Viruses in the sea

Nature

Volumn 437, Issue 7057, 2005, Pages 356-361

  Suttle, Curtis A ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIA; GENES; NUTRITION; RESERVOIRS (WATER); VIRUSES;

GENETIC DIVERSITY; GLOBAL GEOCHEMICAL CYCLES; MORTALITY; TERRESTRIAL RESERVOIRS;

OCEAN HABITATS;

BIOGEOCHEMICAL CYCLE; GLOBAL OCEAN; VIRUS;

ALGAL BLOOM; BACTERIUM; GENETIC VARIABILITY; GEOCHEMISTRY; LIFESPAN; NONHUMAN; NUTRIENT; PRIORITY JOURNAL; REVIEW; SEA; VIROLOGY; VIRUS; VIRUS INFECTION; VIRUS VIRULENCE; WHALE; ANIMAL; ANIMAL DISEASE; GENETICS; GROWTH, DEVELOPMENT AND AGING; ISOLATION AND PURIFICATION; MICROBIOLOGY; VIRAL PHENOMENA AND FUNCTIONS;

ALGAE; BACTERIA (MICROORGANISMS); CETACEA;

SEA WATER;

ANIMALS; SEAWATER; VIRAL PHYSIOLOGY; VIRUS DISEASES; VIRUSES; WATER MICROBIOLOGY;

EID: 25144506135     PISSN: 00280836     EISSN: 14764687     Source Type: Journal    
DOI: 10.1038/nature04160     Document Type: Review

References (85)

1. Bergh, O., Børsheim, K. Y., Bratbak, G. & Heldal, M. High abundance of viruses found in aquatic environments. Nature 340, 467-468 (1989).
2. Proctor, L. M. & Fuhrman, J. A. Viral mortality of marine bacteria and cyanobacteria. Nature 343, 60-62 (1990).
3. Suttle, C. A., Chan, A. M. & Cottrell, M. T. Infection of phytoplankton by viruses and reduction of primary productivity. Nature 347, 467-469 (1990).
4. Wilhelm, S. W. & Suttle, C. A. Viruses and nutrient cycles in the sea. Bioscience 49, 781-788 (1999).
5. Fuhrman, J. A. Marine viruses and their biogeochemical and ecological effects. Nature 399, 541-548 (1999).
6. Wommack, K. E. & Colwell, R. R. Virioplankton: viruses in aquatic ecosystems. Microbiol. Mol. Biol. Rev. 64, 69-114 (2000).
7. Weinbauer, M. G. Ecology of prokaryotic viruses. FEMS Microbiol. Rev. 28, 127-181 (2004).
8. Weinbauer, M. G. & Rassoulzadegan, F. Are viruses driving microbial diversification and diversity? Environ. Microbiol. 6, 1-11 (2004).
9. Cochlan, W. P., Wikner, J., Steward, G. F., Smith, D. C. & Azam, F. Spatial distribution of viruses, bacteria and chlorophyll a in neritic, oceanic and estuarine environments. Mar. Ecol. Prog. Ser. 92, 77-87 (1993).
10. Paul, J. H., Rose, J. B., Jiang, S. C., Kellogg, C. A. & Dickson, L. Distribution of viral abundance in the reef environment of Key Largo, Florida. Appl. Environ. Microbiol. 59, 718-724 (1993).
11. Boehme, J. et al. Viruses, bacterioplankton, and phytoplankton in the southeastern Gulf of Mexico: distribution and contribution to oceanic DNA pools. Mar. Ecol. Prog. Ser. 97, 1-10 (1993).
12. Maranger, R. & Bird, D. F. Viral abundances in aquatic systems: a comparison between marine and fresh waters. Mar. Ecol. Prog. Ser. 121, 217-226 (1995).
13. Hewson, I., O'Neil, J. M., Fuhrman, J. A. & Dennison, W. C. Virus-Like particle distribution and abundance in sediments and overlying waters along eutrophication gradients in two subtropical estuaries. Limnol. Oceanogr. 46, 1734-1746 (2001).
14. Middelboe, M., Glud, R. N. & Finster, K. Distribution of viruses and bacteria in relation to diagenetic activity in an estuarine sediment. Limnol. Oceanogr. 48, 1447-1456 (2003).
15. Bird, D. F. et al. Subsurface viruses and bacteria in Holocene/Late Pleistocene sediments of Saanich Inlet, BC: ODP holes 1033b and 1034b, Leg 169s. Mar. Geol. 174, 227-239 (2001).
16. Danovaro, R., Corinaldesi, C., Dell'anno, A., Fabiano, M. & Corselli, C. Viruses, prokaryotes and DNA in the sediments of a deep-hypersaline anoxic basin (DHAB) of the Mediterranean Sea. Environ. Microbiol. 7, 586-592 (2005).
17. Hennes, K. P. & Suttle, C. A. Direct counts of viruses in natural waters and laboratory cultures by epifluorescence microscopy. Limnol. Oceanogr. 40, 1050-1055 (1995).
18. Noble, R. T. & Fuhrman, J. A. Use of SYBR Green I for rapid epifluorescence counts of marine viruses and bacteria. Aquat. Microb. Ecol. 14, 113-118 (1998).
19. Brussaard, C. P. D. Optimization of procedures for counting viruses by flow cytometry. Appl. Environ. Microbiol. 70, 1506-1513 (2004).
20. Bettarel, Y., Sime-Ngando, T., Amblard, C. & Laveran, H. A comparison of methods for counting viruses in aquatic systems. Appl. Environ. Microbiol. 66, 2283-2289 (2000).
21. Wen, K., Ortmann, A. C. & Suttle, C. A. Accurate estimation of viral abundance by epifluorescence microscopy. Appl. Environ. Microbiol. 70, 3862-3867 (2004).
22. Guixa-Boixereu, N., Vaque, D., Gasol, J. M., Sanchez-Camara, J. & Pedros-Alio, C. Viral distribution and activity in Antarctic waters. Deep-Sea Res. II 49, 827-845 (2002).
23. Ortmann, A. C. & Suttle, C. A. High abundances of viruses in a deep-sea hydrothermal vent system indicates viral mediated microbial mortality. Deep-Sea Res. I 52, 1515-1527 (2005).
24. Jelmert, A.& Oppen-Berntsen, D. O. Whalingand deep-sea biodiversity. Conserv. Biol. 10, 653-654 (1996).
25. Wilhelm, S. W., Weinbauer, M. G., Suttle, C. A., Pledger, R. J. & Mitchell, D. L. Measurements of DNA damage and photoreactivation imply that most viruses in marine surface waters are infective. Aquat. Microb. Ecol. 14, 215-222 (1998).
26. Suttle, C. A. in Viral Ecology (ed. Hurst, C.J.) 248-286 (Academic, New York, 2000).
27. Lawrence, J. E., Chan, A. M. & Suttle, C. A. Viruses causing lysis of the toxic bloom-forming alga, Heterosigma akashiwo (Raphidophyceae), are widespread in coastal sediments of British Columbia, Canada. Limnol. Oceanogr. 47, 545-550 (2002).
28. Suttle, C. A. & Chan, A. M. Dynamics and distribution of cyanophages and their effect on marine Synechococcus spp. Appl. Environ. Microbiol. 60, 3167-3174 (1994).
29. Cottrell, M. T. & Suttle, C. A. Dynamics of a lytic virus infecting the photosynthetic marine picoflagellate, Micromonas pusilla. Limnol. Oceanogr. 40, 730-739 (1995).
30. Frank, H. & Moebus, K. An electron microscopic study of bacteriophages from marine waters. Helgolander Meeresunters 41, 385-414 (1987).
31. Moebus, K. & Nattkemper, H. Bacteriophage sensitivity patterns among bacteria isolated from marine waters. Helgolander Meeresunters 34, 375-385 (1981).
32. Kellogg, C. A., Rose, J. B., Jiang, S. C., Thurmond, J. & Paul, J. H. Genetic diversity of related vibriophages isolated from marine environments around Florida and Hawaii, USA. Mar. Ecol. Prog. Ser. 120, 89-98 (1995).
33. Wichels, A. et al. Bacteriophage diversity in the North Sea. Appl. Environ. Microbiol. 64, 4128-4133 (1998).
34. Sullivan, M. B., Waterbury, J. B. & Chisholm, S. W. Cyanophages infecting the oceanic cyanobacterium Prochlorococcus. Nature 424, 1047-1051 (2003).
35. Van Etten, J. L., Graves, M. V., Muller, D. G., Boland, W. & Delaroque, N. Phycodnaviridae - Large DNA algal viruses. Arch. Virol. 147, 1479-1516 (2002).
36. Lang, A. S., Culley, A. I. & Suttle, C. A. Genome sequence and characterization of a virus (HaRNAV) related to picorna-like viruses that infects the marine toxic bloom-forming alga Heterosigma akashiwo. Virology 320, 206-217 (2004).
37. Brussaard, C. P. D., Noordeloos, A. A. M., Sandaa, R. A., Heldal, M. & Bratbak, G. Discovery of a dsRNA virus infecting the marine photosynthetic protist Micromonas pusilla. Virology 319, 280-291 (2004).
38. Takao, Y., Nagasaki, K., Mise, K., Okuno, T. & Honda, D. Isolation and characterization of a novel single-stranded RNA virus infectious to a marine fungoid protist, Schizochytrium sp. (Thraustochytriaceae, Labyrinthulea). Appl. Environ. Microbiol. 71, 4516-4522 (2005).
39. Nagasaki, K. et al. Previously unknown virus infects marine diatom. Appl. Environ. Microbiol. 71, 3528-3535 (2005).
40. Lawrence, J. E., Chan, A. M. & Suttle, C. A. A novel virus (HaNIV) causes lysis of the toxic bloom-forming alga Heterosigma akashiwo (Raphidophyceae) J. Phycol. 37, 216-222 (2001).
41. Bettarel, Y. et al. Isolation and characterisation of a small nuclear inclusion virus infecting the diatom Chaetoceros c.f. gracilis. Aquat. Microb. Ecol. (in the press).
42. Garza, D. R. & Suttle, C. A. Large double-stranded DNA viruses which cause the lysis of marine heterotrophic nanoflagellates (Bodo sp.) occur in natural marine virus communities. Aquat. Microb. Ecol. 9, 203-210 (1995).
43. Raoult, D. et al. The 1.2-megabase genome sequence of mimivirus. Science 306, 1344-1350 (2004).
44. Van Hulten, M. C. W. et al. The White Spot Syndrome Virus DNA genome sequence. Virology 286, 7-22 (2001).
45. Zhang, S., Shi, Z., Zhang, J. & Bonami, J. R. Purification and characterization of a new reovirus from the Chinese Mitten Crab, Eriocheir sinensis. J. Fish Dis. 27, 687-692 (2004).
46. Chen, F., Suttle, C. A. & Short, S. M. Genetic diversity in marine algal virus communities as revealed by sequence analysis of DNA polymerase genes. Appl. Environ. Microbiol. 62, 2869-2874 (1996).
47. Short, S. M. & Suttle, C. A. Sequence analysis of marine virus communities reveals that groups of related algal viruses are widely distributed in nature. Appl. Environ. Microbiol. 68, 1290-1296 (2002).
48. Wilson, W. H., Fuller, N. J., Joint, I. R. & Mann, N. H. Analysis of cyanophage diversity and population structure in a south-north transect of the Atlantic Ocean. Bull. Inst. Oceanogr. 19, 209-216 (1999).
49. Frederickson, C. M., Short, S. M. & Suttle, C. A. The physical environment affects cyanophage communities in British Columbia inlets. Microb. Ecol. 46, 348-357 (2003).
50. Zhong, Y., Chen, F., Wilhelm, S. W., Poorvin, L. & Hodson, R. E. 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 (2002).
51. Short, C. M. & Suttle, C. A. Nearly identical bacteriophage structural gene sequences are widely distributed in both marine and freshwater environments. Appl. Environ. Microbiol. 71, 480-486 (2005).
52. Breitbart, M., Miyake, J. H. & Rohwer, F. Global distribution of nearly identical phage-encoded DNA sequences. FEMS Microbiol. Lett. 236, 249-256 (2004).
53. Culley, A. I., Lang, A. S. & Suttle, C .A. High diversity of unknown picorna-like viruses in the sea. Nature 424, 1054-1057 (2003).
54. Breitbart, M. et al. Genomic analysis of uncultured marine viral communities. Proc. Natl Acad. Sci. USA 99, 14250-14255 (2002).
55. Breitbart, M. et al. Diversity and population structure of a near-shore marine-sediment viral community. Proc. R. Soc. Lond. B271, 565-574 (2004).
56. Breitbart, M. & Rohwer, F. Here a virus, there a virus, everywhere the same virus? Trends Microbiol. 13, 278-284 (2005).
57. Edwards, R. A. & Rohwer, F. Viral metagenomics. Nature Rev. Microbiol. 3, 504-510 (2005).
58. Rohwer, F. et al. The complete genomic sequence of the marine phage Roseophage SIO1 shares homology with nonmarine phages. Limnol. Oceanogr. 45, 408-418 (2000).
59. Hardies, S. C., Comeau, A. M., Serwer, P. & Suttle, C. A. The complete sequence of marine bacteriophage VpV262 infecting Vibrio parahaemolyticus indicates that an ancestral component of a T7 viral supergroup is widespread in the marine environment. Virology 310, 359-371 (2003).
60. Chen, F. & Lu, J. R. Genomic sequence and evolution of marine cyanophage P60: a new insight on lytic and lysogenic phages. Appl. Environ. Microbiol. 68, 2589-2594 (2002).
61. Paul, J. H. et al. Complete genome sequence of φHSIC, a pseudotemperate marine phage of Listonella pelagia. Appl. Environ. Microbiol. 71, 3311-3320 (2005).
62. Sullivan, M. B., Coleman, M. L., Weigele, P., Rohwer, F. & Chisholm, S. W. Three Prochlorococcus cyanophage genomes: Signature features and ecological interpretations. PLoS Biol. 3, 790-806 (2005).
63. Wilson, W. H. et al. Complete genome sequence and lytic phase transcription profile of a Coccolithovirus. Science 309, 1090-1092 (2005).
64. Mann, N. H., Cook, A., Millard, A., Bailey, S. & Clokie, M. Marine ecosystems: bacterial photosynthesis genes in a virus. Nature 424, 741 (2003).
65. Millard, A., Clokie, M. R. J., Shub, D. A. & Mann, N. H. Genetic organization of the psbAD region in phages infecting marine Synechococcus strains. Proc. Natl Acad. Sci. USA 101, 11007-11012 (2004).
66. Lindell, D. et al. Transfer of photosynthesis genes to and from Prochlorococcus viruses. Proc. Natl Acad Sci. USA 101, 11013-11018 (2004).
67. Zeidner, G. et al. Potential photosynthesis gene swapping between Prochlorococcus and Synechococcus via viral intermediates. Environ. Microbiol. published online 23 June 2005 (doi:10.1111/j.1462-2920.2005.00833.x).
68. Hambly, E. & Suttle, C. A. The viriosphere, diversity and genetic exchange within phage communities. Curr. Opin. Microbiol. 8, 444-450 (2005).
69. Heldal, M. & Bratbak, G. Production and decay of viruses in aquatic environments. Mar. Ecol. Prog. Ser. 72, 205-212 (1991).
70. Suttle, C. A. & Chen, F. Mechanisms and rates of decay of marine viruses in sea water. Appl. Environ. Microbiol. 58, 3721-3729 (1992).
71. Noble, R. T. & Fuhrman, J. A. Rapid virus production and removal as measured with fluorescently labeled viruses as tracers. Appl. Environ. Microbiol. 66, 3790-3797 (2000).
72. Steward, G. F., Wikner, J., Cochlan, W. P., Smith, D. C.& Azam, F. Estimation of virus production in the sea: 2. Field results. Mar. Microb. Food Webs 6, 79-90 (1992).
73. Wilhelm, S. W., Brigden, S. M. & Suttle, C. A. A dilution technique for the direct measurement of viral production: a comparison in stratified and tidally mixed coastal waters. Microb. Ecol. 43, 168-173 (2002).
74. Evans, C., Archer, S. D., Jacquet, S. & Wilson, W. H. Direct estimates of the contribution of viral lysis and microzooplankton grazing to the decline of a Micromonas spp. population. Aquat. Microb. Ecol. 30, 207-219 (2003).
75. Suttle, C. A. The significance of viruses to mortality in aquatic microbial communities. Microb. Ecol. 28, 237-243 (1994).
76. Fuhrman, J. A. & Noble, R. T. Viruses and protists cause similar bacterial mortality in coastal seawater. Limnol. Oceanogr. 40, 1236-1242 (1996).
77. Middelboe, M., Riemann, L., Steward, G. F., Hansen, V. & Nybroe, O. Virus-induced transfer of organic carbon between marine bacteria in a model community. Aquat. Microb. Ecol. 33, 1-10 (2003).
78. Lawrence, J. E. & Suttle, C. A. Effect of viral infection on sinking rates of Heterosigma akashiwo and its implications for bloom termination. Aquat. Microb. Ecol. 37, 1-7 (2004).
79. Gobler, C. J., Hutchins, D. A., Fisher, N. S., Cosper, E. M. & Sanudo-Wilhelmy, S. Release and bioavailability of C,N, P, Se, and Fe following viral lysis of a marine Chrysophyte. Limnol. Oceanogr. 42, 1492-1504 (1997).
80. Poorvin, L., Rinta-Kanto, J. M., Hutchins, D. A. & Wilhelm, S. W. Viral release of iron and its bioavailability to marine plankton. Limnol. Oceanogr. 49, 1734-1741 (2004).
81. Daughney, C. J. et al. Adsorption and precipitation of iron from seawater on a marine bacteriophage (PWH3a-P1). Mar. Chem. 91, 101-115 (2004).
82. Smith, A. W. et al. Antisense treatment of Caliciviridae: an emerging disease agent of animals and humans. Can. Opin. Mol. Ther. 4, 177-184 (2002).
83. Philippa, J. D. W. et al. Antibodies to selected pathogens in free-ranging terrestrial carnivores and marine mammals in Canada. Vet. Rec. 155, 135-140 (2004).
84. Li, K. S. et al. Genesis of a highly pathogenic and potentially pandemic H5N1 influenza virus in eastern Asia. Nature 430, 209-213 (2004).
85. Delaroque, N. et al. The complete DNA sequence of the Ectocarpus siliculosus Virus EsV-1 genome. Virology 287, 112-132 (2001).