Nearly identical bacteriophage structural gene sequences are widely distributed in both marine and freshwater environments

Applied and Environmental Microbiology

Volumn 71, Issue 1, 2005, Pages 480-486

  Short, Cindy M ^a   Suttle, Curtis A ^a  

^a UNIVERSITY OF BRITISH COLUMBIA   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

CYANOPHAGES; FRESHWATER; OCEAN; PHYLOGENETIC ANALYSIS;

ATMOSPHERIC TEMPERATURE; BACTERIA; ELECTROPHORESIS; ENVIRONMENTAL IMPACT; SEAWATER;

GENES;

DNA; FRESH WATER; GENE PRODUCT; SEA WATER;

BACTERIOPHAGE; GENETIC VARIATION; MICROBIAL COMMUNITY;

AMINO ACID SUBSTITUTION; ARTICLE; BACTERIOPHAGE; CYANOBACTERIUM; DENATURING GRADIENT GEL ELECTROPHORESIS; GENE AMPLIFICATION; GENE G20; GENE SEQUENCE; HORIZONTAL GENE TRANSFER; MARINE ENVIRONMENT; NONHUMAN; NUCLEOTIDE SEQUENCE; OCEANIC REGIONS; PHYLOGENY; POLYMERASE CHAIN REACTION; STRUCTURAL GENE;

BACTERIOPHAGES; CAPSID; CYANOBACTERIA; DNA PRIMERS; DNA, VIRAL; FRESH WATER; GENES; MOLECULAR SEQUENCE DATA; POLYMERASE CHAIN REACTION; SEAWATER; SEQUENCE ANALYSIS, DNA;

CATFISH; CYANOBACTERIA; UNIDENTIFIED BACTERIOPHAGE;

EID: 12244252269     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/AEM.71.1.480-486.2005     Document Type: Article

References (42)

1. Bergh, O., K. Y. Borsheim, G. Bratbak, and M. Heldal. 1989. High abundance of viruses found in aquatic environments. Nature 340:467-468.
2. Breitbart, M., J. H. Miyake, and F. Rohwer. 2004. Global distribution of nearly identical phage-encoded DNA sequences. FEMS Microbiol. Lett. 236:249-256.
3. Chen, F., and C. A. Suttle. 1996. Evolutionary relationships among large double-stranded DNA viruses that infect microalgae and other organisms as inferred from DNA polymerase genes. Virology 219:170-178.
4. Chen, F., C. A. Suttle, and S. M. Short. 1996. Genetic diversity in marine algal virus communities as revealed by sequence analysis of DNA polymerase genes. Appl. Environ. Microbiol. 62:2869-2874.
5. Dorigo, U., S. Jacquet, and J. F. Humbert. 2004. Cyanophage diversity, inferred from g20 gene analyses, in the largest natural lake in France, Lake Bourget. Appl. Environ. Microbiol. 70:1017-1022.
6. Fogg, G. E. 1995. Some comments on picoplankton and its importance in the pelagic ecosystem. Aquat. Microb. Ecol. 9:33-39.
7. Frederickson, C. M., S. M. Short, and C. A. Suttle. 2003. The physical environment affects cyanophage communities in British Columbia inlets. Microb. Ecol. 46:348-357.
8. Fuhrman, J. A. 1999. Marine viruses and their biogeochemical and ecological effects. Nature 399:541-548.
9. Fuller, N. J., W. H. Wilson, I. R. Joint, and N. H. Mann. 1998. Occurrence of a sequence in marine cyanophages similar to that of T4 g20 and its application to PCR-based detection and quantification techniques. Appl. Environ. Microbiol. 64:2051-2060.
10. Hall, T. A. 1999. Bioedit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp. Ser. 41:95-98.
11. Hambly, E., F. Tetart, C. Desplats, W. H. Wilson, H. M. Krisch, and N. H. Mann. 2001. A conserved genetic module that encodes the major virion components in both the coliphage T4 and the marine cyanophage S-PM2. Proc. Natl. Acad. Sci. USA 98:11411-11416.
12. Hendrix, R. W., M. C. M. Smith, R. N. Burns, M. E. Ford, and G. F. Hatfull. 1999. Evolutionary relationships among diverse bacteriophages and prophages: all the world's a phage. Proc. Natl. Acad. Sci. USA 96:2192-2197.
13. Hennes, K. P., C. A. Suttle, and A. M. Chan. 1995. Fluorescently labeled virus probes show that natural virus populations can control the structure of marine microbial communities. Appl. Environ. Microbiol. 61:3623-3627.
14. Kellogg, C. A., J. B. Rose, S. C. Jiang, J. M. Thurmond, and J. H. Paul. 1995. Genetic diversity of related vibriophages isolated from marine environments around Florida and Hawaii, USA. Mar. Ecol. Progr. Ser. 120:89-98.
15. Li, W. K. W. 1994. Primary production of prochlorophytes, cyanobacteria, and eukaryotic ultraphytoplankton: measurements from flow cytometric sorting. Limnol. Oceanogr. 39:169-175.
16. Lu, J., F. Chen, and R. E. Hodson. 2001. Distribution, isolation, host specificity, and diversity of cyanophages infecting marine Synechococcus spp. in river estuaries. Appl. Environ. Microbiol. 67:3285-3290.
17. Marston, M. F., and J. L. Sallee. 2003. Genetic diversity and temporal variation in the cyanophage community infecting marine Synechococcus species in Rhode Island's coastal waters. Appl. Environ. Microbiol. 69:4639-4647.
18. Middelboe, M., A. Hagstrom, N. Blackburn, B. Sinn, U. Fischer, N. H. Borch, J. Pinhassi, K. Simu, and M. G. Lorenz. 2001. Effects of bacteriophages on the population dynamics of four strains of pelagic marine bacteria. Microb. Ecol. 42:395-406.
19. Proctor, L. M., and J. A. Fuhrman. 1990. Viral mortality of marine bacteria and cyanobacteria. Nature 343:60-62.
20. Sambrook, J., E. F. Fritsch, and T. Maniatis. 1989. Molecular cloning: a laboratory manual, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
21. Scanlan, D. J. 2003. Physiological diversity and niche adaptation in marine Synechococcus. Adv. Microb. Physiol. 47:1-64.
22. Short, S. M., and C. A. Suttle. 2000. Denaturing gradient gel electrophoresis resolves virus sequences amplified with degenerate primers. BioTechniques 28:20-22.
23. Short, S. M., and C. A. Suttle. 2002. Sequence analysis of marine virus communities reveals that groups of related algal viruses are widely distributed in nature. Appl. Environ. Microbiol. 68:1290-1296.
24. Short, S. M., and C. A. Suttle. 2003. Temporal dynamics of natural communities of marine algal viruses and eukaryotes. Aquat. Microb. Ecol. 32:107-119.
25. Suttle, C. A. 2000. The ecological, evolutionary and geochemical consequences of viral infection of cyanobacteria and eukaryotic algae, p. 248-286. In C. J. Hurst (ed.), Viral ecology. Academic Press, London, United Kingdom.
26. Suttle, C. A. 1994. The significance of viruses to mortality in aquatic microbial communities. Microb. Ecol. 28:237-243.
27. Suttle, C. A., and A. M. Chan. 1994. Dynamics and distribution of cyanophages and their effect on marine Synechococcus spp. Appl. Environ. Microbiol. 60:3167-3174.
28. Suttle, C. A., and A. M. Chan. 1993. Marine cyanophages infecting oceanic and coastal strains of Synechococcus-abundance, morphology, cross-infectivity and growth-characteristics. Mar. Ecol. Progr. Ser. 92:99-109.
29. Suttle, C. A., A. M. Chan, and M. T. Cottrell. 1990. Infection of phytoplankton by viruses and reduction of primary productivity. Nature 347:467-469.
30. Suttle, C. A., A. M. Chan, and M. T. Cottrell. 1991. Use of ultrafiltration to isolate viruses from seawater which are pathogens of marine phytoplankton. Appl. Environ. Microbiol. 57:721-726.
31. Suttle, C. A., and C. Feng. 1992. Mechanisms and rates of decay of marine viruses in seawater. Appl. Environ. Microbiol. 58:3721-3729.
32. a. Tajima, F., and M. Nei. 1984. Estimation of evolutionary distance between nucleotide sequences. Mol. Biol. Evol. 1:269-285.
33. Thompson, J. D., T. J. Gibson, F. Plewniak, F. Jeanmougin, and D. G. Higgins. 1997. The CLUSTAL X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 25:4876-4882.
34. Van de Peer, Y., and R. De Wachter. 1994. TREECON for Windows: a software package for the construction and drawing of evolutionary trees for the Microsoft Windows environment. Comput. Appl. Biosci. 10:569-570.
35. Vincent, W. F. 2000. Cyanobacterial dominance in the polar regions, p. 321-340. In B. A. Whitton and M. Potts (ed.), The ecology of cyanobacteria: their diversity in time and space. Kluwer Academic Publishers, Boston, Mass.
36. Wang, K., and F. Chen. 2004. Genetic diversity and population dynamics of cyanophage communities in the Chesapeake Bay. Aquat. Microb. Ecol. 34:105-116.
37. Waterbury, J. B., and F. W. Valois. 1993. Resistance to co-occurring phages enables marine Synechococcus communities to coexist with cyanophages abundant in seawater. Appl. Environ. Microbiol. 59:3393-3399.
38. Wilhelm, S. W., and C. A. Suttle. 1999. Viruses and nutrient cycles in the sea - viruses play critical roles in the structure and function of aquatic food webs. Bioscience 49:781-788.
39. Wilson, W. H., I. R. Joint, N. G. Carr, and N. H. Mann. 1993. Isolation and molecular characterization of five marine cyanophages propagated on Synechococcus WH7803. Appl. Environ. Microbiol. 59:3736-3743.
40. Wilson, W. H., J. F. Nicholas, I. R. Joint, and N. H. Mann. 1999. Analysis of cyanophage diversity in a North-South transect of the Atlantic Ocean. Bull. Inst. Oceanogr. 19:209-216.
41. Wilson, W. H., J. F. Nicholas, I. R. Joint, and N. H. Mann. 2000. Analysis of cyanophage diversity in the marine environment using denaturing gradient gel electrophoresis, p. 565-570. In C. R. Bell, M. Brylinsky, and P. Johnson-Green (ed.), Microbial biosystems: new frontier. Proceedings of the 8th International Symposium on Microbial Ecology, Halifax, Nova Scotia, Canada. Atlantic Canada Society for Microbial Ecology, Halifax, Nova Scotia.
42. Zhong, Y., F. Chen, S. W. Wilhelm, L. Poorvin, and R. E. Hodson. 2002. Phylogenetic diversity of marine cyanophage isolates and natural virus communities as revealed by sequences of viral capsid assembly protein gene g20. Appl. Environ. Microbiol. 68:1576-1584.