Temporal and spatial scales of variation in bacterioplankton assemblages of oligotrophic surface waters

Marine Ecology Progress Series

Volumn 311, Issue , 2006, Pages 67-77

  Hewson, Ian ^a,b   Steele, Joshua A ^a   Capone, Douglas G ^a   Fuhrman, Jed A ^a  

^a UNIVERSITY OF SOUTHERN CALIFORNIA   (United States)

^b UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

ARISA; Bacterioplankton; Oligotrophic waters; Spatial scale; Variability

Indexed keywords

BACTERIOPLANKTON; BIOMASS; CARBON; ENVIRONMENTAL FACTOR; MARINE ECOSYSTEM; OLIGOTROPHIC ENVIRONMENT; SURFACE WATER;

ATLANTIC OCEAN; GULF OF MEXICO; PACIFIC OCEAN;

BACTERIA (MICROORGANISMS);

EID: 33646785416     PISSN: 01718630     EISSN: None     Source Type: Journal    
DOI: 10.3354/meps311067     Document Type: Article

References (50)

1. Avaniss-Aghajani E, Jones K, Chapman D, Brunk C (1994) A molecular technique for identification of bacteria using small subunit ribosomal RNA sequences. Biotechniques 17:144-149
2. Bratbak G, Heldal M, Thingstad TF, Riemann B, Haslund OH (1992) Incorporation of viruses into the budget of microbial C-transfer. A first approach. Mar Ecol Prog Ser 83:273-280
3. Brown MV, Schwalbach MS, Hewson I, Fuhrman JA (2005) Coupling 16S-ITS rDNA clone libraries and ARISA to show marine microbial diversity: development and application to a time series. Environ Microbiol 7:1466-1479
4. Chappell J, Shakleton NJ (1986) Oxygen isotopes and sea level. Nature 324:137-140
5. Chenoweth SF, Highes JM, Keenan CP, Lavery S (1998) When oceans meet: a teleost shows secondary intergradation at an Indian-Pacific Interface. Proc Soc Lond B 265:415-420
6. Crosby LD, Criddle CS (2003) Understanding bias in microbial community analysis techniques due to rrn operon copy number heterogeneity. Biotechniques 34:790-802
7. Falkowski PG, de Vargas C (2004) Shotgun sequencing in the sea: a blast from the past? Science 304:58-60
8. Fisher MM, Triplett EW (1999) Automated approach for ribosomal intergenic spacer analysis of microbial diversity and its application to freshwater bacterial communities. Appl Environ Microbiol 65:4630-4836
9. Fuhrman JA (1992) Bacterioplankton roles in cycling of organic matter: the microbial food web. In: Falkowski PG, Woodhead AD (eds) Primary productivity and biogeochemical cycles in the sea. Plenum Press, New York, p 361-382
10. Fuhrman JA, Comeau DE, Hagstrom A, Chan AM (1988) Extraction of DNA suitable for molecular biological studies from natural planktonic microorganisms. Appl Environ Microbiol 54:1426-1429
11. Fuhrman JA, McCallum K, Davis AA (1992) Novel major archaebacterial group from marine plankton. Nature 356:148-149
12. Fuhrman JA, McCallum K, Davis AA (1993) Phylogenetic diversity of subsurface marine microbial communities from the Atlantic and Pacific Oceans. Appl Environ Microbiol 59:1294-1302
13. Fuhrman JA, Griffith JF, Schwalbach MS (2002) Prokaryotic and viral diversity patterns in marine plankton. Ecol Res 17:183-194
14. Giovannoni SJ, Britschgi TB, Moyer CL, Field KG (1990) Genetic diversity in Sargasso Sea bacterioplankton. Nature 345:60-63
15. Hewson I, Fuhrman JA (2006) Improved strategy for comparing microbial assemblage fingerprints. Microb Ecol 51:147-153
16. Hewson I, Fuhrman JA (2004) Bacterioplankton species richness and diversity along an estuarine gradient in Moreton Bay, Australia. Appl Environ Microbiol 70:3425-3433
17. Hewson I, Vargo GA, Fuhrman JA (2003) Bacterial diversity in shallow oligotrophic marine benthos and overlying waters: effects of virus infection, containment and nutrient enrichment. Microb Ecol 46:322-336
18. Kirchman D, Knees E, Hodson R (1985) Leucine incorporation and its potential as a measure of protein-synthesis by bacteria in natural aquatic systems. Appl Environ Microbiol 49:599-607
19. Kjelleberg S, Givskov M (2000) Communication systems as targets for biological control. Environ Microbiol 2:5-15
20. Klappenbach JL, Dunbar JM, Schmidt TM (2000) rRNA operon copy number reflects ecological strategies of bacteria. Appl Environ Microbiol 66:1328-1333
21. Lee S, Fuhrman JA (1987) Relationships between biovolume and biomass of naturally derived marine bacterioplankton. Appl Environ Microbiol 53:1298-1303
22. Legendre P, Legendre L (1998) Numerical ecology. Elsevier, Amsterdam
23. Long RA, Azam F (2001a) Antagonistic interactions among marine pelagic bacteria. Appl Environ Microbiol 67:4975-4983
24. Long RA, Azam F (2001b) Microscale patchiness of bacterioplankton assemblage richness in seawater. Aquat Microb Ecol 26:103-113
25. Luna GM, Dell' Anno A, Giuliano L, Danovaro R (2004) Bacterial diversity in deep Mediterranean sediments: relationship with the active bacterial fraction and substrate variability. Environ Microbiol 6:745-753
26. Mahadevan A, Campbell JW (2002) Biogeochemical patchiness at the sea surface. Geophys Res Lett 29(19): doi.10.1029/2001GL014116
27. Martin AP (2003) Phytoplankton patchiness: the role of lateral stirring and mixing. Prog Oceanogr 57:125-174
28. Moeseneder MM, Winter C, Herndl GJ (2001) Horizontal and vertical complexity of attached and free-living bacteria of the eastern Mediterranean Sea, determined by 16S rDNA and 16S rRNA fingerprints. Limnol Oceanogr 46:95-107
29. O'Donnell J, Allen AA, Murphy DL (1997) An assessment of the errors in Lagrangian velocity estimates obtained by FGGE drifters in the Labrador Current. J Atmosph Ocean Technol 14:292-307
30. Polz MF, Cavanaugh CM (1998) Bias in template-to-product ratios in multitemplate PCR. Appl Environ Microbiol 64:3724-3730
31. Polz MF, Harbison C, Cavanaugh CM (1999) Diversity and heterogeneity of epibiotic bacterial communities on the marine nematode Eubostrichus dianae. Appl Environ Microbiol 65:4271-4275
32. Proctor LM, Fuhrman JA (1990) Viral mortality of marine bacteria and cyanobacteria. Nature 343:60-61
33. Riemann L, Middelboe M (2002) Stability of bacterial and viral community compositions in Danish coastal waters as depicted by DNA fingerprinting techniques. Aquat Microb Ecol 27:219-232
34. Roemmich D, Gilson J (2001) Eddy transport of heat and thermocline waters in the North Pacific: a key to interannual/decadal climate variability? J Phys Oceanogr 31:675-687
35. Schwalbach MS, Hewson I, Fuhrman JA (2004) Viral effects on bacterial community composition in marine plankton microcosms. Aquat Microb Ecol 34:117-127
36. Schwalbach MS, Brown MV, Fuhrman JA (2005) Impact of light on marine bacterioplankton community structure. Aquat Microb Ecol 39:235-245
37. Seymour JR, Mitchell JG, Seuront L (2004) Microscale heterogeneity in the activity of coastal bacterioplankton communities. Aquat Microb Ecol 35:1-16
38. Sherr EB, Sherr BF (1994) Bacterivory and herbivory: key roles of phagotrophic protists in pelagic food webs. Microb Ecol 28:223-235
39. Simek K, Pernthaler J, Weinbauer MG, Hornák K, Dolan JR, Nedoma J, Masín M, Amann R (2001) Changes in bacterial community composition and dynamics and viral mortality rates associated with enhanced flagellate grazing in a mesoeutrophic reservoir. Appl Environ Microbiol 67:2723-2733
40. Simon M, Azam F (1989) Protein content and protein synthesis rates of planktonic marine bacteria. Mar Ecol Prog Ser 51:201-213
41. Sokal RR, Rohlf FJ (1995) Biometry. The principles and practice of statistics in biological research. 3rd edn. Freeman, New York
42. Suttle CA, Chan AM, Cottrell MT (1990) Infection of phytoplankton by viruses and reduction of primary productivity. Nature 347:467-469
43. Suzuki MT, Giovannoni SJ (1996) Bias caused by template annealing in the amplification of mixtures of 16S rRNA genes by PCR. Appl Environ Microbiol 62:625-630
44. Suzuki MT, Rappé M, Giovannoni SJ (1998) Kinetic bias in estimates of picoplankton community structure obtained by measurements of small-subunit rRNA gene PCR amplicon length heterogeneity. Appl Environ Microbiol 64:4522-4529
45. Thingstad TF, Lignell R (1997) A theoretical approach to the question of how trophic interactions control carbon demand, growth rate, abundance and diversity. Aquat Microb Ecol 13:19-27
46. Torsvik V, Ovreas L, Thingstad TF (2002) Prokaryotic diversity-magnitude, dynamics and controlling factors. Science 296:1064-1066
47. Venter JC, Remington K, Heidelberg JF, Halpern AL and 19 others (2004) Environmental genome shotgun sequencing of the Sargasso Sea. Science 304:66-74
48. Winter C, Smit A, Herndl GJ, Weinbauer MG (2004) Impact of virioplankton on archaeal and bacterial community richness as assessed in seawater batch cultures. Appl Environ Microbiol 70:803-813
49. Wolanski E, Norro A, King B (1995) Water circulation in the Gulf of Papua. Cont Shelf Res 15:185-212
50. Zhubkov MV, Lopez-Urrutia A (2003) Effect of appendicularians and copepods on bacterioplankton composition and growth in the English Channel. Aquat Microb Ecol 32:39-46