Microbial processes in the San Francisco Bay estuarine turbidity maximum

Estuaries

Volumn 22, Issue 4, 1999, Pages 848-862

  Hollibaugh, James T ^a   Wong, Patricia S ^a  

^a UNIVERSITY OF GEORGIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BIOMASS; ESTUARINE DYNAMICS; MICROBIAL ACTIVITY; SUSPENDED PARTICULATE MATTER; TURBIDITY;

CALIFORNIA; SAN FRANCISCO BAY; UNITED STATES;

BACTERIA (MICROORGANISMS); TRIXIS;

EID: 0033386684     PISSN: 01608347     EISSN: None     Source Type: Journal    
DOI: 10.2307/1353066     Document Type: Article

References (84)

1. ADMIRAAL, W., L. BREEBAART, G. M. J. TUBBING, B. VAN ZANTEN, E. D. DEVANN STEVENINCK, AND R. BIJKERK. 1994. Seasonal variation in composition and production of planktonic communities in the lower River Rhine. Freshwater Biology 32:519-531.
2. ALPINE, A. E. AND J. E. CLOERN. 1992. Trophic interactions and direct physical effects control phytoplankton biomass and production in an estuary. Limnology and Oceanography 37:946-955.
3. ARTHUR, J. F. AND M. D. BALL. 1979. Factors influencing the entrapment of suspended material in the San Francisco Bay-Delta Estuary, p. 143-174. In T. J. Conomos (ed.), San Francisco Bay: The Urbanized Estuary. Pacific Division, American Association for the Advancement of Science, San Francisco, California.
4. AZAM, F., T. FENCHEL, J. G. FIELD, J. S. GRAY, L. A. MEYER-RIEL, AND F. THINGSTAD. 1983. Ecological role of water column microbes in the sea. Marine Ecology Progress Series 10:257-263.
5. BALCZON, J. M. AND J. R. PRATT. 1996. The functional responses of two benthic algivorous ciliated protozoa with differing feeding strategies. Microbial Ecology 31:209-224.
6. BALL, M. D. AND J. F. ARTHUR. 1979. Planktonic chlorophyll dynamics in the northern San Francisco Bay and Delta, p. 265-285. In T. J. Conomos (ed.), San Francisco Bay: The Urbanized Estuary. Pacific Division, American Association for the Advancement of Science, San Francisco, California.
7. BENNETT, W. A. 1998. Chapter 5. Vertical migration and retention of native and exotic larval fishes within the entrapment zone of a tidally-dominated estuary, p. 113-136. In W. J. Kimmerer (ed.), Report of the 1994 Entrapment Zone Study. Interagency Ecological Program for the San Francisco Bay/Delta Technical Report 56. State of California, Department of Water Resources, Sacramento, California.
8. BOAK, A. C. AND R. GOULDER. 1983. Bacterioplankton in the diet of calanoid copepod Eurytemora sp. in the Humber estuary. Marine Biology 73:139-149.
9. BURAU, J. R., J. W. GARTNER, AND M. STACEY. 1998. Chapter 2. Results from the hydrodynamic element of the 1994 entrapment zone study in Suisun Bay, p. 37-64. In W. J. Kimmerer (ed.), Report of the 1991 Entrapment Zone Study. Interagency Ecological Program for the San Francisco Bay/Delta Technical Report 56. State of California, Department of Water Resources, Sacramento, California.
10. CARLTON, J. T., J. K. THOMPSON, L. E. SCHEMEL, AND F. H. NICHOLS. 1990. The remarkable invasion of San Francisco Bay, California, USA by the Asian clam Potamocorbula amurensis. I. Introduction and dispersal. Marine Ecology Progress Series 66:81-94.
11. CHERVIN, M. B. 1978. Assimilation of paniculate organic carbon by estuarine and coastal copepods. Marine Biology 49:265-275.
12. CHERVIN, M. B., T. C. MALONE, AND P. J. NEALE. 1981. Interactions between suspended organic matter and copepod grazing in the plume of the Hudson River. Estuarine, Coastal and Shelf Science 13:169-183.
13. CHIN-LEO, G. AND R. BENNER. 1992. Enhanced bacterioplankton production and respiration at intermediate salinities in the Mississippi River plume. Marine Ecology Progress Series 87:87-103.
14. CLOERN, J. E. 1996. Phytoplankton bloom dynamics in coastal ecosystems: A review with some general lessons from sustained investigation of San Francisco Bay, California. Reviews of Geophysics 34:127-168.
15. CLOERN, J. E., A. E. ALPINE, B. E. COLE, R. L. WONG, J. F. ARTHUR, AND M. D. BALL. 1983. River discharge controls phytoplankton dynamics in the northern San Francisco Bay estuary. Estuarine, Coastal and Shelf Science 16:415-429.
16. CLOERN, J. E., B. E. COLE, R. E. J. WONG, AND A. E. ALPINE. 1985. Temporal dynamics of estuarine phytoplankton: A case study of San Francisco Bay. Hydrobiologia 129:152-176.
17. CLOERN, J. E., C. GRENZ, AND L. VIDERGAR-LUCAS. 1995. An empirical model of the phytoplankton chlorophyll:carbon ratio - The conversion factor between productivity and growth rale. Limnology and Oceanography 40:1313-1321.
18. CLOERN, J. E. AND F. H. NICHOLS. 1985. Temporal dynamics of an estuary: San Francisco Bay. Kluwer Academic, Norwell, Massachusetts.
19. COLE, B. E. AND J. E. CLOERN. 1984. Significance of biomass and light availability to phytoplankton productivity in San Francisco Bay. Marine Ecology Progress Series 17:15-24.
20. CONOMOS, T. J. (ED.). 1979. San Francisco Bay: The Urbanized Estuary. Pacific Division, American Association for the Advancement of Science, San Francisco, California.
21. CRUMP, B. C. AND J. A. BAROSS. 1996. Particle-attached bacteria and heterotrophic plankton associated with the Columbia River estuarine turbidity maxima. Marine Ecology Progress Series 138:265-273.
22. CRUMP, B. C., J. A. BAROSS, AND C. A. SIMENSTAD. 1998. Dominance of particle-attached bacteria in the Columbia River estuary, USA. Aquatic Microbial Ecology 14:7-18.
23. DAVIDSON, K. 1996. Modelling microbial foodwebs. Marine Ecology Progress Series 145:279-296.
24. DECHO, A. W. 1990. Microbial exopolymer secretions in ocean environments: Their role(s) in food webs and marine processes. Oceanography and Marine Biology Annual Review 28:73-153.
25. DOLAN, J. R. AND C. R. GALLEGOS. 1991. Trophic coupling of rotifers, microflagellates and bacteria during fall months in the Rhode River Estuary. Marine Ecology Progress Series 77:147-156.
26. DUCKLOW, H. W., D. A. PURDIE, P. J. L. WILLIAMS, AND J. M. DAMES. 1986. Bacterioplankton: A sink for carbon in a coastal plankton community? Science 232:865-867.
27. EDERINGTON, M. C., G. B. MCMANUS, AND H. R. HARVEY. 1995. Trophic transfer of fatty acids, sterols and a triterpenoid alcohol between bacteria, a ciliate and the copepod Acartia tonsa. Limnology and Oceanography 40:860-867.
28. FISHER, T. R., J. D. HAGY, AND E. ROCHELLE-NEWALL. 1998. Dissolved and paniculate organic carbon in Chesapeake Bay. Estuaries 21:215-229.
29. FREEMAN, C. AND M. A. LOCK. 1995. The biofilm polysaccharide matrix: A buffer against changing organic substrate supply? Limnology and Oceanography 40:273-278.
30. FRY, B., C. S. HOPKINSON, A. NOLIN, B. NORRMAN, AND U. L. ZWEIFEL. 1996. Long-term decomposition of DOC from experimental algal blooms. Limnology and Oceanography 41:1344-1347.
31. GARBER, J. H. 1984. Laboratory study of nitrogen and phosphorus remineralization during the decomposition of coastal plankton and seston. Estuarine, Coastal and Shelf Science 18: 685-702.
32. GOPHEN, M., B. Z. CAVARI, AND T. BERMAN. 1973. Zooplankton feeding on differentially labeled algae and bacteria. Nature 247:393-394.
33. HACKNEY, C. T. AND E. B. HAINES. 1980. Stable carbon isotope composition of fauna and organic matter collected in a Mississippi estuary. Estuarine and Coastal Marine Science 10:703-708.
34. HARVEY, H. R., J. H. TUTTLE, AND J. T. BELL. 1995. Kinetics of phytoplankton decay during simulated sedimentation: Changes in biochemical composition and microbial activity under oxic and anoxic conditions. Geochimica et Cosmochimica Acta 59: 3367-3377.
35. HEINLE, D. R., R. P. HARRIS, J. F. USTACH, AND D. A. FLEMER. 1977. Detritus as food for estuarine copepods. Marine Biology 40:341-353.
36. HOLLIBAUGH, J. T. 1988. Limitations on the [3H]thymidine method for estimating bacterial productivity due to thymidine metabolism. Marine Ecology Progress Series 43:19-30.
37. HOLLIBAUGH, J. T. 1994. Relationship between thymidine metabolism, bacterioplankton community metabolic capabilities and sources of organic matter. Microbial Ecology 28:117-131.
38. HOLLIBAUGH, J. T. (ED.) 1996. San Francisco Bay: The Ecosystem. Pacific Division, American Association for the Advancement of Science, San Francisco, California.
39. HOLLIBAUGH, J. T. AND F. AZAM. 1983. Microbial degradation of dissolved proteins in seawater. Limnology and Oceanography 28: 1104-1116.
40. HOLLIBAUGH, J. T., J. A. FUHRMAN, AND F. AZAM. 1980. Radioactively labeling of natural assemblages of bacterioplankton for use in trophic studies. Limnology and Oceanography 25:172-181.
41. HOLLIBAUGH, J. T., W. J. KIMMERER, AND P. S. WONG. 1992. Relationship between the spring phytoplankton bloom and foodweb dynamics in South San Francisco Bay. The San Francisco Foundation, San Francisco, California.
42. HOLLIBAUGH, J. T. AND P. S. WONG. 1992. Ethanol extractable substrate pools and the incorporation of thymidine, L-leucine and other substrates by bacterioplankton. Canadian Journal of Microbiology 38:605-613.
43. HOLLIBAUGH, J. T. AND P. S. WONG. 1996. Distribution and activity of bacterioplankton in San Francisco Bay, p. 263-288. In J. T. Hollibaugh (ed.). San Francisco Bay: The Ecosystem. Pacific Division, American Association for the Advancement of Science, San Francisco, California.
44. HOLLIBAUGH, J. T., P. S. WONG, AND M. C. MURRELL. In Press. Similarity of particle-associated and free-living bacterial communities in northern San Francisco Bay, California. Aquatic Minobial Ecology.
45. INCZE, L. S., L. M. MAYER, E. B. SHERR, AND S. A. MACKO. 1982. Carbon inputs to bivalve mollusks: A comparison of two estuaries. Canadian Journal of Fisheries and Aquatic Science 39: 1348-1352.
46. IRIBERRI, J., M. UNANUE, I. BARCINA, AND L. EGEA. 1987. Seasonal variation in population density and heterotrophic activity of attached and free-living bacteria in coastal waters. Applied and Environmental Microbiology .53:2308-2314.
47. ITTEKKOT, V. 1988. Global trends in the nature of organic matter. Nature 332:436-438.
48. JASSBY, A. D., J. E. CLOERN, AND T. M. POWELL. 1993. Organic carbon sources and sinks in San Francisco Bay: Variability induced by river flow. Marine Ecology Progress Series 95:39-54.
49. JASSBY, A. D., B. E. COLE, AND J. E. CLOERN. 1997. The design of sampling transects for characterizing water quality in estuaries. Estuarine, Coastal and Shelf Science 45:285-302.
50. JASSBY, A. D., W. J. KIMMERER, S. G. MONISMITH, C. ARMOR, J. E. CLOERN, T. M. POWELL, J. R. SCHUBEL, AND T. J. VENDLINSKI. 1995. Isohaline position as a habitat indicator for estuarine populations. Ecological Applications 5:272-289.
51. KIMMERER, W. J. 1998. Tidally-oriented vertical migration and position maintenance of Zooplankton in northern San Francisco Bay, p. 83-112. In W. J. Kimmerer (ed.). Report of the 1994 Entrapment Zone Study, Interagency Ecological Program for the San Francisco Bay/Delta Technical Report 56. State of California, Department of Water Resources, Sacramento, California.
52. KIMMERER, W. J., J. R. BURAU, AND W. A. BENNETT. 1998. Tidally oriented vertical migration and position maintenance of zooplankton in a temperate estuary. Interagency Ecological Program for the San Francisco Bay/Delta Estuary. Technical Report 98-56. State of California, Department of Water Resources, Sacramento, California.
53. KIMMERER, W. J., E. GARTSIDE, AND J. J. ORSI. 1994. Predation by an introduced clam as the probable cause of substantial declines in zooplankton in San Francisco Bay. Marine Ecology Progress Series 113:81-93.
54. KING, K. R., J. T. HOLLIBAUGH, AND F. AZAM. 1980. Predator-prey interactions between the larvacean Oikopleura dioica and bacterioplankton in enclosed water columns. Marine Biology 56: 49-57.
55. KIRBY-SMITH, W. 1976. The detritus problem and the feeding and digestion of an estuarine organism, p. 469-479. In M. Wiley (ed.), Uses, Stresses and Adaptation to an Estuary, Volume 1. Academic Press, New York.
56. KRONE, R. B. 1979. Sedimentation in the San Francisco Bay system, p. 85-96. In T. J. Conomos (ed.), San Francisco Bay: The Urbanized Estuary. Pacific Division, American Association for the Advancement of Science, San Francisco, California.
57. LANDRY, M. R., L. W. HAAS, AND V. L. FACERNESS. 1984. Dynamics of microbial plankton communities: Experiments in Kaneohe Bay, Hawaii. Marine Ecology Progress Series 16:127-133.
58. LANDRY, M. R. AND R. P. HASSETT. 1982. Estimating the grazing impact of marine microzooplankton. Marine Biology 67:283-288.
59. LEE, S. AND J. A. FUHRMAN. 1986. Relationships between biovolume and biomass of naturally derived marine bacterioplankton. Applied and Environmental Microbiology 53:1298-1303.
60. MULLER, W. A. AND J. J. LEE. 1977. Biological interactions and the realized niche of Euplotes vannus from the salt marsh aufwuchs. Journal of Protozoology 24:523-527.
61. MURRELL, M. C. 1998. Microbial processes and food web dynamics in a turbid estuary: Northern San Francisco Bay, California, USA. Ph.D. Thesis, Department of Biology, University of California, Santa Cruz, California.
62. MURRELL, M. C. AND J. T. HOLLIBAUGH. 1998. Microzooplankton grazing in San Francisco Bay using the dilution method: Does the microbial loop work? Aquatic Microbial Ecology 15:53-63.
63. MURRELL, M. C., J. T. HOLLIBAUGH, M. W. SILVER, AND P. S. WONG. 1999. Bacterioplankton dynamics in northern San Francisco Bay: Role of particle association and seasonal freshwater flow. Limnology and Oceanography 44:295-308.
64. NICHOLS, F. H., J. K. THOMPSON, AND L. E. SCHEMEL. 1990. The remarkable invasion of San Francisco Bay, California, USA by the Asian clam Potamocorbula amurensis. II. Displacement of a former community. Marine Ecology Progress Series 66:95-101.
65. NORRMAN, B., U. L. ZWEIFEL, C. S. HOPKINSON, AND B. FRY. 1995. Production and utilization of dissolved organic carbon during an experimental diatom bloom. Limnology and Oceanography 40:898-907.
66. PAERL, H. W. 1974. Bacterial uptake of dissolved organic matter in relation to detrital aggregation in marine and freshwater systems. Limnology and Oceanography 19:966-972.
67. PAINCHAUD, J., D. LEFAIVRE, J.-C. THERRIAULT, AND L. LEGENDE, 1996. Bacterial dynamics in the upper St. Lawrence estuary. Limnology and Oceanography 41:1610-1618.
68. PAINCHAUD, J. AND J.-C. THERRIAULT. 1989. Relationship between bacteria, phytoplankton and paniculate organic carbon in the upper St. Lawrence Estuary. Marine Ecology Progress Series 56: 301-311.
69. PETERSON, B. J. AND J. E. HOBBIE. 1978. Daphnia grazing on natural bacteria. Limnology and Oceanography 23:1039-1044.
70. PETERSON, D. H., T. J. CONOMOS, W. W. BROENKOW, AND P. C. DOHERTY. 1975. Location of the non-tidal current null zone in northern San Francisco Bay. Estuarine and Coastal Marine Science 3:1-11.
71. POMEROY, L. R. 1974. The ocean's foodweb, a changing paradigm. BioScience 24:499-504.
72. POMEROY, L. R. 1980. Secondary production mechanisms of continental shelf communities, p. 163-186. In R. J. Livingston (ed.), Ecological Processes in Coastal and Marine Systems. Plenum Publishing Corporation, New York.
73. POMEROY, L. R. AND D. DEIBEL. 1980. Aggregation of organic matter by pelagic tunicates. Limnology and Oceanography 25: 643-652.
74. PORTER, K. G. AND Y. S. FEIG. 1980. The use of DAPI for identifying and counting aquatic microflora. Limnology and Oceanography 25:943-948.
75. SANDERS, R. W., C. E. WILLIAMSON, P. L. STUTZMAN, R. W. MOELLER, C. E. GOULDEN, AND R. AOKI-GOLDSMITH. 1996. Reproductive success of "herbivorous" Zooplankton fed algal and non-algal food resources. Limnology and Oceanography 41:1295-1305.
76. SCHUBEL, J. R. 1968. Turbidity maximum of northern Chesapeake Bay. Science 161:1013-1015.
77. SHOLKOVITZ, E. R. 1976. Flocculation of dissolved organic and inorganic matter during the mixing of riverwater and seawater. Geochimica et Cosmochimica Acta 140:831-845.
78. TAYLOR, G. T. 1995. Microbial degradation of sorbed and dissolved protein in seawater. Limnology and Oceanography 40:875-885.
79. WELSCHMEYER, N. A. 1994. Fluorometric analysis of chlorophyll a in the presence of chlorophyll b and phaeopigments. Limnology and Oceanography 39:1985-1992.
80. WERNER, I. AND J. T. HOLLIBAUGH. 1993. Potamocorbula amurensis: Comparison of clearance rates and assimilation efficiencies for phytoplankton and bacterioplankton. Limnology and Oceanography 38:949-964.
81. WRIGHT, R. T. 1978. Measurement and significance of specific activity in the heterotrophic bacteria of natural waters. Applied and Environmental Microbiology 36:297-305.
82. WRIGHT, R. T., R. B. COFFIN, C. P. ERSING, AND D. PEARSON. 1982. Field and laboratory measurements of bivalve filtration of natural bacterioplankton. Limnology and Oceanography 27:91-98.
83. YOON, W. B. AND R. ROSSON. 1990. Improved method of enumeration of attached bacteria for study of fluctuation in the abundance of attached and free-living bacteria in response to diel variation is seawater turbidity. Applied and Environmental Microbiology 56:595-600.
84. ZIMMERMANN, H. 1997. The microbial community on aggregates in the Elbe Estuary, Germany. Aquatic Microbial Ecology 13:37-46.