Microbes and the dissipation of energy and respiration: From cells to ecosystems

Oceanography

Volumn 20, Issue SPL.ISS. 2, 2007, Pages 89-100

  Carlson, Craig A ^a   del Giorgio, Paul A ^b   Herndl, Gerhard J ^c  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b UNIVERSITÉ DU QUÉBEC À MONTRÉAL   (Canada)

^c ROYAL NETHERLANDS INSTITUTE FOR SEA RESEARCH   (Netherlands)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 67649697839     PISSN: 10428275     EISSN: None     Source Type: Journal    
DOI: 10.5670/oceanog.2007.52     Document Type: Article

References (82)

1. Amon, R.M.W., and R. Benner. 1994. Rapid cycling of high-molecular-weight dissolved organic matter in the ocean. Nature 369:549-552.
2. Amon, R.M.W., and R. Benner. 1996. Bacterial utilization of different size classes of dissolved organic matter. Limnology and Oceanography 41(1):41-51.
3. Apple, J., P.A. del Giorgio, and M. Kemp. 2006. The temperature-dependence of bacterioplankton carbon metabolism. Aquatic Microbial Ecology 43:243-254.
4. Arìstegui, J., S. Agustì, J.J. Middelburg, and C.M. Duarte. 2005. Respiration in the mesopelagic and bathypelagic zones of the ocean. Pp. 181-205, in Respiration in Aquatic Ecosystems. P.A. del Giorgio and P.J. leB. Williams, eds, Oxford University Press.
5. Azam, F. 1998. Microbial control of oceanic carbon flux: The plot thickens. Science 280:694-696.
6. Azam, F., T. Fenchel, J.G. Field, J.S. Gray, L.A. Meyer-Reil, and F. Thingstad. 1983. The ecological role of water-column microbes in the sea. Marine Ecology Progress Series 10:257-263.
7. Bauer, J.E., P.M. Williams. and E.R.M. Druffel. 1992. 14C activity of dissolved organic carbon fractions in the north-central Pacific and Sargasso Sea. Nature 357:667-670.
8. Benner, R.H. 2002. Chemical composition and reactivity. Pp. 59-90 in Biogeochemistry of Marine Dissolved Organic Matter. D.A. Hansell and C.A. Carlson, eds, Academic Press, San Diego, California.
9. Biddanda, B., M. Ogdahl, and J. Cotner. 2001. Dominance of bacterial metabolism in oligotrophic relative to eutrophic waters. Limnology and Oceanography 46(3):730-739.
10. Billen, G. 1990. Delayed development of bacterioplankton with respect to phytoplankton: A clue to understanding their trophic relationship. Ergebnisse der Limnologie 34:191-201.
11. Brophy, J.E., and D.J. Carlson. 1989. Production of biologically refractory dissolved organic carbon by natural seawater microbial populations. Deep-Sea Research 36(4):497-507.
12. Carlson, C.A. 2002. Production and Removal Processes. Pp. 91-151 in Biogeochemistry of Marine Dissolved Organic Matter. D.A. Hansell and C.A. Carlson, eds, Academic Press, San Diego, CA.
13. Carlson, C.A., H.W. Ducklow, and A.F. Michaels. 1994. Annual flux of dissolved organic carbon from the euphotic zone in the Northwestern Sargasso Sea. Nature 371:405-408.
14. Carlson, C.A., and D.A. Hansell. 2003. The Contribution of dissolved organic carbon and nitrogen to biogeochemistry of the Ross Sea. Pp. 123-142 in Biogeochemical Cycles in the Ross Sea. Antarctic Research Series Volume 78, G. DiTullio and R. Dunbar, eds, American Geophysical Union Press, Washington, D.C.
15. Carlson, C.A., S.J. Giovannoni, D.A. Hansell, S.J. Goldberg, R. Parsons, and K. Vergin. 2004. Interactions between DOC, microbial processes, and community structure in the mesopelagic zone of the northwestern Sargasso Sea. Limnology and Oceanography 49:1,073-1,083.
16. Cherrier, J., J.E. Bauer, and E.R.M. Druffel. 1996. Utilization and turnover of labile dissolved organic matter by bacterial heterotrophs in eastern North Pacific surface waters. Marine Ecology Progress Series 139:267-279.
17. Cherrier, J., J.E. Bauer, E.R.M. Druffel, R.B. Coffin, and J.P. Chanton. 1999. Radiocarbon in marine bacteria: Evidence for the ages of assimilated carbon. Limnology and Oceanography 44:730-736.
18. Cole, J.J., S. Finlay, and M.L. Pace. 1988. Bacterial production in fresh and saltwater ecosystems: A cross-system overview. Marine Ecology Progress Series 43:1-10.
19. Church, M.J., H.W. Ducklow, and D.M. Karl. 2002. Multi-year increases in dissolved organic matter inventories at Station ALOHA in the North Pacific Subtropical Gyre. Limnology and Oceanography 47(1):1-10.
20. del Giorgio, P.A., and T.C. Bouvier. 2002. Linking the physiologic and phylogenetic successions in free-living bacterial communities along an estuarine gradient. Limnology and Oceanography 47:471-486.
21. del Giorgio, P., and J.J. Cole. 1998. Bacterial growth efficiency in natural aquatic systems. Annual Review of Ecological Systems 29:503-541.
22. del Giorgio, P.A., J.J. Cole, and A. Cibleris. 1997. Respiration rates in bacteria exceed phytoplankton production in unproductive aquatic systems. Nature 385:148-151.
23. del Giorgio, P.A., and P.J. leB. Williams. 2005. The global significance of respiration in aquatic ecosystems: From single cells to the biosphere. Pp. 267-303 in Respiration in Aquatic Ecosystems. P.A. del Giorgio and P.J. leB. Williams. eds, Oxford University Press, New York.
24. DeLong, E.F., C.M. Preston, T. Mincer, V. Rich, S.J. Hallam, N.U. Frigaard, A. Martinez, M.B. Sullivan, R. Edwards, B.R. Brito, and others. 2006. Community genomics among stratified microbial assemblages in the ocean's interior. Science 311(5760):496-503.
25. Doney, S.C. 1997. The ocean's productive deserts. Nature 389:1,997.
26. Duarte, C.M., and S. Agusti. 1998. The CO2 balance of unproductive aquatic ecosystems. Science 281(5374):234-236.
27. Ducklow, H.W. 1999. The bacterial component of the oceanic euphotic zone. FEMS Microbial Ecology 30:1-10.
28. Ducklow, H. 2000. Bacterial production and biomass in the ocean. Pp. 85-120 in Microbial Ecology of the Oceans. D.L. Kirchman, ed., Wiley-Liss, Inc., New York.
29. Ducklow, H.W., and C.A. Carlson. 1992. Oceanic bacterial production. Pp. 113-181 in Advances in Microbial Ecology, Volume 12. K.C. Marshall, ed., Plenum Press, New York.
30. Ducklow, H.W., D.A. Purdie, P.J. leB. Williams, and J.M. Davies. 1986. Bacterioplankton: A sink for carbon in a coastal marine plankton community. Science 232:865-867.
31. Emerson, S., P. Quay, D.M. Karl, C. Winn, L. Tupas, and M. Landry. 1997. Experimental determination of the organic carbon flux from openocean surface waters. Nature 389:951-954.
32. Floodgate, G.D. 1995. Some environmental aspects of hydrocarbon bacteriology. Aquatic Microbial Ecology 9:3-11.
33. Fuhrman, J.A. 1999. Marine viruses and their biogeochemical and ecological effects. Nature 399:541-548.
34. Geider, R.J. 1997. Photosynthesis or planktonic respiration. Nature 388(6638):132.
35. Giovannoni, S.J., L. Bibbs, J.C. Cho, M.D. Stapels, R. Desiderio, K.L. Vergin, M.S. Rappé, S. Laney, L.J. Wilhelm, H.J. Tripp, and others. 2005. Proteorhodopsin in the ubiquitous marine bacterium SAR11. Nature 438(7064):82-85.
36. Giovannoni, S.J., M.S. Rappé, K. Vergin, and N. Adair. 1996. 16S rRNA genes reveal stratified open ocean bacterioplankton populations related to the green non-sulfur bacteria phylum. Proceedings of the National Academy of Sciences of the United States of America 93:7,979-7,984.
37. Giovannoni, S.J., and U. Stingl. 2005. Molecular diversity and ecology of microbial plankton. Nature 437(7057):343-348.
38. Goldman, J., D.A. Caron, and M.R. Dennett. 1987. Regulation of gross growth efficiency and ammonium regeneration in bacteria by substrate C:N ratio. Limnology and Oceanography 32(6):1,239-1,252.
39. Goldman, J.C., and M.R. Dennett. 2000. Growth of marine bacteria in batch and continuous culture under carbon and nitrogen limitation. Limnology and Oceanography 45(4):789-800.
40. Gómez-Consarnau, L., J.M. González, M. Coll-Lladó, P. Gourdon, T. Pascher, R. Neutze, C. Pedós-Alió, and J. Pinhassi. 2007. Light stimulates growth of proteorhodopsin-containing marine Flavobacteria. Nature 445:210-213.
41. Hansell, D.A., H.W. Ducklow, A.M. Macdonald, and M. O'Neil Baringer. 2004. Metabolic poise in the North Atlantic Ocean diagnosed from organic matter transports. Limnology and Oceanography 49(4):1,084-1,094.
42. Heissenberger, A., and G.H. Herndl. 1994. Formation of high molecular weight material by free-living marine bacteria. Marine Ecology Progress Series 111:129.
43. Heissenberger, A., G.G. Leppard, and G.J. Herndl. 1996. Relationship between the intracellular integrity and the morphology of the capsular envelope in attached and free-living marine bacteria. Applied and Environmental Microbiology 62:4,521-4,528.
44. Hoehler, T.M. 2004. Biological energy requirements as quantitative boundary conditions for life in the subsurface. Geobiology 2:205-215.
45. Jahnke, R.A., and D.B. Craven. 1995. Quantifying the role of heterotrophic bacteria in the carbon cycle: A need for respiration measurements. Limnology and Oceanography 40:436-441.
46. Jones, C.W. 1983. Bacterial Respiration and Photosynthesis. American Society for Microbiology, Washington, D.C.
47. Karl, D.M., J.R. Christian, J.E. Dore, D.V. Hebel, R.M. Letelier, L.M. Tupas, and C.D. Winn. 1996. Seasonal and interannual variability in primary production and particle flux at Station ALOHA. Deep-Sea Research Part II 43:539-568.
48. Karl, D.M., E.A. Laws, P. Morris, P.J. leB Williams, and S. Emerson. 2003. Metabolic balance of the open sea. Nature 426:32.
49. Karner, M.B., E.F. DeLong, and D.M. Karl. 2001. Archaeal dominance in the mesopelagic zone. Nature 409:507-510.
50. Kawasaki, N., and R. Benner. 2006. Bacterial release of dissolved organic matter during cell growth and decline: Molecular origin and composition. Limnology and Oceanography 51(5):2,170-2,180.
51. Keil, R.G., and D.L. Kirchman. 1999. Utilization of dissolved protein and amino acids in the northern Sargasso Sea. Aquatic Microbial Ecology 18:293-300.
52. King, G.M. 2005. Ecophysiology of microbial respiration. Pp. 18-35 in Respiration in Aquatic Ecosystems, Volume 18. P.A. del Giorgio and P.J. leB. Williams, eds, Oxford University Press, New York.
53. Koch, A.L. 1997. Microbial physiology and ecology of slow growth. Microbiology and Molecular Biology Reviews 61:1,092-2,172.
54. Liu, Y. 1998. Energy uncoupling in microbial growth under substrate-sufficient conditions. Applied Microbiology and Biotechnology 49:500-505
55. McCarthy, M.D., J.I. Hedges, and R. Benner. 1998. Major bacterial contribution to marine dissolved organic nitrogen. Science 281:231-234.
56. Middelboe, M., N.O.G. Jørgensen, and N. Kroer. 1996. Effects of viruses on nutrient turnover and growth efficiency of noninfected marine bacterioplankton. Applied and Environmental Microbiology 62(6):1,991-1,997.
57. Moeseneder, M.M., C. Winter, and G.J. Herndl. 2001. Horizontal and vertical complexity of attached and free-living bacteria of the Eastern Mediterranean Sea, determined by 16S rDNA and 16S rRNA fingerprints. Limnology and Oceanography 46(1):95-107.
58. Morris, R.M., S.A. Connon, M.S. Rappé, K.L. Vergin, W.A. Siebold, C.A. Carlson, and S.J. Giovannoni. 2002. High cellular abundance of the SAR11 bacterioplankton clade in seawater. Nature 420:806-809.
59. Obernosterer, I., N. Kawasaki, and R. Benner. 2003. P-limitation of respiration in the Sargasso Sea and uncoupling of bacteria from P-regeneration in size-fractionation experiments. Aquatic Microbial Ecology 32:229-237.
60. Ogawa, H., Y. Amagai, I. Koike, K. Kaiser, and R. Benner. 2001. Production of refractory dissolved organic matter by bacteria. Science 292:917-920.
61. Pomeroy, L.R. 1974. The ocean's food web, a changing paradigm. BioScience 24:499-504.
62. Reinthaler, T., and G.J. Herndl. 2005. Seasonal dynamics of bacterial growth efficiencies in relation to phytoplankton in the southern North Sea. Aquatic Microbial Ecology 39(1):7-16.
63. Reinthaler, T., H. van Aken, C. Veth, J. Aristegui, C. Robinson, P.J. leB. Williams, P. Lebaron, and G.J. Herndl. 2006. Prokaryotic respiration and production in the meso-and bathypelagic realm of the eastern and western North Atlantic basin. Limnology and Oceanography 51(3):1,262-1,273
64. Reinthaler, T., C. Winter, and G.J. Herndl. 2005. Relationship between bacterioplankton richness, respiration, and production in the southern North Sea. Applied and Environmental Microbiology 71(5):2,260-2,266.
65. Rivkin, R.B., and L. Legendre. 2001. Biogenic carbon cycling in the upper ocean: Effects of microbial respiration. Science 291:2,398-2,400.
66. Robinson, C. In press. Heterotrophic bacterial respiration. In Marine Microbial Ecology, 2nd Edition. D. Kirchman, ed., Plenum Press, New York.
67. Robinson, C., and P.J. leB. Williams. 2005. Respiration and its measurement in surface marine waters. Pp. 147-180 in Respiration in Aquatic Ecosystems. P.A. del Giorgio and P.J. leB. Williams, eds, Oxford University Press, New York.
68. Russell, J.B., and G.M. Cook. 1995. Energetics of bacterial growth: Balance of anabolic and catabolic reactions. Microbiology Reviews 59:48-62.
69. Sherr, E.B., and B.E. Sherr. 1996. Temporal offset in oceanic production and respiration processes implied by seasonal changes in atmospheric oxygen: The role of heterotrophic microbes. Aquatic Microbial Ecology 11:91-100.
70. Steinberg, D.K., C.A. Carlson, N.R. Bates, R.J. Johnson, A.F. Michaels, and A.H. Knap. 2001. Overview of the U.S. JGOFS Bermuda Atlantic Time-series Study (BATS): A decade-scale look at ocean biology and biogeochemistry. Deep-Sea Research Part II 48:1,405-1,447.
71. Tanoue, E., S. Nishiyama, M. Kamo, and A. Tsugita. 1995. Bacterial membranes: Possible source of a major dissolved protein in seawater. Geochimica et Cosmochimica Acta 59(12):2,643-2,648.
72. Teixeira-de-Mattos, M.J., and O.M. Neijssel. 1997. Bioenergetic consequences of microbial adaptation to low-nutrient environments. Journal of Biotechnology 59:117-126.
73. Tortell, P.D., M.T. Maldonado, J. Granger, and N.M. Price. 1999. Marine bacteria and biogeochemical cycling of iron in the oceans. FEMS Microbial Ecology 29:1-11.
74. Vallino, J.J., C.S. Hopkinson, and J.E. Hobbie. 1996. Modeling bacterial utilization of dissolved organic matter: Optimization replaces Monod growth kinetics. Limnology and Oceanography 41(8):1,591-1,609.
75. Venter, J.C., K. Remington, J.F. Heidelberg, A.L. Halpern, D. Rusch, J.A. Eisen, D. Wu, I. Paulsen, K.W. Nelson, W. Nelson, and others. 2004. Environmental genome shotgun sequencing of the Sargasso Sea. Science 304:66-72.
76. Westernhoff, H.V., K.J. Hellingwerf, and K. Van Dam. 1983. Thermodynamic efficiency of microbial growth is low but optimal for maximal growth rate. Proceedings of the National Academy of Sciences of the United States of America 80:305-309.
77. Whitman, W.B., D.C. Coleman, and W.J. Wiebe. 1998. Prokaryotes: The unseen majority. Proceedings of the National Academy of Sciences of the United States of America 95:6,578-6,583.
78. Williams, P.J. leB. 1998. The balance of plankton respiration and photosynthesis in the open oceans. Nature 394(6688):55-57.
79. Williams, P.J. leB., and D.G. Bowers. 1999. Regional carbon imbalances in the ocean. Science 284:173-174.
80. Williams, P.J. leB., and P.A. del Giorgio. 2005. Respiration in aquatic ecosystems: History and background. Pp. 1-17 in Respiration in Aquatic Ecosystems. P.A. del Giorgio and P.J. leB. Williams, eds, Oxford University Press, New York.
81. Williams, P.J. leB., P.J. Morris, and D.M. Karl. 2004. Net community production and metabolic balance at the oligotrophic ocean site, station ALOHA. Deep-Sea Research Part I 51:1,563-1,578.
82. Williams, P.M., and E.R.M. Druffel. 1987. Radiocarbon in dissolved organic matter in the central North Pacific Ocean. Nature 330:246-248.