C.H., and Nah, J.-W. 2004. Physicochemical characterization of α-chitin, β-chitin, and γ-chitin separated from natural resources. J. Polym. Sci. Part A, 42: 3423-3432.
11. Jerde, C.W., and Lasker, R. 1966. Molting of euphausid shrimps: shipboard observations. Limnol. Oceanogr. 11: 120-124.
12. Jeuniaux, C. 1971. Chitinous structures. Compr. Biochem. 26: 595-632.
13. Kaneko, T., and Colwell, R.R. 1975. Adsorption of Vibrio parahaemolyticus onto chitin and copepods. Appl. Microbiol. 29: 269-274.
14. Lane, D. 1991. 16S/23S rRNA sequencing. In Nucleic acid techniques in bacterial systematics. Edited by E. Stackebrandt and M. Goodfellow. John Wiley & Sons, New York. pp. 115-147.
15. Li, X., and Roseman, S. 2004. The chitinolytic cascade in Vibrios is regulated by chitin oligosaccharides and a two-component chitin catabolic sensor/kinase. Proc. Natl. Acad. Sci. U.S.A. 101: 627-631.
16. Marchuk, D., Drumm, M., Saulono, A., and Collins, F.S. 1991. Construction of T-vectors, a rapid and general system for direct cloning of unmodified PCR products. Nucleic Acids Res. 19: 1154.
17. Nasu, H., Iida, T., Sugahara, T., Yamaichi, Y., Park, K.S., Yokoyama, K., Makino, K., Shinagawa, H., and Honda, T. 2000. A filamentous phage associated with recent pandemic Vibrio parahaemolyticus O3:K6 strains. J. Clin. Microbiol. 38: 2156-2161.
18. Okutani, K., and Kitada, H. 1968. Studies on chitin decomposing bacteria present in digestive tracts of aquatic animals. III. Formation of organic acids. Bull. Jpn. Soc. Sci. Fish. 34: 1141-1146.
19. Ramaiah, N.R., Hill, R.T., Chun, J., Ravel, J., Matte, M.H., Straube, W.L., and Colwell, R.R. 2000. Use of a chiA probe for detection of chitinase genes in bacteria from the Chesapeake Bay. FEMS Microbiol. Ecol. 34: 63-71.
20. Ruiz-Herrera, J. 1992. Fungal cell wall: structure, synthesis, and assembly. CRC Press, Boca Raton, Fla.
21. Shiina, A., Itoi, S., Washio, S., and Sugita, H. 2006. Molecular identification of intestinal microflora in Takifugu niphobles. Comp. Biochem. Physiol. D, 1: 128-132.
22. Suginta, W., Robertson, P.A., Austin, B., Fry, S.C., and Fothergill-Gilmore, L.A. 2000. Chitinases from Vibrio: activity screening and purification of chiA from Vibrio carchariae. J. Appl. Microbiol. 89: 76-84.
23. Suginta, W., Vongsuwan, A., Songsiriritthigul, C., Prinz, H., Estibeiro, P., Duncan, R.R., Svasti, J., and Fothergill-Gilmore, L.A. 2004. An endochitinase A from Vibrio carchariae: cloning, expression, mass and sequence analyses, and chitin hydrolysis. Arch. Biochem. Biophys. 424: 171-180.
24. Sugita, H., Tanaami, H., Kobashi, T., and Deguchi, Y. 1981. Bacterial flora of coastal bivalves. Nippon Suisan Gakkaishi, 47: 655-661.
25. Sugita, H., Noguchi, T., Hwang, D.F., Furuta, M., Motokane, T., Sonoda, T., Hashimoto, K., and Deguchi, Y. 1987. Intestinal microflora of coastal puffer fishes. Nippon Suisan Gakkaishi, 53: 2201-2207.
26. Sugita, H., Miyajima, C., Iwata, J., Arai, S., Kubo, T., Igarashi, S., and Deguchi, Y. 1988a. Intestinal microflora of Japanese coastal fishes. Nippon Suisan Gakkaishi, 54: 875-882.
27. Sugita, H., Noguchi, T., Furuta, M., Harada, T., Murata, O., Hashimoto, K., and Deguchi, Y. 1988b. The intestinal microflora of cultured specimens of a puffer Fugu rubripes rubripes. Nippon Suisan Gakkaishi, 54: 733.
28. Sugita, H., Matsuo, N., Shibuya, K., and Deguchi, Y. 1996. Production of antibacterial substances by intestinal bacteria isolated from coastal crab and fish species. J. Mar. Biotechnol. 4: 220-223.
29. Sugita, H., Kurosaki, M., Okamura, T., Yamamoto, S., and Tsuchiya, C. 2005. The culturability of intestinal bacteria of Japanese coastal fish. Fish. Sci. 71: 956-958.
30. Swofford, D.L. 2003. PAUP*: phylogenetic analysis using parsimony (* and other methods). Version 4. Sinauer Associates, Sunderland, Mass.
31. Thompson, J.D., Higgins, D.G., and Gibson, T.J. 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22: 4673-4680.
32. Thompson, J.D., Gibson, T.J., Plewniak, F., Jeanmougin, F., and Higgins, D.G. 1997. The Clustal_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 25: 4876-4882.
33. Weisburg, W.G., Barns, S.M., Pelletier, D.A., and Lane, D.J. 1991. 16S ribosomal DNA amplification for phylogenetic study. J. Bacteriol. 173: 697-703.