Microbial diversity within early-stage cultured Panulirus ornatus phyllosomas

Applied and Environmental Microbiology

Volumn 73, Issue 6, 2007, Pages 1940-1951

  Payne, Matthew S ^a,b   Hall, Mike R ^a   Sly, Lindsay ^b   Bourne, David G ^a  

^a AUSTRALIAN INSTITUTE OF MARINE SCIENCE   (Australia)

^b UNIVERSITY OF QUEENSLAND   (Australia)

Author keywords

[No Author keywords available]

Indexed keywords

AQUACULTURE; DISEASE CONTROL; PATHOGENS; SCANNING ELECTRON MICROSCOPY;

CLONE LIBRARY; FLUORESCENT IN SITU HYBRIDIZATION (FISH); PHYLLOSOMAS;

MICROBIOLOGY;

RIBOSOME RNA;

BACTERIAL DISEASE; COLONIZATION; IMMUNE SYSTEM; LOBSTER CULTURE; MICROBIAL ACTIVITY; MOLT; MORTALITY; PATHOGENICITY; RNA;

AQUACULTURE; ARTICLE; BACTERIAL COLONIZATION; BACTERIAL FLORA; BACTERIUM; BACTERIUM CULTURE; DENATURING GRADIENT GEL ELECTROPHORESIS; FLUORESCENCE IN SITU HYBRIDIZATION; LARVAL STAGE; LEUCOTHRIX; LOBSTER; MICROBIAL DIVERSITY; MOLTING; NONHUMAN; NUCLEOTIDE SEQUENCE; PANULIRUS ORNATUS; RNA SEQUENCE; SCANNING ELECTRON MICROSCOPY; THIOTHRIX; UNINDEXED SEQUENCE; VIBRIO; VIBRIO HARVEYI;

ANIMALS; BACTERIA; BASE SEQUENCE; BIODIVERSITY; DNA FINGERPRINTING; DNA, BACTERIAL; GENE LIBRARY; IN SITU HYBRIDIZATION, FLUORESCENCE; LARVA; MICROSCOPY, ELECTRON, SCANNING; MOLECULAR SEQUENCE DATA; PALINURIDAE; SEQUENCE ANALYSIS, DNA;

DISEASES; MICROBIOLOGY; PATHOGENS; SCANNING ELECTRON MICROSCOPY;

ANIMALIA; BACTERIA (MICROORGANISMS); LEUCOTHRIX; PANULIRUS ORNATUS; PHYLLOSOMAS; THIOTHRIX; THIOTHRIX SP.; VIBRIO HARVEYI; VIBRIO SP.;

EID: 33947381025     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/AEM.02520-06     Document Type: Article

References (78)

1. ABARE. 2003. Australian Fisheries Statistics 2002 Canberra. ABARE, Canberra, Australia.
2. al Saif, N., and J. S. Brazier. 1996. The distribution of Clostridium difficile in the environment of South Wales. J. Med. Microbiol. 45:133-137.
3. Altschul, S. F., T. L. Madden, A. A. Schaeffer, J. Zhang, Z. Zhang, W. Miller, and D. J. Lipman. 1997. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25:3389-3402.
4. Amann, R. I., L. Krumholz, and D. A. Stahl. 1990. Fluorescent-oligonucleotide probing of whole cells for determinative, phylogenetic, and environmental studies in microbiology. J. Bacteriol. 172:762-770.
5. Bourne, D., N. Webster, M. Payne, L. Hoj, M. Skindersoe, and M. Hall. Towards the development of rock lobster aquaculture: aspects of the microbiology of phyllosoma rearing of the ornate rock lobster Panulirus ornatus. Aquaculture, in press.
6. Bourne, D. G., N. Young, N. Webster, M. Payne, M. Salmon, S. Demel, and M. Hall. 2004. Microbial community dynamics in a larval aquaculture system of the tropical rock lobster, Panulirus ornatus. Aquaculture 242:31-51.
7. Brigmon, R. L., and C. De Ridder. 1998. Symbiotic relationship of Thiothrix spp. with an echinoderm. Appl. Environ. Microbiol. 64:3491-3495.
8. Burgents, J. E., K. G. Burnett, and L. E. Burnett. 2005. Effects of hypoxia and hypercapnic hypoxia on the localization and the elimination of Vibrio campbellii in Litopenaeus vannamei, the Pacific White Shrimp. Biol. Bull. 208:159-168.
9. Chao, A. 1987. Estimating the population-size for capture recapture data with unequal catchability. Biometrics 43:783-791.
10. Chao, A. 1984. Non-parametric estimation of the number of classes in a population. Scand. J. Stat. 11:265-270.
11. Colwell, R. K. 2005. EstimateS: statistical estimation of species richness and shared species from samples. User's guide and application, version 7.5. [Online.] http://purl.oclc.org/estimates.
12. Crear, B. J., and G. N. R. Forteath. 1998. A physiological investigation into methods of improving post capture survival of both the southern rock lobster Jasus edwardsii, and the western rock lobster Panulirus cygnus. FRDC final report, FRDC project no. 1999/315. University of Tasmania, Launceston, Tasmania.
13. Diggles, B. K. 1999. Diseases of spiny lobsters in New Zealand, p. 18-34. In L. H. Evans and J. B. Jones (ed.), Conference proceedings of the International Symposium on Lobster Health Management. Curtin University of Technology, Perth, Australia.
14. Diggles, B. K., G. A. Moss, J. Carson, and C. D. Anderson. 2000. Luminous vibriosis in rock lobster Jasus verreauxi (Decapoda: Palinuridae) phyllosoma larvae associated with infection by Vibrio harveyi. Dis. Aquat. Org. 43:127-137.
15. Ferris, M. J., G. Muyzer, and D. M. Ward. 1996. Denaturing gradient gel electrophoresis profiles of 16S rRNA-defined populations inhabiting a hot spring microbial mat community. Appl. Environ. Microbiol. 62:340-346.
16. Fisher, R. A., A. S. Corber, and C. B. Williams. 1943. The relation between the number of species and the number of individuals in a random sample of an animal population. J. Anim. Ecol. 12:42-58.
17. Foggo, A., S. D. Rundle, and D. T. Bilton. 2003. The net result: evaluating species richness extrapolation techniques for littoral pond invertebrates. Freshw. Biol. 48:1756-1764.
18. Ford, P. L., and N. J. Scott. 1996. Thiothrix sp. (Beggiatoaceae) from tadpoles in Western Mexico. Southwest. Nat. 41:328-331.
19. Gelsomino, A., A. C. Keijzer-Wolters, G. Cacco, and J. D. van Elsas. 1999. Assessment of bacterial community structure in soil by polymerase chain reaction and denaturing gradient gel electrophoresis. J. Microbiol. Methods 38:1-15.
20. Giuliano, L., M. De Domenico, E. De Domenico, M. G. Hofle, and M. M. Yakimov. 1999. Identification of culturable oligotrophic bacteria within naturally occuring bacterioplankton communities of the Ligurian Sea by 16S rRNA sequencing and probing. Microb. Ecol. 37:77-85.
21. Gobble, M. G., C. M. West, and R. L. Kratz. 2004. Removal of sulfite from incinerator air pollution control. IT3 '04 Conference, May 10-14, 2004, Phoenix, Arizona. RMT, Inc., Madison, WI. http://www.rmtinc.com/public /docs/Sulfite_Oxid_04.pdf.
22. Good, I. J. 1953. The population frequencies of species and the estimation to the population parameters. Biometrika 40:237-264.
23. Hameed, A. S. S., and P. V. Rao. 1994. Studies on the chemical control of a Vibrio campbellii-like bacterium affecting hatchery-reared Penaeus indicus larvae. Aquaculture 127:1-9.
24. Handlinger, J., J. Carson, A. Ritar, and B. Crear. 2000. A study of diseases in cultured phyllosoma larvae and juveniles of southern rock lobster (Jasus edwardsii). J. Shellfish Res. 19:676.
25. Handlinger, J., J. Carson, A. J. Ritar, B. J. Crear, D. P. Taylor, and D. Johnston. 1999. Disease conditions of cultured phyllosoma larvae and juveniles of the southern rock lobster (Jasus edwardsii, Decapoda; Palinuridae), p. 75-87. In L. H. Evans and J. B. Jones (ed.), Proceedings of the International Symposium on Lobster Health Management. Curtin University of Technology, Perth, Australia.
26. Harris, L. J., and L. Owens. 1999. Production of exotoxins by two luminous Vibrio harveyi strains known to be primary pathogens of Penaeus monodon larvae. Dis. Aquat. Org. 38:11-22.
27. Heck, K. L. J., G. Van Belle, and D. Simberloff. 1975. Explicit calculation of the rarefaction diversity measurements and the determination of sufficient sample size. Ecology 56:1459-1461.
28. Holland, S. H. 1988. A rarefactwin program, version 1.2. [Online.] http: //www.uga.edu/strata/Software.html.
29. Holman, J. D., K. G. Burnett, and L. E. Burnett. 2004. Effects of hypercapnic hypoxia on the clearance of Vibrio campbellii in the Atlantic Blue Crab, Callinectes sapidus Rathbun. Biol. Bull. 206:188-196.
30. Hurlbert, S. H. 1971. The non-concept of species diversity: a critique and alternative parameters. Ecology 52:577-586.
31. Johnson, P. W., J. M. Sieburth, A. Sastry, C. R. Arnold, and M. S. Doty. 1971. Leucothrix mucor infestation of benthic Crustacea, fish eggs, and tropical algae. Limnol. Oceanogr. 16:962-969.
32. Jory, D., and T. Cabrera. 2003. Marine shrimp, p. 382-419. In J. S. Lucas and P. C. Southgate (ed.), Aquaculture: farming aquatic animals and plants. Blackwell Publishing, Ltd., London, Great Britain.
33. Kanagawa, T., Y. Kamagata, S. Aruga, T. Kohno, M. Horn, and M. Wagner. 2000. Phylogenetic analysis of and oligonucleotide probe development for eikelboom type 021N filamentous bacteria isolated from bulking activated sludge. Appl. Environ. Microbiol. 66:5043-5052.
34. Kappler, U., and C. Dahl. 2001. Enzymology and molecular biology of prokaryotic sulfite oxidation. FEMS Microbiol. Lett. 203:1-9.
35. Kittaka, J. 2000. Culture of the spiny lobster. Blackwell Scientific Publications, Oxford, England.
36. Kittaka, J., and F. A. Abrunhosa. 1997. Characteristics of palinurids (Decapoda: Crustacea) in larval culture. Hydrobiologia 358:305-311.
37. Lane, D. J. 1991. 16S/23S rRNA sequencing, p. 115-175. In E. S. M. Goodfellow (ed.), Nucleic acid techniques in bacterial systematics. Wiley, Chichester, England.
38. Larkin, J. M., M. C. Henk, and S. D. Burton. 1990. Occurrence of a Thiothrix sp. attached to mayfly larvae and presence of parasitic bacteria in the Thiothrix sp. Appl. Environ. Microbiol. 56:357-361.
39. Lee, K. K., S. R. Yu, F. R. Chen, T. I. Yang, and P. C. Liu. 1996. Virulence of Vibrio alginolyticus isolated from diseased tiger prawn, Penaeus monodon. Curr. Microbiol. 32:229-231.
40. Lightner, D. V. 1983. Diseases of cultured penaeid shrimp, p. 289-320. In J. P. McVey and J. R. Moore (ed.), CRC handbook of mariculture, vol. 1. CRC Press, Boca Raton, FL.
41. Liu, P. C., K. K. Lee, and S. N. Chen. 1996. Pathogenicity of different isolates of Vibrio harveyi in tiger prawn, Penaeus monodon. Lett. Appl. Microbiol. 22:413-416.
42. Liu, P. C., and K. K. Lee. 1999. Cysteine protease is a major exotoxin of pathogenic luminous Vibrio harveyi in the tiger prawn, Penaeus monodon. Lett. Appl. Microbiol. 28:428-430.
43. Liu, C. H., S. T. Yeh, S. Y. Cheng, and J. C. Chen. 2004. The immune response of the white shrimp Litopenaeus vannamei and its susceptibility to Vibrio infection in relation with the moult cycle. Fish Shellfish Immunol. 16:151-161.
44. Ludwig, W., O. Strunk, S. Klugbauer, N. Klugbauer, M. Weizenegger, J. Neumaier, M. Bachleitner, and K. H. Schleifer. 1998. Bacterial phylogeny based on comparative sequence analysis. Electrophoresis 19:554-568.
45. Ludwig, W., O. Strunk, R. Westram, L. Richter, H. Meier, Yadhukumar, A. Buchner, T. Lai, S. Steppi, G. Jobb, W. Forster, I. Brettske, S. Gerber, A. W. Ginhart, O. Gross, S. Grumann, S. Hermann, R. Jost, A. Konig, T. Liss, R. Lussmann, M. May, B. Nonhoff, B. Reichel, R. Strehlow, A. Stamatakis, N. Stuckmann, A. Vilbig, M. Lenke, T. Ludwig, A. Bode, and K. H. Schleifer. 2004. ARB: a software environment for sequence data. Nucleic Acids Res. 32:1363-1371.
46. Ma, J., Q. Wang, F. Ma, and M. Liu. 1996. A pathogen of septicopyaemia in the abalone Haliotis discus hannai Ino. Dalian, China. J. Fish. China/ Shuichan Xuebao 20:332-336.
47. Maarit Niemi, R., I. Heiskanen, K. Wallenius, and K. Lindstrom. 2001. Extraction and purification of DNA in rhizosphere soil samples for PCR-DGGE analysis of bacterial consortia. J. Microbiol. Methods 45:155-165.
48. Madigan, M. T., J. M. Martinko, and J. Parker. 2000. Biology of microorganisms. Prentice-Hall International, Inc., New York, NY.
49. Magurran, A. E. 1988. Ecological diversity and its measurement. Princeton University Press, Princeton, NJ.
50. Maidak, B. L., G. J. Olsen, N. Larsen, R. Overbeek, M. J. McCaughey, and C. R. Woese. 1996. The Ribosomal Database Project (RDP). Nucleic Acids Res. 24:82-85.
51. Miller, W. A., M. A. Miller, I. A. Gardner, E. R. Atwill, B. A. Byrne, S. Jang, M. Harris, J. Ames, D. Jessup, D. Paradies, K. Worcester, A. Melli, and P. A. Conrad. 2006. Salmonella spp., Vibrio spp., Clostridium perfringens, and Plesiomonas shigelloides in marine and freshwater invertebrates from coastal California ecosystems. Microb. Ecol. 52:198-206.
52. Milner, K. C., and M. F. Schaffer. 1952. Bacteriological studies of experimental Salmonella infections in chicks. J. Infect. Dis. 90:81-96.
53. Montero, A. B., and B. Austin. 1999. Characterization of extracellular products from an isolate of Vibrio harveyi recovered from diseased post-larval Penaeus vannamei (Bonne). J. Fish Dis. 22:377-386.
54. Moyer, C. B., F. Dobbs, and D. Karl. 1994. Estimation of diversity and community structure through restriction fragment length polymorphism distribution analysis of bacterial 16S rRNA genes from a microbial mat at an active, hydrothermal vent system, Loihi Seamount, Hawaii. Appl. Environ. Microbiol. 60:871-879.
55. Munro, J., J. Oakey, E. Bromage, and L. Owens. 2003. Experimental bacteriophage-mediated virulence in strains of Vibrio harveyi. Dis. Aquat. Org. 54:187-194.
56. Muyzer, G., and K. Smalla. 1998. Application of denaturing gradient gel electrophoresis (DGGE) and temperature gradient gel electrophoresis (TGGE) in microbial ecology. Antonie Leeuwenhoek 73:127-141.
57. Muyzer, G., E. C. de Waal, and A. G. Uitterlinden. 1993. Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA. Appl. Environ. Microbiol. 59:695-700.
58. Nielsen, P. H., M. A. de Muro, and J. L. Nielsen. 2000. Studies on the in situ physiology of Thiothrix spp. present in activated sludge. Environ. Microbiol. 2:389-398.
59. Nikolausz, M., R. Sipos, S. Revesz, A. Szekely, and K. Marialigeti. 2005. Observation of bias associated with re-amplification of DNA isolated from denaturing gradient gels. FEMS Microbiol. Lett. 244:385-390.
60. Payne, M. S., M. R. Hall, R. Bannister, L. Sly, and D. G. Bourne. 2006. Microbial diversity within the water column of a larval rearing system for the ornate rock lobster (Panulirus ornatus). Aquaculture 258:80-90.
61. Rengpipat, S., S. Rukpratanporn, S. Piyatiratitivorakul, and P. Menasaveta. 2000. Immunity enhancement in black tiger shrimp (Penaeus monodon) by a probiont bacterium (Bacillus S11). Aquaculture 191:271-288.
62. Retief, J. D. 2000. Phylogenetic analysis using PHYLIP. Methods Mol. Biol. 132:243-258.
63. Rosemark, R., and W. S. Fisher. 1988. Vibriosis of lobster, p. 240-243. In C. J. Sindermann and D. V. Lightner (ed.), Disease diagnosis and control in North American marine aquaculture, 2nd rev. Elsevier Science Publishers, B.V., Amsterdam, The Netherlands.
64. Sahul Hameed, A. S. 1995. Susceptibility of three Penaeus species to a Vibrio campbellii-like bacterium. J. World Aquacult. Soc. 26:315-319.
65. Sahul Hameed, A. S., P. V. Rao, J. J. Farmer, F. W. Hickman-Brenner, and G. R. Fanning. 1996. Characteristics and pathogenicity of a Vibrio campbellii-like bacterium affecting hatchery-reared Penaeus indicus (Milne Edwards, 1837) larvae. Aquacult. Res. 27:853-863.
66. Shannon, C. E., and W. Weaver. 1963. The mathematical theory of communication. University of Illinois Press, Urbana.
67. Shao, Z. L. 2001. Aquaculture pharmaceuticals and biologicals: current perspectives and future possibilities. Adv. Drug Deliv. Rev. 50:229-243.
68. Shen, X., Y. Cai, and W. Fang. 2005. Identification of Vibrio campbellii isolated from cultured pacific oyster. Acta Microbiol. Sin. 45:177-180.
69. Simberloff, D. 1978. Use of rarefaction and related methods in ecology, p. 150-165. In K. L. Dickson, J. J. Cairns, and R. J. Livingston (ed.), Biological data in water pollution assessment: quantitative and statistical analyses. American Society for Testing and Materials, Philadelphia, PA.
70. Smith, V. J., J. H. Brown, and C. Hauton. 2003. Immunostimulation in crustaceans: does it really protect against infection? Fish Shellfish Immunol. 15:71-90.
71. Sorokin, D. Y. 1995. Sulfitobacter pontiacus gen. nov., sp. nov.: a new heterotrophic bacterium from the black sea specialized on sulfite oxidation. Microbiology 64:295-305.
72. Takahashi, Y., T. Itami, and M. Kondo. 1995. Immunodefense system of Crustacea. Fish Pathol./Gyobyo Kenkyu 30:141-150.
73. Temara, A., C. De Ridder, J. C. Kuenen, and L. A. Robertson. 1993. Sulfide-oxidizing bacteria in the burrowing echinoid, Echinocardium cordatum (Echinodermata). Mar. Biol. 115:179-185.
74. Vandenberghe, J., Y. Li, L. Verdonck, J. Li, P. Sorgeloos, H. S. Xu, and J. Swings. 1998. Vibriosis associated with Penaeus chinensis (Crustacea: Decapoda) larvae in Chinese shrimp hatcheries. Aquaculture 169:121-132.
75. Wagner, M., R. Amann, H. Lemmer, W. Manz, and K. H. Schleifer. 1994. Probing activated sludge with fluorescently labeled rRNA targeted oligonucleotides. Water Sci. Technol. 29:15-23.
76. Webster, N. S., D. G. Bourne, and M. Hall. 2006. Vibrionaceae infection in phyllosomas of the tropical rock lobster Panulirus ornatus as detected by fluorescence in situ hybridization. Aquaculture 255:173-178.
77. Wibowo, S., S. Putro, S. Sukarto, and S. Wardoyo. 1992. Bacterial load of normal moulting and delayed moulting farmed tiger shrimp (Penaeus monodon Fab.). FAO, Rome, Italy.
78. Zhu, X. Y., T. Zhong, Y. Pandya, and R. D. Joerger. 2002. 16S rRNA-based analysis of microbiota from the cecum of broiler chickens. Appl. Environ. Microbiol. 68:124-137.