Planktonic microbes in the Gulf of Maine area

PLoS ONE

Volumn 6, Issue 6, 2011, Pages

  Li, William K W ^a   Andersen, Robert A ^b   Gifford, Dian J ^c   Incze, Lewis S ^d   Martin, Jennifer L ^e   Pilskaln, Cynthia H ^f   Rooney Varga, Juliette N ^g   Sieracki, Michael E ^b   Wilson, William H ^b   Wolff, Nicholas H ^d  

^a BEDFORD INSTITUTE OF OCEANOGRAPHY   (Canada)

^b BIGELOW LABORATORY FOR OCEAN SCIENCES   (United States)

^c UNIVERSITY OF RHODE ISLAND   (United States)

^d UNIVERSITY OF SOUTHERN MAINE   (United States)

^e ST ANDREWS BIOLOGICAL STATION   (Canada)

^f UNIVERSITY OF MASSACHUSETTS DARTMOUTH   (United States)

^g University of Massachusetts Lowell   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ALEXANDRIUM FUNDYENSE; ALPHAPROTEOBACTERIA; APICOMPLEXA; ARTICLE; AUTOTROPH; BACTERIOPHAGE; CELL DENSITY; CHRYSOPHYTA; CILIATE; CRYPTOPHYTA; CYANOBACTERIUM; CYTOPHAGA; DIATOM; DICTYOCHOPHYCEAE; DINOFLAGELLATE; EUSTIGMATOPHYCEAE; GAMMAPROTEOBACTERIA; GENETIC VARIABILITY; GEOGRAPHIC DISTRIBUTION; HAPTOPHYTA; HETEROTROPH; LABOEA STROBILA; LOHMANIELLA; MARINE ENVIRONMENT; METAGENOME; MICROALGA; MICROPLANKTON; MIMIVIRUS; MIXOTROPH; MYRIONECTA RUBRUM; NONHUMAN; PELAGOPHYCEAE; PHOTOTROPH; PHYLOGENY; PRASINOPHYCEAE; RHODOSPIRILLACEAE; ROSEOBACTER; SPECIES RICHNESS; STROBILIDIUM; STROMBIDINOPSIS; STROMBIDIUM; SYNUROPHYCEAE; TONTONIA; TREBOUXIOPHYCEAE; UNITED STATES; VIRUS ISOLATION; XANTHOPHYCEAE; MICROBIOLOGY; PLANKTON; REVIEW; SPECIES DIFFERENCE; VIROLOGY;

ALEXANDRIUM FUNDYENSE; ALVEOLATA; APICOMPLEXA; BACILLARIOPHYCEAE; BACTERIA (MICROORGANISMS); BOLIDOPHYCEAE; CHLOROVIRUS; CHRYSOPHYCEAE; CILIOPHORA; CRYPTOPHYTA; CYANOBACTERIA; CYTOPHAGA; DICTYOCHOPHYCEAE; DINOPHYCEAE; EUKARYOTA; EUSTIGMATOPHYCEAE; FLAVOBACTERIACEAE; FLAVOBACTERIALES; GAMMAPROTEOBACTERIA; HAPTOPHYCEAE; LABOEA STROBILA; LOHMANIELLA; MESODINIUM; MIMIVIRUS; MYRIONECTA; PELAGOPHYCEAE; PRASINOPHYCEAE; PROKARYOTA; PROTISTA; RAPHIDOPHYCEAE; RHODOBACTERACEAE; RHODOSPIRILLACEAE; ROSEOBACTER; SPHINGOMONAS SP.; STRAMENOPILES; STROBILIDIUM; STROMBIDINOPSIS; STROMBIDIUM; SULFITOBACTER; SYNECHOCOCCUS; SYNURALES; TONTONIA; TREBOUXIOPHYCEAE; UNCLASSIFIED ALPHAPROTEOBACTERIA; UNCLASSIFIED BACTEROIDETES; XANTHOPHYCEAE;

SEA WATER;

PLANKTON; SEAWATER; SPECIES SPECIFICITY; WATER MICROBIOLOGY;

EID: 79958849525     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0020981     Document Type: Article

References (83)

1. Snelgrove PVR, (2010) Discoveries of the Census of Marine Life. Cambridge University Press.
2. Archambault P, Snelgrove PVR, Fisher JAD, Gagnon J-M, Garbary DJ, et al. (2010) From sea to sea: Canada's three oceans of biodiversity. PLoS ONE 5: e12182.
3. Fautin D, Dalton P, Incze LS, Leong J-AC, Pautzke C, et al. (2010) An overview of marine biodiversity in United States waters. PLoS ONE 5: e11914.
4. Mills EL, (1989) Biological oceanography: An early history, 1870-1960. New York Cornell University Press.
5. Zwanenburg KCT, Bundy A, Strain P, Bowen WD, Breeze H, et al. (2006) Implications of ecosystem dynamics for the integrated management of the eastern Scotian Shelf. Can Tech Rep Fish Aquat Sci 2652: xiii +91.
6. Gaichas S, Skaret G, Falk-Petersen J, Link JS, Overholtz W, et al. (2009) A comparison of community and trophic structure in five marine ecosystems based on energy budgets and system metrics. Prog Oceanogr 81: 47-62.
7. Hobbie JE, Novitsky TJ, Rublee PA, Ferguson RL, Palumbo AV, (1988) Microbiology. In: Backus RH, editors. Georges Bank Massachusetts MIT Press.
8. Ellis SL, Incze LS, Lawton P, Ojaveer H, MacKenzie BR, et al. (2011) Four regional marine biodiversity studies: Approaches and contributions to ecosystem-based management. PLoS ONE 6: e18997.
9. Loder JW, Petrie B, Gawarkiewicz G, (1998) The coastal ocean off northeastern North America: a large-scale view. In: Robinson AR, Brink KH, editors. 11 Wiley: 105-133 The Sea.
10. Longhurst AR, (2007) Ecological geography of the sea. Academic Press 2nd ed.
11. Townsend DT, Thomas AC, Mayer LM, Thomas M, Quinlan JW, (2006) Oceanography of the Northwest Atlantic continental shelf. In: Robinson AR, Brink KH, editors. 14 Cambridge Harvard University Press: 119-168 The Sea MA.
12. Johnson CL, Runge JA, Curtis KA, Durbin EG, Hare JA, et al. (2011) Biodiversity and ecosystem function in the Gulf of Maine: Pattern and role of zooplankton and pelagic nekton. PLoS ONE 6 (1): e16491 doi:10.1371/journal.pone.0016491.
13. Rusch DB, Halpern AL, Sutton G, Heidelberg KB, Williamson S, et al. (2007) The Sorcerer II Global Ocean Sampling Expedition: Northwest Atlantic through Eastern Tropical Pacific. PLoS Biol 5: e77.
14. Williamson SJ, Rusch DB, Yooseph S, Halpern AL, Heidelberg KB, et al. (2008) The Sorcerer II Global Ocean Sampling Expedition: Metagenomic characterization of viruses within aquatic microbial samples. PLoS One 3: e1456.
15. Sullivan MB, Coleman ML, Weigele P, Rohwer F, Chisholm SW, (2005) Three Prochlorococcus cyanophage genomes: Signature features and ecological interpretations. PLoS Biol 3: 790-806.
16. Monier A, Claverie JM, Ogata H, (2008) Taxonomic distribution of large DNA viruses in the sea. Genome Biol 9: R106.
17. Kawakami H, Kawakami N, (1978) Behavior of a virus in a symbiotic system, Paramecium bursaria-Zoochlorella. J Protozool 25: 217-225.
18. Meints RH, Vanetten JL, Kuczmarski D, Lee K, Ang B, (1981) Viral-infection of the symbiotic Chlorella-like alga present in hydra-viridis. Virology 113: 698-703.
19. van Etten JL, Meints RH, Kuczmarski D, Burbank DE, Lee K, (1982) Viruses of symbiotic Chlorella-like algae isolated from Paramecium bursaria and Hydra viridis Proc Nat Acad Sci USA 79: 3867-3871.
20. Raoult D, Audic S, Robert C, Abergel C, Renesto P, et al. (2004) The 1.2-megabase genome sequence of Mimivirus. Science 306: 1344-1350.
21. Monier A, Larsen J, Sandaa R-A, Bratbak G, Claverie J-M, et al. (2008) Marine mimivirus relatives are probably large algal viruses. Virolo J 5: 12.
22. Townsend DW, Keller MD, Holligan PM, Ackleson SG, Balch WM, (1994) Blooms of the coccolithophore Emiliania huxleyi with respect to hydrography in the Gulf of Maine. Cont Shelf Res 14: 979-1000.
23. Vaughn JM, Balch WM, Novotny JF, Vining CL, Palmer CD, et al. (2010) Isolation of Emiliania huxleyi viruses from the Gulf of Maine. Aquat Microb Ecol 58: 109-116.
24. Wilson WH, Van Etten JL, Schroeder DS, Nagasaki K, Brussaard C, et al. (2005) Family: Phycodnaviridae. In: Fauquet CM, Mayo MA, Maniloff J, Dusselberger U, Ball LA, editors. Virus Taxonomy, VIIIth ICTV Report London Elsevier/Academic Press pp. 163-175.
25. Wilson WH, van Etten JL, Allen MJ, (2009) The Phycodnaviridae: The story of how tiny giants rule the world. Current Topics in Microbiology and Immunology 328. In: Van Etten JL, editors. Lesser Known Large dsDNA Viruses Berlin Heidelberg Springer-Verlag pp. 1-42.
26. Moreau H, Piganeau G, Desdevises Y, Cooke R, Derelle E, et al. (2010) Marine prasinovirus genomes show low evolutionary divergence and acquisition of protein metabolism genes by horizontal gene transfer. J Virology 84: 12555-12563.
27. Weynberg KD, Allen MJ, Gilg IC, Scanlan DJ, Wilson WH, (2011) Genome sequence of Ostreococcus tauri Virus OtV-2 throws light on the role of picoeukaryote niche separation in the ocean. J Virology 85: 4520-4529.
28. Balch WM, Vaughn JM, Novotny JF, Drapeau DT, Goes JI, et al. (2002) Fundamental changes in light scattering associated with infection of marine bacteria by bacteriophage. Limnol Oceanogr 47: 1554-1561.
29. Balch WM, Vaughn JM, Goes JI, Novotny JF, Drapeau DT, et al. (2007) Bio-optical consequences of viral infection of phytoplankton: I. Experiments with the cyanobacterium, Synechococcus sp. Limnol Oceanogr 52: 727-738.
30. Wommack KE, Colwell RR, (2000) Virioplankton: Viruses in aquatic ecosystems. Micro Mol Biol Rev 64: 69-114.
31. Rooney-Varga JN, Giewat MW, Savin MC, Sood S, LeGresley M, et al. (2005) Links between phytoplankton and bacterial community dynamics in a coastal marine environment. Microb Ecol 49: 163-175.
32. Jasti S, Sieracki ME, Poulton NJ, Giewat MW, Rooney-Varga JN, (2005) Phylogenetic diversity and specificity of bacteria closely associated with Alexandrium spp. and other phytoplankton. Appl Environ Microbiol 71: 3483-3494.
33. Ferrier M, Martin JL, Rooney-Varga JN, (2002) Stimulation of Alexandrium fundyense growth by bacterial assemblages from the Bay of Fundy. J Appl Microbiol 92: 1-12.
34. Hasegawa Y, Martin JL, Giewat MW, Rooney-Varga JN, (2007) Microbial community diversity in the phycosphere of natural populations of the toxic alga, Alexandrium fundyense. Environ Microbiol 9: 3108-3121.
35. Pilskaln CH, Churchill JH, L Mayer M, (1998) Resuspension of sediment by bottom trawling in the Gulf of Maine and potential geochemical consequences. J Conserv Biol 12: 1223-1230.
36. Seshadri R, Kravitz SA, Smarr L, Gilna P, Frazier M, (2007) CAMERA: a community resource for metagenomics. PLoS Biol 5: e75.
37. Polz MF, Cavanaugh CM, (1998) Bias in template-to-product ratios in multitemplate PCR. Appl Environ Microbiol 64: 3724-3730.
38. Gonzalez JM, Moran MA, (1997) Numerical dominance of a group of marine bacteria in the alpha-subclass of the class Proteobacteria in coastal seawater. Appl Environ Microbiol 63: 4237-4242.
39. Moran MA, Belas R, Schell MA, Gonzalez JM, Sun F, et al. (2007) Ecological genomics of marine Roseobacters. Appl Environ Microbiol 73: 4559-4569.
40. Stepanauskas R, Sieracki ME, (2007) Matching phylogeny and metabolism in the uncultured marine bacteria, one cell at a time. Proc Nat Acad Sci USA 104: 9052-9057.
41. Woyke T, Xie G, Copeland A, González JM, Han C, et al. (2009) Assembling the marine metagenome, one cell at a time. PLoS ONE 4: e5299 doi:10.1371/journal.pone.0005299.
42. Li WKW, Harrison WG, Head EJH, (2006) Coherent assembly of phytoplankton communities in diverse temperate ocean ecosystems. Proc R Soc Lond, Ser B 273: 1953-1960.
43. Poulton N, Thompson B, Tupper B, Cucci T, Their E, et al. (2009) Monitoring microbial patterns in plankton during a multiyear study in Boothbay Harbour, Maine. Gulf of Maine Symposium:Advancing ecosystem research for the future of the Gulf New Brunswick St. Andrews October 2009.
44. Li WKW, (1998) Annual average abundance of heterotrophic bacteria and Synechococcus in surface ocean waters. Limnol Oceanogr 43: 1746-1753.
45. Li WKW, Dickie PM, (2001) Monitoring phytoplankton, bacterioplankton, and virioplankton in a coastal inlet (Bedford Basin) by flow cytometry. Cytometry 44: 236-246.
46. Partensky F, Blanchot J, Vaulot D, (1999) Differential distribution and ecology of Prochlorococcus and Synechococcus in oceanic waters: A review. Bulletin de l'Institut océanographique 19: 457-475.
47. Li WKW, (2009) From cytometry to macroecology: a quarter century quest in microbial oceanography. Aquat Microb Ecol 57: 239-251.
48. Kolber ZS, Plumley FG, Lang AS, Beatty JT, Blankenship RE, et al. (2001) Contribution of aerobic photoheterotrophic bacteria to the carbon cycle in the ocean. Science 292: 2492-2495.
49. Kolber ZS, Van Dover CL, Niederman RA, Falkowski PG, (2000) Bacterial photosynthesis in surface waters of the open ocean. Nature 407: 177-179.
50. Béjá O, Suzuki MT, Heidelberg JF, Nelson WC, Preston CM, et al. (2002) Unsuspected diversity among marine aerobic anoxygenic phototrophs. Nature 415: 630-633.
51. Sieracki ME, Gilg IC, Thier EC, Poulton NJ, Goericke R, (2006) Distribution of planktonic aerobic anoxygenic photoheterotrophic bacteria in the northwest Atlantic. Limnol Oceanogr 51: 38-46.
52. Zubkov MV, (2009) Photoheterotrophy in marine prokaryotes. J Plankton Res 31: 933-938.
53. Koblizek M, Masin M, Ras J, Poulton AJ, Prasil O, (2007) Rapid growth rates of aerobic anoxygenic phototrophs in the ocean. Environ Microbiol 9: 2401-2406.
54. Béjá O, Aravind L, Koonin EV, Suzuki MT, Hadd A, et al. (2000) Bacterial rhodopsin: Evidence for a new type of phototrophy in the sea. Science 289: 1902-1906.
55. Bielawski JP, Dunn KA, Sabehi G, Béjá O, (2004) Darwinian adaptation of proteorhodopsin to different light intensities in the marine environment. Proc Nat Acad Sci USA 101: 14824-14829.
56. Gómez-Consarnau L, González JM, Coll-Lladó M, Gourdon P, Pascher T, et al. (2007) Light stimulates growth of proteorhodopsin-containing marine Flavobacteria. Nature 445: 210-213.
57. Venter JC, Remington K, Heidelberg JF, Halpern AL, Rusch D, et al. (2004) Environmental genome shotgun sequencing of the Sargasso Sea. Science 304: 66-74.
58. DeLong EF, Preston CM, Mincer T, Rich V, Hallam SJ, et al. (2006) Community genomics among stratified microbial assemblages in the ocean's interior. Science 311: 496-503.
59. Sinclair M, Wilson S, Subba Rao DV, (1992) Overview of the biological oceanography of the Gulf of Maine. In: Wiggin J, Mooers CNK, editors. Proceedings of the Gulf of Maine Scientific Workshop, Woods Hole, Massachusetts 8-10 Jan 1991 Boston Urban Harbors Institute, University of Massachusetts pp. 91-111 Gulf of Maine Council on the Marine Environment.
60. Kooistra WHCF, Sarno D, Balzano S, Gu H, Andersen RA, et al. (2008) Global diversity and biogeography of Skeletonema species (Bacillariophyceae). Protist 159: 177-193.
61. Mather L, MacIntosh K, Kaczmarska G, Klein G, Martin JL, (2010) A checklist of diatom species reported (and presumed native) from Canadian coastal waters. Can Tech Rep Fish Aquat Sci 2881: iii+78.
62. Wildish DJ, Martin JL, Wilson AJ, Ringuette M, (1990) Environmental monitoring of the Bay of Fundy salmonid mariculture industry during 1988-89. Can Tech Rep Fish Aquat Sci 1760: 123.
63. Martin JL, Wildish DJ, LeGresley MM, Ringuette MM, (1995) Phytoplankton monitoring in the southwestern Bay of Fundy during 1990-1992. Can Manuscr Rep Fish Aquat Sci 2277: 154.
64. Martin JL, LeGresley MM, Strain PM, Clement P, (1999) Phytoplankton monitoring in the southwest Bay of Fundy during 1993-96. Can Tech Rep Fish Aquat Sci 2265: 132.
65. Martin JL, LeGresley MM, Strain PM, (2001) Phytoplankton monitoring in the western isles region of the Bay of Fundy during 1997-98. Can Tech Rep Fish Aquat Sci 2349: 85.
66. Martin JL, LeGresley MM, Strain PM, (2006) Plankton monitoring in the Western Isles region of the Bay of Fundy during 1999-2000. Can Tech Rep Fish Aquat Sci 2629: iv + 88.
67. Anderson DM, Townsend DW, McGillicuddy DJ Jr, Turner JT, eds. (2005) The ecology and oceanography of toxic Alexandrium fundyense blooms in the Gulf of Maine. Deep-Sea Research II 52: 2365-2876.
68. Anderson DM, Kulis DM, Doucette GJ, Gallagher JC, Balech E, (1994) Biogeography of toxic dinoflagellates in the genus Alexandrium from the northeast United States and Canada. Marine Biology 120: 467-478.
69. Kaczmarska I, Martin JL, Ehrman JM, LeGresley MM, (2007) Pseudo-nitzschia species population dynamics in the Quoddy Region, Bay of Fundy. Harmful Algae 6: 861-874.
70. Martin JL, LeGresley MM, (2008) New phytoplankton species to the Bay of Fundy since 1995. ICES Journal of Marine Science 65 (5): 759-964.
71. Montagnes DKS, Lynn DH, Roff JC, Taylor WD, (1988) The annual cycle of heterotrophic planktonic ciliates in the waters surrounding the Isles of Shoals, Gulf of Maine: as assessment of their trophic role. Marine Ecology 99: 21-30.
72. Stoecker DK, Taniguichi A, Michaels AE, (1989) Abundance of autotrophic, mixotrophic and heterotrophic planktonic ciliates in shelf and slope waters. Mar Ecol Prog Ser 50: 241-254.
73. Saunders RW, (1987) Tintinnids and other mirozooplankton-seasonal distributions and relationships to resources and hydrography in a Maine estuary. J Plankton Res 9: 65-77.
74. Saunders RW, (1995) Seasonal distributions of the photosynthesizing ciliates Laboea strobila and Myrionecta rubra (= Mesodinium rubrum) in an estuary of the Gulf of Maine. Aquat Microb Ecol 9: 237-242.
75. Revelante N, Gilmartin M, (1987) Seasonal cycle of the ciliated protozoan and micrometazoan biomass in a Gulf of Maine estuary. Estuarine, Coastal and Shelf Science 25: 581-598.
76. Townsend DW, Cammen LM, (1985) A deep protozoan maximum in the Gulf of Maine. Mar Ecol Prog Ser 24: 177-182.
77. Whitman WB, Coleman DC, Wiebe WJ, (1998) Prokaryotes: the unseen majority. Proc. Nat. Acad. Sci. USA 95: 6578-6583.
78. Kirchman DL, (2000) Uptake and regenration of inorganic nutrients by marine heterotrophic bacteria. In: Kirchman DL, editors. Microbial Ecology of the Oceans Wiley-Liss pp. 261-288.
79. Curtis TP, Head IM, Lunn M, Woodcock S, Schloss PD, Sloan WT, (2006) What is the extent of prokaryotic diversity? Philos Trans R Soc Lond, Ser B 361: 2023-2037.
80. Doolittle WF, Papke RT, (2006) Genomics and the bacterial species problem. Genome Biology 7: 116.1-116.7.
81. Curtis TP, Sloan WT, Scannell JW, (2002) Estimating prokaryotic diversity and its limits. Proc Nat Acad Sci USA 99: 10494-10499.
82. Morris RM, Rappé MS, Connon SA, Vergin KL, Siebold WA, Carlson CA, Giovannoni SJ, (2002) SAR11 clade dominates ocean surface bacterioplankton communities. Nature 420: 806-810.
83. Smith VH, Foster BL, Grover JP, Holt RD, Leibold MA, deNoyelles F, (2005) Phytoplankton species richness scales consistently from laboratory microcosms to the world's oceans. Proc Nat Acad Sci USA 102: 4393-4396.