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CURRICULUM VITAE

Jed Alan Fuhrman

Address: Department of Biological Sciences University of Southern California Los Angeles, CA 90089-0371

Birth: 25 October 1956

Contact: (213) 740-5757 or -5759 FAX: 740-8123 email: [email protected]

EDUCATION

Ph.D., Oceanography, 1981. Scripps Institution of Oceanography, University of California, San Diego

S.B., Biology, 1977. Massachusetts Institute of Technology

PROFESSIONAL EXPERIENCE

Faculty positions:

Assistant Professor of Oceanography, SUNY Stony Brook, 1981-1986 Associate Professor of Oceanography, State University of New York at Stony Brook, 1986-88 Associate Professor of Biological Sciences, University of Southern California, 1988 -1992 Professor of Biological Sciences, University of Southern California, 1992-present Department Chair (Biological Sciences), 1994-1996 McCulloch-Crosby Chair of Marine Biology 1995 – present Section Head, Marine Biology and Biological Oceanography 2009-

Other:

Research Collaborator, Brookhaven National Laboratory, 1985-1988

Editorial Advisor of Marine Ecology - Progress Series, 1988-93, Senior Editorial Advisor (sub-editor) 1993-97; Contributing Editor, 1997-2003; Editorial Board 2003- 2006

Editorial Advisor of Marine Microbial Food Webs, 1992-1995

Subject Editor (empowered to accept/reject manuscripts) of Aquatic Microbial Ecology, 1995 - present

Editorial Board, Applied and Environmental Microbiology, 1997 -2000

Editorial Board, Environmental Microbiology 2003-present

Editorial Board, Microbial Ecology 2006-2007

Editorial Board, ISME Journal, 2006- PROFESSIONAL SOCIETIES American Society of Limnology and Oceanography American Association for the Advancement of Science (ASLO representative to the Biological Sciences Section of AAAS 1984-93) American Society for Microbiology Sigma Xi The Oceanography Society (charter member) American Geophysical Union International Society for Microbial Ecology (charter member)

HONORS, FELLOWSHIPS, SCHOLARSHIPS, VISITING POSITIONS

Phi Beta Kappa (MIT chapter), 1977 National Science Foundation Graduate Fellowship, 1977-80 Riker Fellowship at Bermuda Biological Station, summer 1987 Visiting Professor, University of Copenhagen, spring 1988 McCulloch-Crosby Chair of Marine Biology (at USC), 1995 - present Fellow of the American Association for the Advancement of Science, 1997 Visiting Distinguished Scientist, Texas A&M University, April 1997 Steinbach Scholar, Woods Hole Oceanographic Institution, July 2000 Highly Cited Researcher, Institute for Scientific Information, ISIHighlyCited.com, (top <0.5% of all published researchers) 2002-present Fellow of the American Academy of Microbiology, 2003 G. Evelyn Hutchinson Medal (Am. Soc. Limnol. Oceanogr.) 2006 Albert S. Raubenheimer Outstanding Faculty Award (USC) 2006 Eminent Scholar Series Lecturer, University of South Florida, 2009

RESEARCH INTERESTS Aquatic microbial ecology and biological oceanography; functioning of microbial systems - particularly, roles of bacteria, archaea, and viruses in natural systems; microbial biodiversity and identification of nonculturable bacteria and archaea and their functions; interactions with dissolved and particulate organic matter; two-way interactions with other chemical and physical processes; rates of bactivory and viral infection; rates of nutrient regeneration; application of biochemical and molecular biological approaches to these problems; connections to global cycles; human impacts on aquatic systems, pathogens and related health hazards. Rapid measurements of human pathogenic viruses and bacteria in environmental samples of water and air.

PUBLICATIONS

1. Fuhrman, J.A., S.W. Chisholm, and R.R.L. Guillard. 1978. Marine alga Platymonas sp. accumulates silicon without apparent requirement. Nature (London) 272: 244-246

2. Hollibaugh, J.T., J.A. Fuhrman, and F. Azam. 1980. Radioactively labeling of natural assemblages of bacterioplankton for use in trophic studies. Limnol. Oceanogr. 25: 172-181

3. Fuhrman, J.A., and F. Azam. 1980. Bacterioplankton secondary production estimates for coastal waters of British Columbia, Antarctica, and California. Appl. Envir. Microbiol. 39:1085-1095 (an ISI "Citation Classic")

2 4. Hollibaugh, J,T., A.B. Carruthers, J.A. Fuhrman, and F. Azam. 1980. Cycling of organic nitrogen in marine plankton communities studied in enclosed water columns. Mar. Biol. 59: 15-21

5. Fuhrman, J.A., J.W. Ammerman, and F. Azam. 1980. Bacterioplankton in the coastal euphotic zone: distribution, activity, and possible relationships with phytoplankton. Mar. Biol. 60: 201-207

6. Hodson, R.E., F. Azam, A.F. Carlucci, J.A. Fuhrman, D.M. Karl, and O. Holm- Hansen. 1981. Microbial uptake of dissolved organic matter in McMurdo Sound, Antarctica. Mar. Biol. 61: 89-94

7. Fuhrman, J.A. 1981. Influence of method on the apparent size distribution of bacterioplankton cells: epifluorescence microscopy compared to scanning electron microscopy. Mar. Ecol. Prog. Ser. 5: 103-106

8. Eppley, R.W., S.G. Horrigan, J.A. Fuhrman, E.R. Brooks, C.C. Price, and K. Sellner. 1981. Origins of dissolved organic matter in Southern California coastal waters: experiments on the role of zooplankton. Mar. Ecol. Prog. Ser. 6: 149-159

9. Fuhrman, J.A., and F. Azam. 1982. Thymidine incorporation as a measure of heterotrophic bacterioplankton production in marine surface waters: evaluation and field results. Mar. Biol. 66:109-120 (An "ISI Citation Classic")

10. Riemann, B., J.A. Fuhrman, and F. Azam. 1982. Bacterial secondary production in freshwater measured by the tritiated thymidine incorporation method. Microb. Ecol. 8:101-114

11. Fuhrman, J.A.,and F. Azam. 1983. Adaptations of bacteria to marine subsurface waters studied by temperature response. Mar. Ecol. Prog. Ser. 13:95-98

12. Azam, F., J.W. Ammerman, J.A. Fuhrman, and A. Hagstrom. 1984. Role of bacteria in polluted marine ecosystems. In H. H. White (ed.) Concepts in Marine Pollution Measurements. University of Maryland Sea Grant, College Park. pp 431-442

13. Ammerman, J.W., J.A. Fuhrman, A. Hagstrom, and F. Azam. 1984. Growth characteristics of marine bacteria grown in "seawater cultures" (unsupplemented particle-free seawater). Mar. Ecol. Prog. Ser. 18:31-39

14. Azam, F. and J.A. Fuhrman. 1984. Measurement of bacterioplankton growth in the sea and its regulation by environmental conditions. In: Heterotrophic activity in the sea. J. Hobbie and P.J.leB. Williams (eds). Plenum Press. pp. 179-196

15. Fuhrman, J.A. and G.B. McManus. 1984. Do bacteria-sized marine eukaryotes consume significant bacterial production? Science 224: 1257-1260

16. Riemann, B., P. Nielsen, M. Jeppesen, B. Marcussen and J.A. Fuhrman. 1984. Diel changes in bacterial biomass and growth rates in coastal environments, determined by means of thymidine incorporation into DNA, frequency of dividing cells (FDC), and microautoradiography. Mar. Ecol. Prog. Ser. 17: 227-235

17. Fuhrman, J.A and T. Bell. 1985. Biological considerations in the measurement of dissolved free amino acids in seawater and implications for chemical and microbiological studies. Mar. Ecol. Prog. Ser. 25: 13-21

3 18. Mitchell, J.G., A. Okubo, and J.A. Fuhrman. 1985. Microzones form the basis for a stratified microbial ecosystem. Nature (London) 316: 58-59

19. Fuhrman, J.A., R.W. Eppley, A. Hagstrom, and F. Azam. 1985. Diel variations in bacterioplankton, phytoplankton, and related parameters in the Southern California Bight. Mar. Ecol. Prog. Ser. 27: 9-20

20. Legier-Visser, M., J. Mitchell, A. Okubo, and J.A. Fuhrman. 1986. Mechanoreception in calanoid copepods: a mechanism for prey detection. Mar. Biol. 90: 526-535

21. McManus, G.B. and J.A. Fuhrman. 1986. Photosynthetic pigments in the ciliate Laboea strobila from Long Island Sound, USA. J. Plankton Res. 8:317-327

22. McManus, G.B. and J.A. Fuhrman. 1986. Bactivory in seawater studied with the use of inert fluorescent particles. Limnol. Oceanogr. 31: 420-426

23. Riemann, B., N.O.G. Jorgensen, W. Lampert, and J.A. Fuhrman. 1986. Zooplankton-induced changes in dissolved free amino acids and in production rates of freshwater bacteria. Microb. Ecol. 12: 247-258

24. Fuhrman, J.A., H.W. Ducklow, D. Kirchman, J.P. Hudak, G.B. McManus, J. Kramer. 1986. Does adenine incorporation into nucleic acids measure total microbial production? Limnol. Oceanogr. 31: 627- 636

25. Fuhrman, J.A., H.W. Ducklow, D.L. Kirchman, and G.B. McManus. 1986. Adenine and total microbial production: a reply. Limnol Oceanogr. 31: 1395-1400

26. Fuhrman, J.A. and R. L. Ferguson. 1986. Low concentrations and rapid turnover of dissolved free amino acids in seawater: chemical and microbiological measurements. Mar. Ecol. Prog. Ser. 33: 237-242

27. Fuhrman, J.A. 1987. Close coupling between release and uptake of dissolved free amino acids in seawater studied by an isotope dilution approach. Mar. Ecol. Prog. Ser. 37: 45-52

28. Lee, S. and J.A. Fuhrman. 1987. Relationships between biovolume and biomass of naturally-derived marine bacterioplankton. Appl. Environ. Microbiol. 53: 1298-1303

29. Boicourt, W.C., S.-Y.Chao, H.W. Ducklow, P.M. Glibert, T.C. Malone, M.R. Roman, J.A. Fuhrman, C. Garside, and R.W. Garvine. 1987. Physics and microbial ecology of a buoyant estuarine plume on the continental shelf. EOS, Trans. Am. Geophys. Union 68: 666-668

30. McManus, G.B. and J.A. Fuhrman. 1988. Control of marine bacterioplankton populations: a review of grazing rate methodologies and estimates. Hydrobiologia 159: 51-62.

31. Roman, M.R., H.W. Ducklow, J.A. Fuhrman, C. Garside, P.M. Glibert, T.C. Malone, and G.B. McManus. 1988. Production, consumption and nutrient cycling in a laboratory mesocosm. Mar. Ecol. Prog. Ser. 42: 39-52

32. McManus, G.B. and J.A. Fuhrman. 1988. Clearance of bacteria-sized particles by natural populations of nanoplankton in the Chesapeake Bay outflow plume. Mar. Ecol. Prog. Ser. 42: 199-206

33. Fuhrman, J.A., D.E. Comeau, Å. Hagström, and A.M. Chan. 1988. Extraction of DNA suitable for molecular biological studies from natural planktonic microorganisms. Appl. Environ. Microbiol. 54: 1426-1429

4 34. Hudak, J.P. and J.A. Fuhrman. 1988. Effects of four organic pollutants on the growth of natural marine bacterioplankton populations. Mar. Ecol. Prog. Ser. 47: 185-194

35. Fuhrman, J.A., S.G. Horrigan, and D.G. Capone. 1988. The use of 13N as tracer for bacterial and algal uptake of ammonium from seawater. Mar. Ecol. Prog. Ser. 45: 271-278

36. Hudak, J.P., J. McDaniel, S. Lee, and J.A. Fuhrman. 1988. Mineralization potentials of aromatic hydrocarbons by estuarine microorganisms: variations with season, location, and bacterioplankton production. Mar. Ecol. Prog. Ser. 47: 97-102

37. Mitchell, J.G. and J.A. Fuhrman. 1989. Centimeter scale vertical heterogeneity in bacteria and chlorophyll a. Mar. Ecol. Prog. Ser. 54: 141- 148

38. Fuhrman, J.A., T.D. Sleeter, C. Carlson, and L.M. Proctor. 1989. Dominance of bacterial biomass in the Sargasso Sea and its ecological implications. Mar. Ecol. Prog. Ser. 57: 207-217

39. Fuhrman, J.A. and S. Lee. 1989. Natural microbial species variations studied at the DNA level. In: Recent advances in microbial ecology. T. Hattori, Y. Ishida, Y. Maruyama, R.Y. Morita, and A. Uchida, eds. Japan Scientific Societies Press, Tokyo. pp. 687-691

40. Mitchell, J.G., A. Okubo, J.A. Fuhrman, and W. Cochlan. 1989. The contribution of phytoplankton to ocean density gradients. Deep Sea Res. 36: 1277-1282

41. Proctor, L.M. and J.A. Fuhrman. 1990. Viral mortality of marine cyanobacteria and bacteria. Nature 343: 60-62

42. McManus, G.B., and J.A. Fuhrman. 1990. Mesoscale and seasonal variability of heterotrophic nanoflagellate abundance in an estuarine outflow plume. Mar. Ecol. Prog. Ser. 61: 207-213

43. Lee, S. and J.A. Fuhrman. 1990. DNA hybridization to compare species compositions of natural bacterioplankton assemblages. Appl. Environ. Microbiol. 56: 739-746

44. Suttle, C.A., J.A. Fuhrman, and D.G. Capone. 1990. Rapid ammonium cycling and concentration- dependent partitioning of ammonium and phosphate: implications for carbon transfer in planktonic communities. Limnol. Oceanogr. 35: 424-433

45. Mitchell, J.G., A. Okubo, and J.A. Fuhrman. 1990. Gyrotaxis as a new mechanism for generating plankton heterogeneity and migration. Limnol. Oceanogr. 35: 123-130

46. Fuhrman, J.A. 1990. Dissolved free amino acid cycling in an estuarine outflow plume. Mar. Ecol. Prog. Ser. 66: 197-203

47. Proctor. L.M. and J.A. Fuhrman. 1991. The roles of viral infection in organic particle flux. Mar. Ecol. Prog. Ser. 69: 133-142

48. Suttle, C.A., A.M. Chan, and J.A. Fuhrman. 1991. Dissolved free amino acids in the Sargasso Sea: uptake and respiration rates, turnover times, and concentrations. Mar. Ecol. Prog. Ser. 70: 189-199

5 49. Glibert, P.M, C. Garside, J.A. Fuhrman, and M.R. Roman. 1991.Time-dependent coupling of inorganic and organic nitrogen uptake and ammonium regeneration in the plume of Chesapeake Bay Estuary, USA and its regulation by large heterotrophs. Limnol. Oceanogr. 36: 895-909

50. Lee, S.H. and J.A. Fuhrman. 1991. Spatial and temporal variation of natural bacterioplankton assemblages studied by total genomic DNA cross-hybridization. Limnol. Oceanogr. 36: 1277-1287

51. Fuhrman, J.A. and D.G. Capone. 1991. Possible biogeochemical consequences of ocean fertilization. Limnol. Oceanogr. 36: 1951-1959

52. Lee, S.H. and J.A. Fuhrman. 1991. Confinement effect on species composition of bacterioplankton studied at the level of community DNA. Mar. Ecol. Prog. Ser. 79: 195-201

53. Fuhrman, J.A., K. McCallum, and A.A. Davis. 1992. Novel major archaebacterial group from marine plankton. Nature (London) 356: 148-149

54. Fuhrman, J.A. 1992. Bacterioplankton roles in cycling of organic matter: the microbial food web. In P.G. Falkowski and A.D. Woodhead (editors), Primary Productivity and Biogeochemical Cycles in the Sea. Plenum Press, New York. pp. 361-383

55. Kristiansen, K., H. Nielsen, B. Riemann, and J.A. Fuhrman. 1992. Growth efficiencies of freshwater bacterioplankton. Microb. Ecol. 24: 145-160

56. Fuhrman, J.A. 1992. Bacterial growth in the sea (Current Contents Citation Classic). Current Contents: Agriculture, Biology, and Environmental Sciences, 23: 8 (not reviewed)

57. Proctor, L.M. and J.A. Fuhrman. 1992. Mortality of marine bacteria in response to enrichments of the virus size fraction from seawater. Mar. Ecol. Prog. Ser.87: 283-293

58. Fuhrman, J.A., K. McCallum, and A.A. Davis. 1993. Phylogenetic diversity of subsurface marine microbial communities from the Atlantic and Pacific Oceans. Appl. Environ. Microbiol. 59: 1294-1302

59. Proctor, L.M., A. Okubo, and J.A. Fuhrman. 1993. Calibrating estimates of phage-induced mortality in marine bacteria: Ultrastructural studies of marine bacteriophage development from one-step growth experiments. Microb. Ecol. 25: 161-182

60. Fuhrman, J.A. and C. A. Suttle. 1993. Viruses in marine plankton. Oceanography 6: 51-63

61. Fuhrman, J.A. 1993. Measuring marine bacterial growth (Current Contents Citation Classic). Current Contents: Agriculture, Biology, and Environmental Sciences 24: 8 (not reviewed)

62. Fuhrman, J.A., R.M. Wilcox, R.T. Noble, and N.C. Law. 1993. Viruses in marine food webs. In Guerrero, R. and C. Pedros-Alio (eds). Trends in microbial ecology. Spanish Society for Microbiology, Barcelona. pp. 295-298.

63. Fuhrman, J.A., S.H. Lee, Y. Masuchi, A.A. Davis, and R.M. Wilcox. 1994. Characterization of marine prokaryotic communities via DNA and RNA. Microb. Ecol. 28:133-145

64. Wilcox, R.M. and J.A. Fuhrman. 1994. Bacterial viruses in coastal seawater: lytic rather than lysogenic production. Mar. Ecol. Prog. Ser. 114: 35-45

6 65. Lee, S.H., Y-C. Kang, and J.A. Fuhrman. 1995. Imperfect retention of natural bacterioplankton cells by glass fiber filters. Mar. Ecol. Prog. Ser. 119: 285-290

66. Fuhrman, J.A. and R.T. Noble. 1995. Viruses and protists cause similar bacterial mortality in coastal seawater. Limnol. Oceanogr. 40: 1236-1242

67. Thingstad, T.F., J.R. Dolan, and J.A. Fuhrman. 1996. Loss rate estimates of an oligotrophic bacterial 3 32 assemblage as measured by H-thymidine and PO4: good agreement and near-balance with production. Aquat. Microb. Ecol. 10: 29-36

68. Fuhrman, J.A. 1997. Community structure: Bacteria and Archaea. In: C.J. Hurst, G.R. Knudsen, M.J. McInerney, L.D. Stetzenbach, M.V. Walter, eds., Manual of Environmental Microbiology. ASM Press, Washington DC, pp. 278-283

69. Noble, R.T., and J.A. Fuhrman. 1997. Virus decay and its causes in coastal waters. Appl. Environ. Microbiol. 63:77-83

70. Karner, M. and J.A. Fuhrman. 1997. Determination of “active” marine bacterioplankton: a comparison of universal 16S rRNA probes, autoradiography, and nucleoid staining. Appl. Environ. Microbiol. 63: 1208-1213

71. Fuhrman, J.A., and A.A. Davis.1997. Widespread Archaea and novel Bacteria from the deep sea as shown by 16S rRNA gene sequences. Mar. Ecol. Prog. Ser. 150: 275-285

72. Ouverney, C.C. and J.A. Fuhrman. 1997. Increasing fluorescence of 16S rRNA in situ hybridization with chloramphenicol. Appl. Environ. Microbiol. 63: 2735-2740

73. Noble, R.T., and J.A. Fuhrman. 1998. Use of SYBR Green I for rapid epifluorescence counts of marine viruses and bacteria. Aquat. Microb. Ecol. 14: 113-118

74. Fuhrman, J.A. and L. Campbell. 1998. Microbial microdiversity. Nature (London) 393: 410-411

75. Fuhrman, J.A. and C. C. Ouverney. 1998. Marine microbial diversity studied via 16S rRNA sequences: cloning results from coastal waters and counting of native archaea with fluorescent single cell probes. Aquat. Ecol. 32: 3-15

76. Ouverney, C.C. and J.A. Fuhrman. 1999. Combined microautoradiography -16S rRNA probe technique for the determination of radioisotope uptake by specific microbial cell types in situ. Appl. Environ. Microbiol. 65:1746-1752

77. Noble, R.T., M. Middelboe, and J.A. Fuhrman. 1999. The effects of viral enrichment on the mortality and growth of heterotrophic bacterioplankton. Aquat. Microb. Ecol. 18:1-13

78. Fuhrman, J.A. 1999. Marine viruses and their biogeochemical and ecological effects. Nature (London) 399: 541-548

79. Noble, R.T. and J.A. Fuhrman. 1999. Breakdown and microbial uptake of marine viruses and other lysis products. Aquat. Microb. Ecol. 20:1-11

7 80. Gasol, J.M.,U. L. Zweifel, F. Peters, J.A. Fuhrman, and Å. Hagström. 1999. Significance of size and nucleic acid content heterogeneity as measured by flow cytometry in natural planktonic bacteria. Appl. Environ. Microbiol. 65:4475-4483

81. Fuhrman, J.A. and R.T. Noble. 2000. Causative agents of bacterial mortality and the consequences to marine food webs. In Microbial biosystems: new frontiers. Proc 8th Int Symp Microb. Ecol. (ed. Bell, C.R., Brylinsky, M, & Johnson-Green, P.). Atlantic Canada Society for Microbial Ecology, Halifax, Canada pp. 145-151

82. Fuhrman, J.A. 2000. Impact of viruses on planktonic bacteria. In: Microbial Ecology of the Oceans, D.L. Kirchman (ed.), Wiley & Sons. pp 327 - 350

83. Noble, R.T and, J. A. Fuhrman. 2000. Rapid viral production and removal as measured with fluorescently labeled viruses as tracers. Appl. Environ. Microbiol.. 66:3790-3797

84. Ouverney, C.C. and J.A. Fuhrman. 2000. Marine planktonic Archaea take up amino acids. Appl. Environ. Microbiol. 66:4829-4833

85. Fuhrman, J.A. 2000. Microbial Contamination. In: Opportunities for Environmental Applications of Marine Biotechnology. National Academy Press, Washington DC, pp. 102-111

86. Fuhrman, J.A., and D.G. Capone. 2001. Nifty nanoplankton. Nature (London) 412: 593-594

87. Hewson, I., J. M. O’Neil, J. A. Fuhrman, W.C. Dennison. 2001. Virus-like particle distribution and abundance in sediments and overlying waters along eutrophication gradients in two subtropical estuaries. Limnol Oceanogr. 46:1734-1746

88. Noble, R.T. and J.A. Fuhrman. 2001. Enteroviruses detected by reverse transcriptase polymerase chain reaction from the coastal waters of Santa Monica Bay, California: Low correlation to bacterial indicator levels. Hydrobiologia 460:175-184.

89. Fuhrman, J.A. 2001. Plankton Viruses. In: Encyclopedia of Ocean Sciences, vol. 1, J. Steele, S. Thorpe and K. Turekian, eds. Academic Press, London. pages 2200-2207

90. Fuhrman, J.A. 2001. Community structure: Bacteria and Archaea. In: C.J. Hurst, R.L. Crawford, G.R. Knudsen, M.J. McInerney, L.D. Stetzenbach, eds., Manual of Environmental Microbiology, 2nd edition. ASM Press, Washington DC , pages 371-377

91. Fuhrman, J. A., J. F. Griffith, and M. S. Schwalbach. 2002. Prokaryotic and viral diversity patterns in marine plankton. Ecological Research 17 (2): 183-194

92. Fuhrman, J.A. 2002. Viruses in the Marine Environment. In: Encyclopedia of Environmental Microbiology, G. Bitton, ed., Wiley & Sons, New York pages 3300-3310

93. Staley, J.T. and J.A. Fuhrman. 2002. Microbial Diversity. In: Encyclopedia of global environmental change, vol. 2, The Earth system: biological and ecological dimensions of global environmental change, H.A. Mooney and J.G. Canadell, editors. Wiley & Sons, Chichester UK. pp 421-425

94. Fuhrman, J.A. 2002. Community structure and function in prokaryotic marine plankton. Antonie van Leeuwenhoek 81:521-527

8 95. Jiang, S., W. Fu, W, Chu, and J.A. Fuhrman. 2003. The vertical distribution and diversity of marine bacteriophage at a station off Southern California. Microb. Ecol. 45:399-410. Online DOI: 10.1007/s00248-002-1059-3

96. Hewson I, and J. A. Fuhrman. 2003. Viriobenthos production and virioplankton sorptive scavenging by suspended sediment particles in coastal and pelagic waters. Microbial Ecology 46: 337-347

97. Gonzalez, J. M., J. S. Covert, W. B. Whitman, J. R. Henriksen, F. Mayer, B. Scharf, R. Schmitt, A. Buchan, J. A. Fuhrman, R. P. Kiene and M. A. Moran. 2003. Silicibacter pomeroyi sp. nov. and Roseovarius nubinhibens sp. nov., dimethylsulfoniopropionate-demethylating bacteria from marine environments. Int. J. Syst. Evol. Microbiol. 53:1261-1269.

98. Boehm, A.B, J.A.Fuhrman, R.D.Mrše, and S. B.Grant. 2003 A tiered approach for identfication of a human fecal pollution source at a recreational beach:case study at Avalon Bay, Catalina Island, California, USA. Env. Sci. & Tech. 37(4):673-680

99. Fuhrman, J.A. and M.S. Schwalbach. 2003. Viral influence on aquatic bacterial communities. Biol. Bulletin. 204: 192-195

100. Fuhrman, J. 2003. Genome sequences from the sea. Nature 424: 1001-1002

101. Hewson, I., G. A. Vargo, and J.A. Fuhrman. 2003. Bacterial diversity in shallow oligotrophic marine benthos and overlying waters: effects of virus infection, containment, and nutrient enrichment. Microbial Ecology 46: 322-336

102. Field, K.G., E. C. Chern, L. K. Dick, J. A. Fuhrman, J. Griffith, P. A. Holden, M.G. LaMontagne, J. Le, B. Olson, and M. T. Simonich. 2003. A comparative study of culture-independent, library-independent genotypic methods of fecal source tracking. J. Wat. Health 1(4): 181-194

103. Schwalbach, M.S., I. Hewson, and J.A. Fuhrman. 2004. Viral effects on bacterial community composition in marine plankton mesocosms. Aquat. Microb. Ecol. 34:117-127

104. Ouverney C.C., Fuhrman J.A. 2004. Correlating single-cell count with function in mixed natural microbial communities through STARFISH. In G. A. Kowalchuk, F. J. de Bruijn, I. M. Head, Akkermans, A.D.L., and J. D. van Elsas, editors. Molecular Microbial Ecology Manual, 2nd edition. Chapter 8.08: 1689-1710. Kluwer Academic Publishers, Dordrecht.

105. Hewson, I., Govil, S.R., Capone, D.G., Carpenter, E.J. and Fuhrman J.A. 2004 Evidence of Trichodesmium viral lysis and potential significance for biogeochemical cycling in the oligotrophic ocean. Aquatic Microbial Ecology 36: 1 - 8

106. Hewson, I, and J. A. Fuhrman. 2004. Bacterioplankton species richness and diversity along an estuarine gradient in Moreton Bay, Australia. Appl. Environ. Microbiol. 70(6): 3425-3433

107. Schwalbach, M.S. and J. A. Fuhrman. 2005. Wide-ranging abundances of aerobic anoxygenic phototrophic bacteria in the world ocean revealed by epifluorescence microscopy and quantitative PCR. Limnol. Oceanogr. 50: 620-628.

108. Brown, M.V., M.S. Schwalbach, I. Hewson and J. A. Fuhrman. 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

9 109. Fuhrman, J.A., R.T. Noble, and X. Liang. 2005. Rapid detection of enteroviruses from small volumes of natural waters by real time RT-PCR. Appl. Environ Microbiol. 71:4523-4530

110. Schwalbach, M.S., M. Brown and J. A.. Fuhrman. 2005. Impact of light on marine bacterioplankton community structure. Aquat. Microb. Ecol. 39: 235-245

111. Oremland, R.S., D. G. Capone, J.F. Stolz, and J.A. Fuhrman. 2005. Whither or Wither Geomicrobiology in the Era of “Community Metagenomics.” Nature Reviews Microbiology 3: 572-578

112. Brown, M.V.and J.A. Fuhrman. 2005. Marine bacterial microdiversity as revealed by internal transcribed spacer analysis. Aquat. Microb. Ecol. 41:15-23

113. Steele, J.A., F. Ozis, J.A. Fuhrman, J.S. Devinny. 2005. Structure of microbial communities in ethanol biofilters. Chemical Engineering Journal 113: 135-143

114. Hewson, I, and J.A. Fuhrman. 2006. Spatial and vertical biogeography of coral reef sediment bacterial and diazotroph communities . Marine Ecology Progress Series 306:79-86

115. Hewson, I, J. A. Steele, D.G. Capone , J.A. Fuhrman. 2006. Temporal and spatial scales of variation in bacterioplankton assemblages of oligotrophic surface waters. Mar. Ecol. Ecol. Ser. 311: 67-77

116. Hewson, I., and J. A. Fuhrman. 2006. Improved strategy for comparing community fingerprints. Microbial Ecology. 51: 147-153 DOI: 10.1007/s00248-005-0144-9

117. Noble, R.T., J F. Griffith, A.D. Blackwood, J.A. Fuhrman, J B. Gregory, X Hernandez, X Liang, A.A. Bera, K. Schiff. 2006. Multi-tiered approach using quantitative polymerase chain reaction for tracking sources of fecal pollution to Santa Monica Bay, California. Appl. Environ. Microbiol. 72: 1604-1612

118. Hewson, I, J. A. Steele, D.G. Capone , J.A. Fuhrman. 2006. Remarkable heterogeneity in meso- and bathypelagic bacterioplankton community composition. Limnol. Oceanogr. 51: 1274-1283

119. Hughes Martiny, J. B. , B.J.M. Bohannan, J.H. Brown, R. Colwell, J.A. Fuhrman, J. Green, M. C. Horner-Devine, M. Kane, J. A. Krumins, C. R. Kuske, P. Morin, S. Naeem, L. Øvreås, A-L. Reysenbach, V. Smith, J. Staley. 2006. Microbial biogeography: Putting microorganisms on the map. Nature Reviews Microbiology 4:102-112

120. Ruan, Q. , J. A. Steele, M..S. Schwalbach, J.A. Fuhrman, F. Sun. 2006. A Dynamic Programming Algorithm for Binning Microbial Community Profiles. Bioinformatics 22: 1508-1514 doi:10.1093/bioinformatics/btl114

121. Fuhrman, J.A., I. Hewson, M.S. Schwalbach, J. Steele, Mark V. Brown, and S. Naeem. 2006. Annually reoccurring bacterial communities are predictable from ocean conditions. Proc. Natl. Acad. Sci. USA, 103:13104-13109

122. . Ruan, Q., D. Dutta, M.S. Schwalbach, J. A. Steele, J.A. Fuhrman, and F. Sun. 2006. Local Similarity Analysis Reveals Unique Associations Among Marine Bacterioplankton Species and Environmental Factors. Bioinformatics. 20: 2532-2538. PMID: 16882654

10 123. Honjo, M, K. Matsui, M. Ueki, R. Nakamura, J.A. Fuhrman, and Z. Kawabata. 2006. Diversity of virus like agents killing Microcystis aeruginosa in a hyper-eutrophic pond. Journal of Plankton Research 28:407-412

124. Hewson, I., D.G. Capone, J. A. Steele, and J.A. Fuhrman. 2006. Influence of Amazon and Orinoco offshore surface water plumes on oligotrophic bacterioplankton diversity in the West Tropical Atlantic. Aquat. Microb. Ecol. 43:11-22

125 Hewson, Ian, and Jed A. Fuhrman. 2006. Viral impacts upon marine bacterioplankton assemblage structure. J. Mar. Biol. Asoc U.K. 86: 577-589

126. Hewson I., D.M. Winget, K.E.Williamson, J.A. Fuhrman and K. E. Wommack. 2006. Viral and bacterial assemblage covariance in oligotrophic waters of the West Florida Shelf (Gulf of Mexico). J. Mar. Biol. Asoc U.K. 86: 591-603

127. Fuhrman, J.A. Community Structure: Bacteria and Archaea. 2007. In: Christon J. Hurst, Ronald L. Crawford, Jay L. Garland, David A. Lipson, Aaron L. Mills, Linda D. Stetzenbach (eds.). Manual of Environmental Microbiology, 3rd edition. ASM Press, Washington, D.C. Section IV, Chap 35.

128. Hewson, I. and J.A. Fuhrman. 2007. Characterization of lysogens in bacterioplankton assemblages of the Southern California Borderland. Microbial Ecology 53: 631-638

129. Horner-Devine, M. Claire , Jessica M. Silver, Mathew A. Leibold, Brendan J. M. Bohannan, Robert K. Colwell, Jed A. Fuhrman, Jessica L. Green, Cheryl R. Kuske, Jennifer B. H. Martiny, Gerard Muyzer, Lise Øvreas, Anna-Louise Reysenbach, and Val H. Smith. 2007. A comparison of taxon co-occurrence patterns for macro- and microorganisms. Ecology 88:1345-1353

130. Hewson, I., Fuhrman, J.A. 2007. Covariation between viral parameters with bacterial assemblage richness and diversity in the water column and sediments. Deep Sea Research I. 54: 811-830 idoi:10.1016/j.dsr.2007.02.003

131. Hewson, I., Myrna E. Jacobson/Meyers and J. A. Fuhrman. 2007. Diversity and biogeography of bacterial assemblages in surface sediments across the San Pedro Basin, Southern California Borderlands. Environmental Microbiology 9: 923–933

132. Patel, A, R.T. Noble, J.A. Steele, M.S. Schwalbach, I. Hewson, and J.A. Fuhrman. 2007. Virus and prokaryote enumeration from planktonic marine environments by epifluorescence microscopy with SYBR Green I. Nature Protocols 2: 269-276

133. Fuhrman, J.A. and Åke Hagström. 2008. Bacterial and archaeal community structure and its patterns. In D.L. Kirchman (ed.) Microbial Ecology of the Oceans, 2nd edition. Wiley ISBN 978-0-470-04344-8. 593 pp.

134. Fuhrman, J.A. 2008. Measuring diversity. In K. Zengler (ed.) Accessing Uncultivated Microorganisms. ASM Press. ISBN:978-1-55581-406-9. 320 pages

135. Fuhrman, J.A., M.S. Schwalbach, U. Stingl. 2008. Proteorhodopsins: an array of physiological roles? Nature Reviews Microbiology. 6: 488-494

11 136. Fuhrman, J.A., J. A. Steele, I. Hewson, M. S. Schwalbach, M.V. Brown, J. L. Green, J. H. Brown. 2008. A latitudinal diversity gradient in planktonic marine bacteria.. Proc. Nat. Acad. Sci. USA. 105: 7774-7778

137. Hewson, I. and J.A. Fuhrman. 2008. Viruses, bacteria and the microbial loop. In D.G. Capone, D. A. Bronk, M. R. Mulholland and E. J. Carpenter (ed.), Nitrogen in the marine environment, Second edition. Elsevier.

138. Fuhrman, J.A. and J.A. Steele. 2008. Community structure of marine bacterioplankton: patterns, networks, and relationships to function. Aquat. Microb. Ecol. 53: 69-81

139. Fuhrman, J.A. 2009. Microbial community structure and its functional implications. Nature. 459: 193-199

140. Brown, M.V., G.K. Philip, J.A. Bunge, M.C. Smith, A. Bissett, F.M. Lauro, J.A. Fuhrman, S. P. Donachie. 2009. Microbial community structure in the North Pacific Ocean. ISME Journal.3: 1374-1386. doi: 10.1038/ismej.2009.86

141. Böer, Simone, Stefanie Hedtkamp, Justus van Beusekom, Jed A. Fuhrman, Antje Boetius, Alban Ramette. 2009. Time- and sediment depth-related variations in bacterial diversity and community structure in subtidal sandy sediments. ISME Journal 3:780-791

142. Griffith, J.F. K. D. Schiff, G. Lyon and J.A. Fuhrman. 2009. Microbiological water quality at non- human impacted reference beaches in Southern California during wet weather. Marine Pollution Bulletin. doi:10.1016/j.marpolbul.2009.11.015

143. Beman, J. M., R. Sachdeva, and J.A. Fuhrman. 2010. Population ecology of nitrifying Archaea and Bacteria in the Southern California Bight. Envir. Microbiol. Online doi:10.1111/j.1462- 2920.2010.02172.x , March 2010

144. Suttle, C.A and J. A. Fuhrman. 2010. Enumeration of virus particles in aquatic or sediment samples by epifluorescence microscopy . In: S.W. Wilhelm, M.G. Weinbauer and C.A. Suttle [eds], Manual of Aquatic Viral Ecology. ASLO. http://www.aslo.org/books/mave/

145. Bertics V.J. , J A. Sohm, T Treude, C-E T. Chow, D G. Capone, J A. Fuhrman, and W Ziebis. 2010. Burrowing deeper into benthic nitrogen fixation: The impact of bioturbation on nitrogen fixation coupled to sulfate reduction in coastal sediments. Mar. Ecol. Prog. Ser. In press.

146. Beman, J.M., C.-E. Chow, B. N. Popp, J.A. Fuhrman, A. Andersson, Y. Feng, A.L. King, D.A. Hutchins. Global declines in ammonia oxidation as a consequence of ocean acidification. Submitted to Science.

147. Romero I. C., Jacobson M., Fuhrman J.A., Fogel M. and Capone D. G. Spatial and Temporal Variability of Nitrogen-Fixing Microbial Populations in the Rhizosphere of Mangrove Sediments. Submitted to Appl. Envir. Microbiol

148. Hewson, I., C.E. Chow, and J.A. Fuhrman. The Ecological Role of Viruses in Aquatic Ecosystems. Encyclopedia of Life Sciences in press.

149. Danovaro, Roberto, Cinzia Corinaldesi, Antonio Dell’Anno, Jed A. Fuhrman,

12 Jack J. Middelburg, Rachel T. Noble and Curtis Suttle. Marine viruses and climate change. Submitted to FEMS Microbiology Reviews.

150. Steele , Joshua A., Peter D. Countway, Li Xia, Patrick D. Vigil, J. Michael Beman, Diane Y.Kim, Cheryl-Emiliane T. Chow, Rohan Sachdeva, Adriane C. Jones, Michael S. Schwalbach, Julie M. Rose, Ian Hewson, Anand Patel, Fengzhu Sun, David A. Caron, Jed A. Fuhrman Three-domain marine microbial association networks reveal ecological linkages. Submitted to Nature

BOOK REVIEWS

Aquatic Microbiology, by G. Rheinheimer. American Scientist 76: 90 (1988)

TECHNICAL REPORTS:

Dagit, Rosi, Steve Williams, and Jed Fuhrman. 2005. Topanga Creek Watershed Water Quality Study Final Report. Resource Conservation District of the Santa Monica Mountians, Topanga, CA

Noble T., Rachel, J.F. Griffith, A.D. Blackwood, J.A. Fuhrman, J.B. Gregory, X. Hernandez, X. Liang, A. A. Bera, K. Schiff. 2005. Multi-tiered approach using quantitative polymerase chain reaction for tracking sources of fecal pollution to Santa Monica Bay, California. Southern California Coastal Water Research Project, Westminster, CA.

PUBLISHED ABSTRACTS AND PRESENTATIONS

Fuhrman, J.A. "Accumulation of silicon by Platymonas, a marine alga with no apparent silicon requirement." 1978 Annual Meeting of the American Society of Limnology and Oceanography, Victoria, British Columbia

Fuhrman, J.A. and F. Azam. "Trophic dynamics of bacterioplankton in an enclosed marine water column: Controlled Ecosystem Population Experiment." 1979 Annual Meeting of the American Society for Microbiology, Los Angeles, California

Azam, F., J.T. Hollibaugh, J.A. Fuhrman, J.W. Ammerman, A.B. Carruthers and E.I. Mousalli. "Population dynamics of bacterioplankton in natural and polluted pelagic marine environments: studies in enclosed experimental ecosystems." Symposium on Enclosed Marine Experimental Ecosystems, Sidney, British Columbia,1980

Azam, F. and J.A. Fuhrman. "Measurements of bacterial biomass and secondary production in pelagic marine environments." Second International Symposium on Microbial Ecology, University of Warwick, U.K., 1980

Fuhrman, J.A. "Patterns of bacterioplankton production in the Southern California Bight." American Society for Microbiology Annual Meeting, Atlanta, 1982

Fuhrman, J.A. "Diel studies of bacteria, phytoplankton, and related chemical parameters in the Southern California Bight. Marine Microbial Ecology Symposium on Major Element Flow in Pelagic and Benthic Environments. Univ. of Copenhagen, Sept. 1982

13 Fuhrman, J.A., F. Azam, R.W. Eppley, A. Hagstrom." Diel variations of phytoplankton, bacterioplankton, and related parameters in the Southern California Bight". Winter Meeting of the American Society of Limnology and Oceanography, San Francisco, 1982 (in EOS 63:946)

Ammerman, J.W., J.A. Fuhrman, A. Hagstrom, and F. Azam. Growth characteristics of bacteria grown in "seawater cultures". Third International Symposium on Microbial Ecology, Lansing, Michigan, 1983

Fuhrman, J.A., J. Mitchell, and J. Bauer." Bacterioplankton abundance and production in Long Island Sound: Seasonal cycle and implications regarding grazing". Third International Symposium on Microbial Ecology, Lansing, Michigan, 1983

Fuhrman, J.A. "Close coupling between uptake and release of amino acids in seawater." Winter meeting of the American Society of Limnology and Oceanography, New Orleans, 1984 (in EOS 64:1095)

McManus, G.B. and J.A. Fuhrman. "Do bacteria-sized eukaryotes consume significant bacterial production?" Winter meeting of the American Society of Limnology and Oceanography, New Orleans, 1984 (in EOS 64:1095)

Fuhrman, J.A. " Are small unseen eukaryotes important in marine ecosystems?" Annual Meeting of the American Association for the Advancement of Science, New York, 1984

Fuhrman, J.A. " Biological considerations in the measurement of dissolved free amino acids in seawater: implications for chemical and microbiological studies." Winter ASLO/AGU Meeting, San Francisco, 1984 (in EOS 65:926)

McManus, G.B., J.A. Fuhrman, and D.G. Capone. "Bactivory in seawater studied with the use of inert fluorescent particles." Winter AGU/ASLO Meeting, San Francisco, 1984 (in EOS 65:926)

Mitchell, J.G., A. Okubo, and J.A. Fuhrman. "Microzones and phycospheres; their size, nutrient concentration, and location in the water." Winter AGU/ASLO Meeting, San Francisco, 1984 (in EOS 65:925)

Ferguson, R.L., J.A. Fuhrman, and A.V. Palumbo. "Response of coastal bacterioplankton to chronic dumping of wastewater sludge." Winter AGU/ASLO Meeting, San Francisco, 1984 (in EOS 65:926)

Fuhrman, J.A., S.G. Horrigan, J.G. Mitchell, and D.G. Capone. "Bacterial and algal uptake of ammonium from seawater studied with short- lived and stable isotopes of nitrogen" Winter AGU/ASLO Meeting, New Orleans, 1986 (in EOS 66:1334)

McManus, G.B. and J.A. Fuhrman. "Field estimates of bacterivory in the plume of the Chesapeake Bay." Winter AGU/ASLO Meeting, New Orleans, 1986 (in EOS 66:1314)

Malone, T.C., W.C. Boicourt, H.W. Ducklow, M.R. Roman, J.A. Fuhrman, G.B. McManus, C. Garside, and P.M. Glibert. "Hydrography and plankton dynamics in a coastal estuarine plume." Winter AGU/ASLO Meeting, New Orleans, 1986 (in EOS 66:1268)

Fuhrman, J.A. and J.A. McDaniel. "Utilization of dissolved proteins by marine bacteria". Am. Soc. for Microbiology annual meeting, Washington DC, 1986

14 Fuhrman, J.A. and J.A. McDaniel. "Temporal patterns of amino acid uptake and regeneration in estuarine plumes". ASLO/PSA Joint Meeting, Univ. of Rhode Island, 1986

McManus, G.B. and J.A. Fuhrman. "Chloroplasts and pigments in the ciliate Laboea strobila Lohmann". ASLO/PSA Joint Meeting, Univ. of Rhode Island, 1986

Lee, S. and J.A. Fuhrman. "Conversion of marine bacterial biovolume to carbon and nitrogen biomass". ASLO/PSA Joint Meeting, Univ. of Rhode Island, 1986

Mitchell, J.G. and J.A. Fuhrman. "A search for microzones and phycospheres in steep pycnoclines". ASLO/PSA Joint Meeting, Univ. of Rhode Island, 1986

Fuhrman, J.A. and G.B. McManus. "Control of natural bacterioplankton populations". Fourth International Congress of Ecology, Syracuse, NY, 1986

Fuhrman, J.A. and G.B. McManus. "Carbon and nitrogen exchanges among microbial populations of estuarine outflows: pathways of material flux to and from bacteria". Fourth International Symposium on Microbial Ecology, Ljubljana, Yugoslavia, 1986

Roman, M.R., H.W. Ducklow, P.M. Glibert, T.C. Malone, J.A. Fuhrman, G.B. McManus, and C. Garside. "Copepods can jump through the microbial loop." Winter AGU/ASLO Meeting, San Francisco, 1986 (in EOS 67: 968)

McManus, G.B., W.T. Peterson, and J.A. Fuhrman. "Bacterial production at a nearshore station during coastal upwelling." Winter AGU/ASLO Meeting, San Francisco, 1986, (in EOS 67: 976)

Fuhrman, J.A., S. Lee, J. Mitchell, M. Legier, G.B. McManus, and S.G. Horrigan. "Seasonal and interannual variations of bacterial and phytoplankton parameters at a temperate coastal station." Winter AGU/ASLO Meeting, San Francisco, 1986 (in EOS 67: 976)

Mitchell, J.G., J.A. Fuhrman, and A. Okubo. "A new mechanism for microscale heterogeneity of plankton." Winter AGU/ASLO Meeting, San Francisco, 1986 (in EOS 67: 977)

Ducklow, H.W., T.C. Malone, M.R. Roman, J.A. Fuhrman, and G.B. McManus. "Planktonic carbon fluxes and community structure in the outflow plume of Chesapeake Bay." Winter AGU/ASLO Meeting, San Francisco, 1986 (in EOS 67: 997)

Fuhrman, J.A., D.E. Comeau, A.M. Chan, and A. Hagstrom. "DNA extraction, genomic library development, and molecular phylogenetic characterization of mixed planktonic microbial communities." Winter AGU/ASLO Meeting, New Orleans, 1988 (in EOS 68: 1677)

Mitchell, J.G., J.A. Fuhrman, and A. Okubo. "The contribution of plankton to ocean density gradients." Winter AGU/ASLO Meeting, New Orleans, 1988 (in EOS 68: 1696)

Glibert, P.M., J.A. Fuhrman, C. Garside, and M.R. Roman. "Comparison of inorganic and organic nitrogen fluxes in the Chesapeake Bay Plume." Winter AGU/ASLO Meeting, New Orleans, 1988 (in EOS 68: 1704)

McManus, G.B., J.A. Fuhrman, M.R. Roman, and H.W. Ducklow. "Growth and mortality of heterotrophic microflagellates in the Chesapeake Bay outflow plume." Winter AGU/ASLO Meeting, New Orleans, 1988 (in EOS 68: 1704)

15 Fuhrman, J.A., T. Sleeter, and C. Carlson. "Oligotrophic ocean biomass is dominated by nonphotosynthetic bacteria, even in the euphotic zone." Winter AGU/ASLO Meeting, New Orleans, 1988 (in EOS 68: 1729)

Suttle, C.A., and J.A. Fuhrman. "Amino acid uptake rates and turnover times in oligotrophic oceanic water near Bermuda." Winter AGU/ASLO Meeting, New Orleans, 1988 (in EOS 68: 1740)

Suttle, C.A., J.A. Fuhrman, and D.G. Capone. "Rapid ammonium turnover times and concentration dependent resource partitioning in planktonic communities measured using 13N." Winter AGU/ASLO Meeting, New Orleans, 1988 (in EOS 68: 1761)

Fuhrman, J.A. "Rapid turnover of dissolved organic nutrients by estuarine microorganisms." Gordon Research Conference on Estuarine Processes: Regulatory Mechanisms, Ventura CA, 1988

Lee, S., and J.A. Fuhrman. "A quantitative comparison of natural bacterioplankton population similarities by total DNA hybridization." Fall AGU/ASLO Meeting, San Francisco, 1988 (in EOS 69: 1088)

McManus, G.B., J.A. Fuhrman, and C.W. Sullivan. "Heterotrophic nanoflagellate abundance in relation to marine mesoscale features: the Cheasapeake plume and the Bering Sea ice edge." Fall AGU/ASLO Meeting, San Francisco, 1988 (in EOS 69: 1091)

Suttle, C.A., L.M. Proctor, A.M. Chan, and J.A. Fuhrman. "Do phytoplankton incorporate amino acids at ambient concentrations in Sargasso Seawater?" Fall AGU/ASLO Meeting, San Francisco, 1988 (in EOS 69: 1097)

Proctor, L.M., J.A. Fuhrman, and M.C. Ledbetter. "Marine bacteriophages and bacterial mortality." Fall AGU/ASLO Meeting, San Francisco, 1988 (in EOS 69: 1111)

Fuhrman, J.A. and S. Lee "Natural microbial species variations studied at the DNA level." Invited talk at Fifth International Symposium on Microbial Ecology, Kyoto, Japan 1989 (published in symposium volume)

Proctor, L.M. and J.A. Fuhrman. "Bacteriophage-infected bacteria in the sea." Fifth International Symposium on Microbial Ecology, Kyoto, Japan 1989

Lee, S. and J.A. Fuhrman. "Spatial and temporal variation of species compositions of natural bacterioplankton communities studied at the DNA level." Winter AGU/ASLO Meeting, New Orleans, 1990 (in EOS 71: 186)

Proctor, L.M. and J.A. Fuhrman. "Phage replication rates and generation times of marine vibrios". Annual ASM National Meeting. Anaheim, CA. 1990

Lee, S.H. and J.A. Fuhrman. " The unique species composition of natural bacterial communities from a Bermuda coral reef lagoon studied by community DNA hybridization." Annual ASM National Meeting, Dallas, Texas. 1991

Masuchi, Y. and J.A. Fuhrman. " Natural bacterial communities in marine environments" Annual ASM National Meeting, Dallas, Texas. 1991

16 Fuhrman, J.A. "Bacterial production in relation to primary production." Brookhaven National Laboratory Symposium entitled Primary Productivity and Biogeochemical Bycles in the Sea. 1991.

Fuhrman, J.A. " Virus abundance and potential roles." Fifth International Workshop on the Measurement of Microbial Activities in the Carbon Cycle in Aquatic Environments. Helsingør, Denmark . 1991

Fuhrman, J.A., R.T. Noble, and R.M. Wilcox. "Fates of viruses in seawater." ASLO Aquatic Sciences Meeting. Santa Fe, New Mexico. 1992.

Fuhrman, J.A., K. McCallum, and A.A. Davis. "Novel bacteria in marine plankton as studied by 16S rRNA genes cloned from biomass." ASM Annual Meeting. New Orleans. 1992

Noble, R.T., R.M. Wilcox, and J.A. Fuhrman. "Degradation of viruses in seawater." ASM Annual Meeting. New Orleans. 1992

Fuhrman, J.A. "Bacteriophage roles in marine food webs." International Symposium on Microbial Ecology. Barcelona, Spain. 1992.

Fuhrman, J.A. "Characterization of marine microbial communities via DNA and RNA." Microbial Loop Symposium, University of Georgia, October 1993.

Fuhrman, J.A. and A.A. Davis. "Novel prokaryotic phylogenetic groups from marine plankton" ASM Annual Meeting. Las Vegas. 1994.

Noble, R.T., R.M. Wilcox, and J.A. Fuhrman. "Viral and bacterial dynamics in Santa Monica Bay seawater mesocosms." ASM Annual Meeting. Las Vegas. 1994.

Fuhrman, J.A. "What is out there? Strange and unexpected microbes in marine plankton." Sixth International Workshop on the Measurement of Microbial Activities in the Cycling of Matter in Aquatic Environments. Konstanz, Germany. April 1995.

Fuhrman, J.A. "Viruses and protists cause similar bacterial mortality in coastal seawater." Invited seminar at University of Konstanz (Germany) Limnological Institute. April 1995.

Nobel, R.T. and J.A. Fuhrman. "Dynamics of the marine microbial food web in ocean mesocosms." ASM Annual Meeting. Washington, D.C. May 1995.

Davis, A.A. and J.A. Fuhrman. " Rapid screening for novel organisms by RNA colony blot." ASM Annual Meeting. Washington, D.C. May 1995.

Fuhrman, J.A. "Diversity of marine microbes." Invited speaker at the Gordon Research Conference on Applied and Environmental Microbiology. New Hampton School, New Hampshire. July 1995.

Noble, R.T. and J.A. Fuhrman."Anthropogenic influences on the microbiology of the urban ocean of Los Angeles. AGU/ASLO Ocean Sciences Meeting, San Diego, February 1996. In EOS 76(3): OS14

Fuhrman, J.A. and A.A. Davis. " Microbial biodiversity of antarctic and coral reef plankton by 16S rRNA cloning and sequencing. AGU/ASLO Ocean Sciences Meeting, San Diego, February 1996. In EOS 76(3): OS160-OS161

17 Fuhrman, J.A. "What is out there? Biodiversity patterns in marine plankton." Scripps Institution of Oceanography Marine Biology Seminar. 16 February 1996

Fuhrman, J.A. "Microbes in the Sea: Changing Paradigms." Lecture at Princeton University, 11 March 1996

Noble, R.T. and J.A. Fuhrman. “Comparison between decay of infectivity and macromolecular fates of viruses in Santa Monica Bay.” ASM Annual Meeting, New Orleans, May 1996

Karner, M. and J.A. Fuhrman. “Fluorescent 16S rRNA probe marine bacterial counts match or exceed counts obtained by autoradiography, nucleoid staining, or 5-Cyano-2,3-ditolyl tetrazolium chloride staining.” ASM Annual Meeting, New Orleans, May 1996

Fuhrman, J.A. “Paradigms Lost: Changes in Our View of Marine Microbes” Seminar given at California Institute of Technology, 20 November 1996

Fuhrman, J.A. “Two decades of change in marine microbiology” Seminar given at Texas A&M University, 21 April 1997

Fuhrman, J.A. “Changing views of marine prokaryotes” Seminar given at UC Santa Cruz, May 1997

Noble, R.T. and J.A. Fuhrman, "Breakdown and Microbial Uptake of Marine Viruses" ASM National Meeting, Miami Beach, FL, May 1997.

Fuhrman, J.A. “Molecular approaches in the study of marine microbial diversity” Symposium at Royal Dutch Academy of Sciences, Amsterdam, 11 June 1997

Fuhrman, J.A. “Changing views of marine microbes” Seminar given at the Netherlands Institute for Sea Research, Texel, 12 June 1997.

Fuhrman, J.A. “Changing ideas in marine microbiology” Seminar given at the Marine Biology Laboratory of Trieste University, Trieste, Italy, 1 July 1997.

Fuhrman, J.A. “Changing views of aquatic prokaryotes” Symposium at the Max Planck Institute for Terrestrial Microbiology, Marburg, Germany, 2 July 1997.

Fuhrman, J.A. “Marine microbes in a global context.” Seminar given at the Jet Propulsion Lab, California Institute of Technology, Pasadena, 22 July 1997

Noble, R.T., J.G. Griffith, and J. A. Fuhrman, "Detection of human pathogenic viruses in Santa Monica Bay seawater: Any correlation to presence and numbers of fecal coliforms?" Conference: Coastal Zone 1997. Boston, MA, 24 July 1997.

Fuhrman, J.A., “Shifting paradigms about marine microorganisms.” Seminar given at the Institute of Marine Sciences, Barcelona, Spain, 2 October 1997.

Fuhrman, J.A. “Our changing view of marine microbes.” Seminar given at University of Murcia, Spain, 6 October 1997.

Fuhrman, J.A. “Qualitative and quantitative analysis of marine microbial diversity.” Keynote address given at University of Georgia, 8 December 1997.

18 Fuhrman, J.A. “Changing perspectives of marine microbes.” Seminar given at Georgia Institute of Technology, 27 January 1998.

Fuhrman, J.A. and R.T. Noble “Potential Roles of Viruses in Regulating Marine Carbon Flux.” ASLO/AGU Ocean Sciences Meeting, San Diego, February 1998

Ouverney, C.C. and J.A. Fuhrman “Determining in Situ Nutrient Uptake by Specific Prokaryotic Groups in a Mixed Marine Community.” ASLO/AGU Ocean Sciences Meeting, San Diego, February 1998

Noble, R.T. and J.A. Fuhrman. “Estimates of Production and Loss of Viruses in Seawater From Tracer Studies” ASLO/AGU Ocean Sciences Meeting, San Diego, February 1998

Thingstad, T.F., G.-A. Fonnes, C. Marrasé, F.Peters, J. Gasol , M. Sala, M.Vidal, U.L. Zweifel, F. Rassoulzadegan, and J.A. Fuhrman. “Microbial affinity for orthophosphate studied in microcosms with natural plankton communities from western Mediterranean.” Sixth European Marine Microbiology Symposium, Sitges, Spain, May 1998

Fuhrman, J.A. and R.T. Noble. “Causative agents of bacterial mortality and the consequences to marine food webs.” Eighth International Symposium on Microbial Ecology. Halifax, Canada, August 1998

Noble, R.T. and J.A. Fuhrman. “Estimates of virus production and removal rates: implications to bacterial mortality in the marine environment.” Eighth International Symposium on Microbial Ecology. Halifax, Canada, August 1998

Fuhrman, J.A. “Biodiversity.” Keynote address at Salzau Workshop of Kiel Institut fur Meereskunde, Salzau, Germany, September 1998

Fuhrman, J.A. “Changing views of marine microbes.” Seminar given at Kiel Institute fur Meereskunde, Kiel, Germany, September 1998.

Rossi, P., M. Karner, C. Ouverney, J.A. Fuhrman, M. Aragno. “Mise en évidence de la biodiversité microbienne en milieux océaniques à l’aide de sondes oligonucléotides fluorescentes et de l’hydridation in situ de l’ARN 16S.” Atelier du Riseau Biodiversiti et Ecologie Microbienne, Aussois, France, December 1998

Fuhrman, J.A. “Changing perspectives on marine microorganisms” Seminar given at University of Paris VI, December 1998

Fuhrman, J.A. “Which microbes are active and what kinds are they?” American Society of Limnology and Oceanography Meeting, Santa Fe, New Mexico, February 1999

Ouverney, C.C. and J.A. Fuhrman “Simultaneous in situ measurements of specific nutrient uptake by specific marine bacterioplankton cells. ”American Society of Limnology and Oceanography Meeting, Santa Fe, New Mexico, February 1999

Carr, L., C.C. Ouverney, and J.A. Fuhrman “Comparisons of bacterial and archaeal concentrations between nearshore and open ocean depth profiles off Southern California.”American Society of Limnology and Oceanography Meeting, Santa Fe, New Mexico, February 1999

19 Noble, R.T., J.A. Fuhrman, and A. Michaels “Detection of indicator viruses in effluent-impacted coastal waters of the Southern California Bight.”American Society of Limnology and Oceanography Meeting, Santa Fe, New Mexico, February 1999

Fuhrman, J.A. and C.C. Ouverney. “Marine bacterioplankton identification and activity assays with 16S rRNA probes and microautoradiography.” 143rd Meeting of the Society for General Microbiology, University of Edinburgh, Scotland, April 1999

Noble, R.T. and J.A. Fuhrman. “Detection of human enteric viruses in the Southern California Bight: any relation to bacteriological water quality?” Coastal Zone Meeting, San Diego, July 1999

Fuhrman, J.A. “Microbial Contamination.” National Research Council Workshop on Opportunities for Advancement of Environmental Marine Biotechnology. Washington, D.C. October 1999

Fuhrman, J.A. “Virus-caused mortality of marine microbes.” Invited. American Geophysical Union/ American Society of Limnology and Oceanography Meeting. San Antonio. January 2000.

Fuhrman, J.A. “Breaking open the black box of marine prokaryotes.” Invited. Microbial Genomics and Molecular Ecology Workshop of the Natural Environment Research Council, Warwick University, U.K. May 2000

Fuhrman, J.A. “Marine viruses and their biogeochemical and ecological effects.” Invited. Microbial Genomics and Molecular Ecology Workshop of the Natural Environment Research Council, Warwick University, U.K. May 2000

Griffith, J.F., J.A. Fuhrman, and A.A. Davis. “Temporal variation in bacterial and viral communities.” American Society for Microbiology Annual Meeting, Los Angeles, May, 2000

Fuhrman, J.A. “ Marine viruses and their ecological and biogeochemical effects.” Steinbach Scholar lecture, Woods Hole Oceanographic Institution, July 2000

Fuhrman, J.A. “Breaking open the “black box” of marine prokaryotes.” Steinbach Scholar lecture, Woods Hole Oceanographic Institution, July 2000

Fuhrman, J.A. “Bacterial diversity patterns and viruses in marine plankton.” Food Web Conference, Kyoto Japan, December 2000

Griffith, J.F. A.A. Davis, and J.A. Fuhrman “Relating prokaryotic and viral diversity in marine waters.” American Society for Limnology and Oceanography Aquatic Sciences Meeting, Albuquerque, February 2001

Fuhrman, J.A. “Two decades of change in marine microbiology.” Seminar at University of Pennsylvania, May 2001

Fuhrman, J.A. “Community structure and function in prokaryotic marine plankton.” 9th International Symposium on Microbial Ecology, Amsterdam, August 2001

Griffith, J.F. and J.A. Fuhrman. “Temporal change in marine prokaryotic and viral diversity in nutrient amended mesocosms.” 9th International Symposium on Microbial Ecology, Amsterdam, August 2001

20 Fuhrman, J.A. “Marine viruses and bacterial diversity - are they connected?” Society for General Microbiology Annual Meeting, Univ. of East Anglia, UK, September 2001

Fuhrman, J.A. “Two decades of change in marine microbiology.” Opening lecture, Annual Meeting of the Spanish Society for Microbiology, Alicante, Spain. September 2001.

Fuhrman, J.A. “ Activity and diversity of marine microorganisms.” Seminar at Scripps Institution of Oceanography, October 2001

Fuhrman, J.A., I. Hewson, and M. Schwalbach. “Viral and Bacterial Community Shifts at an Ocean Time Series Station.” AGU/ASLO Meeting, Honolulu, February 2002 Station

Fuhrman, J.A. and M. Schwalbach “Interactions between genomes of bacteria and bacteriophages in an environmental context.” Outcomes of Genome-Genome Interactions Workshop, NASA, Woods Hole, May 2002

Fuhrman, J.A. “Bacteria and viruses in Southern California waters.” Santa Monica Bay Science Workshop, Los Angeles, May 2002.

Fuhrman, J.A., I. Hewson, and M. Schwalbach. “Relationships between viral and bacterial community composition in marine plankton. Inernational Union of Microbiological Societies Meeting, Paris, August 2002.

Fuhrman, J., D. Caron, M. Brown, P. Countway, I. Hewson, X. Hernandez, X. Liang, M. Schwalbach, A. Schnetzer, R. Schaffner, , and M. Travao. “The USC Microbial Observatory” NSF Workshop on Microbial Observatories and Life in Extreme Environments, Arlington, Virginia, September 2002.

Fuhrman, J. “ Two decades of change in marine microbiology” Seminar at UC Santa Barbara, January 2003

Fuhrman, J. “Marine bacterial diversity: dynamics and controlling factors “ Seminar at University of British Columbia, January 2003

Hewson, I, And J. Fuhrman “Virus effects on bacterial communities in shallow coastal benthos.” Presented at ASLO Ocean Sciences Meeting, Salt Lake City. February 2003

Schwalbach, M.S.. I Hewson, and J. Fuhrman. “Aerobic anoxygenic phototrophs: quantification in California coastal waters and possible ecological roles in marine bacterioplankton.” Presented at ASLO Ocean Sciences Meeting, Salt Lake City. February 2003

Fuhrman, J. “Changing paradigms in marine microbiology” Seminar at Oceanographic Observatory, Villefranche-sur-Mer, France, February 2003

Fuhrman, J. “Marine viruses and their effects on bacteria” Seminar at University of Barcelona, April 2003

Fuhrman, J. “Patterns of narine bacterial and viral diversity” Seminar at University of Paris VI Marine station in Banyuls, France. April 2003

Fuhrman, J. “Two decades of change in marine microbiology” Seminar at University of Barcelona, April 2003.

21 Fuhrman, J. “Human pathogens in the marine environment” Invited talk at The Oceanography Society National Meeting , New Orleans June 2003

Fuhrman, J. "How Marine Biology Concerns Us All", Lecture at Temple Beth Hillel, Studio City CA June 2003

Featured interview on ‘The Osgood File’ (CBS Radio), August 2003 wcbs880.com/osgood/osgood_story_216112839.htm

Fuhrman, J. “Our changing view of marine microbiology” Seminar at Scripps Institution of Oceanography, UCSD, September 2003

Fuhrman, J. “Our changing view of marine microbiology” Seminar at Cornell University, October 2003

Fuhrman, J., I. Hewson, M. Schwalbach, M.Brown. “Temporal and geographic patterns of marine bacterial community composition” Presented at ASLO Ocean Sciences Meeting, Honolulu, Febuary 2004

Brown, M.V., I. Hewson, J. Fuhrman. “Tracking temporal patterns of microbial biodiversity, microdiversity and community structure at various depths in the San Pedro Channel, California.” Presented at ASLO Ocean Sciences Meeting, Honolulu, Febuary 2004

Steele, J. A., Hewson, I., Capone, D. G., Fuhrman, J. A. “ Effects of inorganic iron, phosphorus, and dust addition on prokaryote community dynamics in the North Pacific subtropical gyre.” Presented at ASLO Ocean Sciences Meeting, Honolulu, Febuary 2004

Hewson, I., JA. Steele, DG. Capone, JA. Fuhrman . “Viral influence on bacterial communities in the North Pacific Gyre” Presented at ASLO Ocean Sciences Meeting, Honolulu, Febuary 2004

Govil, S., Hewson, I., Capone, D.,Carpenter, E., Fuhrman, J.”Cyanophage may play important roles in Trichodesmium spp. ecology in the oligotrophic ocean..” Presented at ASLO Ocean Sciences Meeting, Honolulu, Febuary 2004

Fuhrman, J.S., I. Hewson, M Brown, M Schwalbach, J. Steele, A Patel. “ Microbial biogeography and temporal patterns in marine plankton.” Presented at Tenth International Symposium on Microbial Ecology, Cancun. August 2004.

Hewson, I., T.E. Gunderson, D.G. Capone, and J.A. Fuhrman, Viral effects on diazotrophic bacteria in the oligotrophic oceans.” Presented at Tenth International Symposium on Microbial Ecology, Cancun. August 2004.

Fuhrman, J..A. “Evolving ideas on marine microbial systems, from the microbial loop and viruses to genomics, biogeography, and global change.” Presented at Tenth International Symposium on Microbial Ecology, Cancun. August 2004.

Schwalbach, M.S. and J.A. Fuhrman. “Global QPCR survey of planktonic aerobic anoxygenic phototrophs and insights from light manipulation experiments.” Presented at Tenth International Symposium on Microbial Ecology, Cancun. August 2004.

Fuhrman, J.A. “ Changing views of marine microbes.” Invited seminar at University of Miami (FL). November 2004

22 Fuhrman, J.A. “Human pathogens in the marine environment.” Invited workshop pressentation at the Pew Fellows Annual Meeting, Key Largo, Florida. November 2004.

Fuhrman, J.A., I. Hewson, M. Schwalbach. "Interactions Between Marine Viral and Bacterial Community Composition." Invited presentation at First European Workshop on Aquatic Phage Ecology, Thonon-les-Bains, France, January 2005.

Schwalbach, M.S. and J.A Fuhrman. Factors controlling bacterial phototrophs in seawater. ASLO Aquatic Sciences Meeting, Salt Lake City. February 2005

Fuhrman, J.A., I. Hewson, M. Schwalbach, J. Steele, M. Brown, and A. Patel. Biogeographic patterns in marine bacterioplankton. ASLO Aquatic Sciences Meeting, Salt Lake City. February 2005

Steele. J.A., A Patel, I. Hewson, and J.A. Fuhrman. “Stability in marine bacterial communities on hour- day time scales and kilometer spatial scales in the San Pedro Basin, California.” ASLO Aquatic Sciences Meeting, Salt Lake City. February 2005

Fuhrman, J.A. “Evolving ideas on marine microbial systems, from the microbial loop and viruses to genomics, biogeography, and global change.” Plenary Lecture at Dutch Society for Microbiology, Arnhem, The Netherlands. April 2005

Fuhrman, J.A. "The power of molecular genetics in biological oceanography." Invited Plenary Lecture, Annual Meeting of The Oceanography Society at UNESCO, Paris, June 2005.

Fuhrman, J.A. "Microbial genomics, biogeography and global change" Invited talk at the International Union of Microbiological Societies Joint Meeting, San Francisco, July 2005.

Fuhrman, J.A. " Cyanophages and oceanic cyanobacteria." Invited talk at the Marine Cyanobacteria Symposium, Wenner Gren Foundation, Stockholm, Sweden. August 2005.

Fuhrman, J.A. “ Changing perspectives on marine microbes.” Invited seminar at Stanford University, January 2006

Fuhrman, J.A. “New ideas on microbes in the sea.” Invited seminar at Jet Propulsion Laboratory, January 2006.

Caron, D.A. and J.A. Fuhrman. “Ecological Insights from Studies of Microbial Diversity: Examples from a Microbial Observatory.” ASLO/AGU/TOS Ocean Sciences Meeting, Honolulu, February 2006

Fuhrman, J.A. “Metagenomics is not the only fruit.” Invited speaker, Society for General Microbiology workshop on Environmental Genomics. Warwick, U.K., April 2006.

Fuhrman, J.A. “Changing perspectives on marine microbes.” Invited Seminar at Monterey Bay Aquarium Research Institute. April 2006.

Fuhrman, J.A. “Archaea and 'New' Phototrophs in the Sea: Just What Are They Up To?” Invited Symposium, American Society for Microbiology annual meeting, Orlando, Florida. May 2006

Fuhrman, J.A. “Marine microbes keep surprising us.” Hutchinson Award lecture, Americal Society for Limnology and Oceanography annual meeting, Victoria, British Columbia, June 2006.

23 Fuhrman, J.A. “Phototrophy and other interesting functional genes from seawater” Invited seminar speaker, Catalina Geobiology Course Symposium on Functional Genes, July 2006

Fuhrman, J.A. “Top down and bottom up controls of marine bacterial abundance and diversity.” Invited speaker, Gordon Conference on Marine Microbes, Biddeford, Maine, July 2006

Fuhrman, J.A. “ How do viruses influence of marine bacterial assemblage structure?” Invited speaker, Int. Soc. For Microbial Ecology, Vienna Austria, August 2006

Patel, A. and J.A. Fuhrman. Water column and sediment marine biofilms: a temporal succession and comparative study of microbial diversity using DNA fingerprinting. Poster. Int. Soc. For Microbial Ecology, Vienna Austria, August 2006

Böer, S.I., A. Ramette, J.E. van Beusekom, J.A. Fuhrman, and A. Boetius. Linking spatial and seasonal variations in bacterial activities and community structure: a case study in coastal sandy sediments. Poster. Int. Soc. For Microbial Ecology, Vienna Austria, August 2006

Fuhrman, J.A. Metagenomics in the study of biogeochemistry. Invited presentation at Metagenomics 2006 conference, La Jolla CA, October 2006.

Steele, J. A.; Countway, P. D.; Schwalbach, M. S.; Rose, J. M.; Vigil, P. D.; O’Brien, S. G.; Hewson, I.; Brown, M. V.; Jones, A. C.; Patel, A., Ruan, Q., Huang, J., Sun, F., Caron, D. A., Fuhrman, J. A.: Bacterial and protistan cooccurrence and interactions at the San Pedro Ocean Time Series in the San Pedro Channel, California. Am. Soc. Limnol. Oceanogr. Meeting, Santa Fe NM, February 2007

Böer, S. I.; Ramette, A.; Volkenborn, N.; Fuhrman, J.A.; Boetius, A.: Does bioturbation influence bacterial community structure in intertidal sands? Results from a large scale lugworm exclusion experiment in the German Wadden Sea. Am. Soc. Limnol. Oceanogr. Meeting, Santa Fe NM, February 2007

Steele, J. A.; Countway, P. D.; Schwalbach, M. S.; Rose, J. M.; Vigil, P. D.; O’Brien, S. G.; Hewson, I.; Brown, M. V.; Jones, A. C.; Patel, A., Kakajiwala, M., Chow, C., Ruan, Q., Huang, J., Sun, F., Caron, D. A., Fuhrman, J. A.: Bacterial and protistan interactions at the USC Microbial Observatory. NSF Microbial Observatory Workshop, Washington DC March 2007.

Fuhrman, J.A. “From viruses to protists - drawing together the diffuse strands of marine microbial ecology.” Presentation at the “Sequencing the Seas” Symposium, Royal Society, London April, 2007.

Steele, Joshua A., Peter D Countway, Michael S Schwalbach, Julie M Rose, Patrick D Vigil, Sheila G O'Brien, Ian Hewson, Mark V Brown, Adriane C Jones, Anand Patel, Quansong Ruan, Jerry Huang, Mahira Z Kakajiwala, Cheryl-Emiliane T Chow, Fengzhu Sun, Shahid Naeem, David A Caron, Jed A Fuhrman. Bacterial and protistan interactions at the USC Microbial Observatory. Poster Presentation at the “Sequencing the Seas” Symposium, Royal Society, London April, 2007.

Fuhrman, J.A. and J. M. Beman. Marine Crenarchaea: discovery, diversity, distribution, and activity. Divisional Lecture, American Society of Microbiology Annual Meeting, Toronto, May 2007.

Fuhrman, J.A. Marine Metagenomics: discoveries and future directions. Keynote address, Metagenomics 2007 Conference, UC San Diego, July 2007.

24 Fuhrman, J.A. Changing perspectives on marine microbes. Hopkins Marine Laboratory, Stanford University, July 2007.

Fuhrman, J.A. Linking microbial diversity to function. Keynote Lecture, 10th Symposium on Aquatic Microbial Ecology, Faro Portugal Sept. 2007

Bertics, V. J., Sohm, J. A., Treude, T., Chow, C. T., Fuhrman, J. A., Capone, D. G., Ziebis, W. Linked nitrogen fixation and sulfate reduction in a benthic system heavily influenced by bioturbation. ASLO/AGU Ocean Sciences Meeting Orlando March 2008

Chow, C. T., Steele, J. A., Patel, A., Kakajiwala, M., Sachdeva, R., Fuhrman, J. A. Connecting bacterial identity with function by response to enrichment. ASLO/AGU Ocean Sciences Meeting Orlando March 2008

Böer, S. I., Ramette, A., Hedtkamp, S. I., Beusekom van, J., Fuhrman, J. A., Boetius, A.. Which factors shape bacterial community structure in coastal permeable sediments? ASLO/AGU Ocean Sciences Meeting Orlando March 2008

Steele, J. A., Countway, P. D., Huang, J., Jones, A. C., Beman, J. M., Schwalbach, M. S., Vigil, P. D., Rose, J. M., O’Brien, S. G., Hewson, I., Brown, M. V., Patel, A., Ruan, Q., Sun, F., Caron, D. A., Fuhrman, J. A., Ecological relationships of marine microbes described through interaction networks at the San Pedro Channel, California. ASLO/AGU Ocean Sciences Meeting Orlando March 2008

Romero, I.C., J.A. Fuhrman, M .Jacobsen, M.L. Fogel, J.A. Steele, D.G. Capone. Interactions between diazotrophic bacteria and mangrove roots under different nutrient conditions. ASLO/AGU Ocean Sciences Meeting Orlando March 2008

Fuhrman, J.A. Combining marine metagenomics and spatial/temporal patterns to infer system function. Invited at: Genomes to Systems Conference (The Consortium for Post-Genome Science). Manchester, UK. March 2008

Fuhrman, J.A. Marine microbial diversity and its impact on global biogeochemical cycles. Invited at: Colloquium on “ Assessing marine microbial diversity: problems and solutions.” Royal Academy of Arts and Sciences, Amsterdam, May 2008.

Fuhrman, J.A. Changing views of marine microbes. Hopkins Marine Laboratory, Stanford University, June 2008. Marine Microbiology Course lecture.

Fuhrman, J.A. Marine viruses: historical perspective and future directions. Invited Keynote Speaker. Aquatic Virus Workshop, Vancouver BC July 2008.

Fuhrman J.A. Taking the long view: time-series data for understanding microbial communities Invited Workshop speaker. Twelfth Annual Meeting of the International Society for Microbial Ecology. Cairns Australia, August 2008. nd microbial community ecology in the sea Beman, J. M., Joshua Steele, and Jed Fuhrman.Variability of marine Crenarchaeota in relation to ammonia oxidation rates and abundant marine bacterial lineages: implications for nitrogen biogeochemistry and microbial community ecology in the sea. Twelfth Annual Meeting of the International Society for Microbial Ecology. Cairns Australia, August 2008.

25 Chow, C.T., Anand Patel, J. Michael Beman, and Jed A. Fuhrman. Bacterial and Archaeal Community Shifts as a Response to Ammonium and Nitrite Enrichments in Seawater. Twelfth Annual Meeting of the International Society for Microbial Ecology. Cairns Australia, August 2008.

Fuhrman, J.A. Joshua Steele, Peter Countway, David Caron, Fengzhu Sun. Inferring marine microbial system function from temporal and spatial patterns. Invited Talk. Twelfth Annual Meeting of the International Society for Microbial Ecology. Cairns Australia, August 2008.

Patel, A. and J.A. Fuhrman. Exploring phage diversity in marine biofilms using major capsid protein as a phylogenetic marker. Twelfth Annual Meeting of the International Society for Microbial Ecology. Cairns Australia, August 2008.

Fuhrman, J.A., Joshua Steele, Peter Countway, David Caron, Fengzhu Sun. Changing perspectives on marine microbes: inferring system function from pattern. Invited talk, SCOPE Workshop on Microbial Environmental Genomics, Changsha, China September 2008

Fuhrman, J.A. Making the Leap from DNA to Microbial Community Association Networks . Invited Seminar, Scripps Institution of Oceanography, February 2009

Fuhrman, J.A. Association network analysis shows potential marine food web interactions. Invited Speaker, American Society for Limnology and Oceanography Ocean Sciences Meeting, Nice, February 2009.

Fuhrman, J.A. Patterns in Marine Microbes and Microbial Association Networks . Invited Lecture, University of South Florida, March 2009

Fuhrman, J.A. Changing views of marine microbes (Marine Microbiology Course lecture). Hopkins Marine Laboratory, Stanford University, June 2009.

Fuhrman, J.A. Practical implications of microbial community structure. Invited talk, Gordon Research Conference on Microbial Population Biology, Andover NH, July 2009

Fuhrman JA. Networks of microbes. Invited talk, ICoMM Workshop, Amsterdam. September 2009

Fuhrman, J. A. Roles of viruses in marine systems. Invited seminar at Caltech. Feb 2010

Chow, C.E. , J.A. Steele, R. Sachdeva, J. Cram, J.A. Fuhrman. Viral connections in a diverse microbial community. ASLO Meeting Portland OR February 2010

Fuhrman, J.A., B. H. Jones, J. Griffith, R. Noble, J. A. Steele. Microbial contamination of the coastal zone: experience linking research to policy (Invited). ASLO Meeting Portland OR, February 2010

Fuhrman, JA. Marine bacterioplankton diversity along spatial and temporal gradients. Invited talk, Society for General Microbiology, Edinburgh, Scotland, March 2010.

RESEARCH GRANTS AWARDED (as sole Principal Investigator unless otherwise noted), current

Sponsor Title Amount Period $ Research Importance of Bacterio- 2,775 4/82-4/84

26 Foundation plankton Production in of SUNY Long Island Sound

NSF Dissolved Free Amino Acid 79,279 7/82-7/84 Chem. Formation in Seawater and Oceanogr. its Coupling to Uptake

Renewal 191,851 7/84-7/87

Second renewal 284,000 10/87-11/91

NSF Bacterioplanktivores: 96,217 1/83-1/85 Identification and Elucidation of Their Roles in Marine Food Webs

NSF Couplings between 169,105 11/84-11/87 nutrients, bacteria, and bacteriovores in estuarine plumes (a component of MECCAS, a multi-institution, multi-disciplinary project)

one-year renewal 42,000 11/87-11/88

Hudson Bacterioplankton in the 29,879 7/85-7/86 River lower Hudson: biomass, Found'n growth, and interactions with hazardous pollutants

NSF Use of the Short-lived Assoc. 1986-88 isotope, 13-N, in marine Investigator nitrogen cycle studies

NSF Characterization of 355,400 12/87-10/92 culturable and nonculturable marine bacteria: a 16S rRNA sequence approach

Sea Viruses in the ocean 127,000 10/91-10/94 Grant near Los Angeles

NSF Novel marine archaebacteria: 49,964 2/92-2/93 potential contribution to mid- water biomass and activity

NSF Survey of prokaryotic marine 152,699 7/92-7/94 plankton

27 Renewal 299,315 7/94 - 7/97 Research Experiences for Undergraduates (Supplement) 20,000 7/95 - 7/97

Renewal 245,917 6/97 -1/01 Research Experiences for Undergraduates (Supplement) 10,000 6/98 - 5/00

Santa Enteric virus detection in Santa 34,169 6/95-5/96 Monica Monica Bay Bay Restoration Foundation

NSF Viruses in marine food webs 285,000 11/92 - 11/96

Renewal 320,375 10/96 -9/99

Renewal 390,000 8/99 – 7/02

Renewal 402,139 2/03 –1/07

Sea Viruses in the ocean 110,582 10/96-3/99 Grant near Los Angeles

Renewal 150,104 3/99 – 3/02

NSF Discovery and characterization 1,049,654 9/00-9/06 of marine bacteria, archaea, and protisa from the San Pedro Channel time series (D. Caron, co PI) (Microbial Observatory)

NSF Survey of marine prokaryotes 149,998 11/00-10/02

Sea An integrated approach to 152,034 3/01 – 8/03 Grant understanding nearshore processes and microbial beach contamination in an urban coastal region (B. Jones and D. Sherman co-PIs)

Sea Molecular assays of human 100, 228 3/02-2/04 Grant pathogenic viruses in the coastal zone

Sea Factors Affecting Dispersion 105,532 3 /04 –2/07 Grant of Pathogenic Microorganisms in Coastal Waters ( B. Jones Co-PI)

28 NSF Relating Microbial Biodiversity 553,151 9/05-10/09 to Biological Oceanographic Processes (D. Capone Co-PI)

NASA Detection of airborne viruses 150,000 11/05-11/06 (JPL Subcontract)

NSF Biogeochemical roles 257,392 8/06- 9/09 of planktonic archaea

Sea Stormwater, Pathogens, 58,821 3/07-3/08 Grant and Particles – Presence and Transport from an Urban Watershed (Burton Jones, PI)

NSF Experimentally linking 330,000 3/07 – 2/11 identification and function of marine bacteria

CICEET Assessment of microbial 55,890 5/07-4/08 (UNC contaminants pertinent to Sub- swimming related illnesses contract) at Doheny Beach

NSF Assembly of marine 1,200,000 8/07 -8/12 microbial communities (Microbial Observatory) (co-PI with D. Caron)

Sea High Resolution Remote 74,712 2/10-1/12 Grant Sensing of Coastal Discharge Algal Blooms in the Southern California Bight (Burton Jones, PI)

Consulting Projects

Microbial contamination of beaches in Avalon Harbor, Santa Catalina Island, Califonia 2001. Supported by State of California. Focus on human-based sources. Result was that the beach appeared to be contaminated by leaking sewer pipes, which were then slip-lined, this reduced the contamination considerably.

Microbial contamination of beaches in Huntington Beach, California, with a focus on the contribution of a power plant, 2002. Supported by California Energy Commission. Result was that the plant did not appear to be a significant source of human-based contamination.

29 Microbial contamination of Topanga Creek watershed, California, 2003-2004. Supported by State of California.

Measurement of airborne human pathogenic viruses (Varicella zoster, Coronavirus, Epstein-Barr, Influenza, Respiratory Syncytial Virus, Adenovirus) in enclosed public places (2005-2006).

Microbial testing of Southern California waters, 2002-present. Supported by State of California as well as various local agencies and NGOs (often coordinated through Southern California Coastal Water Research Project). Numerous studies including development of new tests for a variety of viral pathogens and human bacterial source indicators, as well as improvement of these tests to be faster and less expensive. Also includes performing the tests as a service.

Students Advised and their Projects

Marianne Legier (M.S. 1985)- Copepod chemo- and mechanoreception

John Hudak (M.S. 1985) - Bacterial interactions with organic pollutants: effects on productivity, detoxification, and implications for the ecosystem as a whole

George McManus (Ph.D. 1986) - Quantitative ecology of marine bacterivorous nanoplankton

James Mitchell (Ph.D. 1987) - Small-scale (micrometer to meter) ecology of marine bacteria and phytoplankton, with particular reference to fluid dynamics.

SangHoon Lee (M.S. 1986, Ph.D. 1990) - Conversion from biovolume to carbon and nitrogen content in "seawater cultures" of naturally-derived bacteria (M.S. work). Molecular genetic analysis of natural microbial species composition and diversity.

Lita Proctor (Ph.D. 1991)- Bacteriophage infection in marine systems.

Robin Wilcox (M.S. 1993) Lysogeny vs. lytic growth of marine viruses

Stefanie Gehret (M.S. 1998 ). Microbial biodiversity - experimental approaches

Rachel Noble (Ph.D. 1998). Fates of viruses in marine systems

Alison Davis (M.S.). Probing of rRNA from colony blots to identify bacteria.

Cleber Ouverney (Ph. D. 2000). Quantitative microbial biodiversity/activity studies with fluorescent rRNA-targeted probes, also combination with microautoradiography

Ian Hewson (Ph.D. 2005). Virus in benthic and coastal systems, effects on bacterial diversity

Xiaolin Liang (M.S. 2005) Microbial contamination of coastal waters

John Griffith (Ph.D. 2006). Human enteric viruses and indicator bacteria in the coastal zone, molecular methods intercomparisons and verification, microbial contamination source tracking

Michael Schwalbach (Ph.D. 2006). Viral ecological effects / Phototrophic bacteria

Joshua Steele (Ph.D. 2010) Microbial community composition patterns and sea surface films

30 Anand Patel (Ph.D. student) Marine biofilms, viruses and archaea

Cheryl Chow (Ph.D. Student). Bacterial and viral diversity relationships

Jacob Cram (Ph.D. student). Microbial diversity patterns

David Needham (Ph.D. student). Marine viral effects on biogeochemical cycles

Alma Parada (Ph.D. student). Microbial utilization of unusual P and N sources

(Also served on numerous M.S. and Ph.D. committees)

Postdoctoral Researchers Supervised

Curtis Suttle (1986-88) - Nitrogen (organic and inorganic) and phosphorus cycling by marine plankton

Yaeko Masuchi (1989-90) - 16S rRNA sequencing of marine bacterial oligotroph cultures, search for "representative" cultures by DNA-DNA hybridization, direct sequencing of PCR-amplified 16S rRNA genes

Kirk McCallum (1990) - cloning and sequencing of PCR-amplified 16S rRNA genes from natural marine microbial assemblages

Markus Karner (1995-96) - single cell molecular probes and relation to native bacterial activities

Pierre Rossi (1996-97) - microbial biodiversity patterns by single cell probes and DNA reassociation kinetics

Rachel Noble (1998-2001, in cooperation with Wrigley Institute for Environmental Studies and Southern California Coastal Water Resources Project) - coastal monitoring of native and contaminant bacteria and viruses in relation to water quality issues.

Mark Brown (2002- 2004)- intensive studies of microbial diversity at the San Pedro Time Series / Microbial Observatory site.

J Michael Beman (2006-2008) – roles of marine archaea in N cycling

Laura Gomez-Consarnau (2010- ) - Impact of ocean acidifaction on marine bacteria, with an emphasis on proteorhodopsin-containing organisms

Outside Student Committees

Laura Gomez-Consarnau – Kalmar University, Sweden. Served as “Opponent” in Ph.D. defense, June 2009.

Courses Taught

Environmental Microbiology (undergraduate)

31 Introduction to Microbiology (undergraduate)

Marine Microbiology and Microbial Ecology (both graduate and undergraduate level)

Biological Oceanography (undergraduate, at Santa Catalina Island)

Advanced Biological Oceanography (graduate)

Oceanography (undergraduate, primarily for nonscience majors - taught biological portion)

Special Topics in Marine Microbiology (seminar-type courses, versions include a focus on molecular biological approaches to diversity and function)

Seminar in Ecology (various topics - usually related to pelagic ecology)

Environmental Biology (General Education, topic - ozone depletion)

Summer Course in Marine Microbial Ecology at Bermuda Biological Station (summer 1987, with D. Capone, 1991 with B. Taylor)

Summer Course in Protozoology at University of Copenhagen Marine Laboratory, Helsingør, Denmark (1988 with T. Fenchel and B. Finlay)

Advanced General Biology: Organismal Biology and Evolution (undergraduate – Honors version)

Molecular Methods in Microbial Ecology (undergraduate, Santa Catalina Island)

Committees, Panels and related service, current

At USC:

HIMS Director Search Committee (88-89) Committee for development of R/V Osprey (88-89) Marine Biology Comprehensive Exam Committee (88-91) Marine Biology Graduate Admissions Committee (88-93, 99-03, Chair 03-09, 10-) Marine Biology Committee on Graduate Studies (88-91) Marine Biology Screening Exam Committee (88-93, 99-07) Neurobiology Senior Faculty Search Committee (89-91) Chair of Catalina Postdoc Fellowship Search Committee (89-90) Ship Committee (R/V Vickers) 90-91 Hancock Institute of Marine Studies Advisory Committee (90-95) Hancock Institute of Marine Studies Executive Committee (95-97) Department Instructional Committee (91-94) Department Executive Committee (91-94, 96-99) Ship Users Committee (91-93) CRESPE Committee on microbiology (91-93) University-wide Radiation Safety Committee (member 91-96, Chair 92-96) Promotion Committees (Prof. Ko, Prof. McFall-Ngai) 1992-93 Department Curriculum Revision Committee (93-96) Department of Biological Sciences Chair (94-97) Ad Hoc Committee of Natural Sciences Chairs on General Education (94-96)

32 Search for Wrigley Chair and associated junior faculty (Chair 96-98) Provost’s Research Committee (97-99) Search for 2nd Wrigley Chair (Co-Chair 98-00) College of Letters, Arts, and Sciences Personnel Committee for Natural Sciences & Mathematics (98- 00, 02-04, Chair 03-06) Provost’s Initiative on Urban Sustainability (00-01) Center for Electron Microscopy and Microanalysis Advisory Committee (01- 08) Biology Website update committee (focus on Graduate Recruitment) (02-03) Search Committee for Microbiologist, USC School of Dentistry (02-03) Search Committee for Physiological Ecologist (03-04) Marine Environmental Biology cluster hire dossier committee (05-06) Department self-study committee, headed section on quality assessment (08) Wrigley Oversight and Resources Committee (08-) Wrigley Strategic Planning Advisory Committee (08-) USC College Faculty Council (08-) Interviewer for Presidential Scholarship Candidates (07, 08) Vice-chair, Research Caucus of Faculty Council (08-09) USC College Dean’s Research Excellence Advisory Board (08-) College award advisory committee (08, 09) Director of Marine Environmental Biology Program, Dept. of Biological Sci., (09-) Chair, Research Caucus of Faculty Council (09-) Discovery Scholar Prize Panel (08-09)

National / International: ( current )

NSF Biological Oceanography Review Panels 1990, 2000

DOE Subsurface Biology Advisory Panel 1992

NSF Advisory Panel reviewing JGOFS 1993

NSF Biotic Surveys and Inventories Review Panel 1996

NSF Biotic Surveys and Inventories Workshop 1996

NSF Marine Biodiversity Workshop, Denver, 1993

NASA Planetary Protection Workshop, JPL 1997

NSF Workshop on future of Biological Oceanography (OEUVRE), Keystone, CO, 1998

NSF Conference on Biodiversity Observation Networks (later NEON) , San Francisco, 1999

NSF Workshop on Environmental Determinants of Carbon Cycling, 1999

Visiting Committee to evaluate future of Univ. of Kiel Marine Science Research 1999

National Sea Grant Press Briefing, microbiological safety of marine waters, 1999

33 National Research Council Ocean Studies Board Workshop on Opportunities for Environmental Applications of Marine Biotechnology, Washington DC, 1999

ASM Microbiological Diversity Meeting Plenary Roundtable 1999

NSF/NIEHS Panel on Oceans and Human Health, Research Triangle Park, NC, 2001

Co-Convener for Marine Microbiology in DIVERSITAS (sponsored by IUBS, SCOPE, UNESCO, IUMS, ICSU, IGPB) 1998- present

Project Leader, Discovery of New Microbial Kingdoms, International Biodiversity Observation Year (2000-2002)

(Regional) Topanga Watershed Advisory Committee, and ad hoc advisory group for local water quality issues (1998- present)

Member of the Scientific Committee of DIVERSITAS-Core Project 2, called EcoSERVICES, 2003- present and Marine Biology Working Group 2005-present

Member, SCOR Working Group 126 on Role of Viruses in Marine Ecosystems 2005-

American Academy Of Microbiology Colloquium participant, "Marine Microbial Diversity: The Key to Earth's Habitability" 2005

Member of Working Group on Microbial Diversity, National Center for Ecological Analysis and Synthesis 2004-2006

Member of Advisory Committee for SCCWRP Water Quality and Epidemiology Study of Dana Point, Surfrider Beach, Avalon 2006-

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