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Edward DeLong Curriculum Vitae

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Curriculum vitae of professor Edward DeLong, of the Massachusetts Institute of Technology.
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CURRICULUM VITAE
Edward Francis DeLong
Massachusetts Institute of Technology
Dept. of Civil and Environmental Engineering & Division of Biological Engineering
48-427 MIT
Cambridge, MA. 02139 USA
Phone 617-253-5271 email: delong@mit.edu

Education
:
A. S., Biology, Santa Rosa Junior College, 1980
B. S., Bacteriology, University of California Davis, 1982
Ph. D., Marine Biology, Scripps Institute of Oceanography, 1986

Thesis title
: Adaptations of deep-sea bacteria to the abyssal environment

Professional Experience:
2004- Professor, Massachusetts Institute of Technology
1998-2004 Senior Scientist V, Monterey Bay Aquarium Research Inst.
1997-2002 Science Dept. Chair, Monterey Bay Aquarium Research Inst.
1997-1999 Associate Scientist III, Monterey Bay Aquarium Research Inst.
1996-1998 Associate Professor, Ecology, Evolution Marine Biol. Dept., UCSB
1992-1996 Assistant Professor, Biology Dept., UC Santa Barbara
1989-1991 Assistant Scientist, Woods Hole Oceanographic Inst.
1986-1989 Post-doctoral Research Assoc., Indiana U., Bloomington, Indiana
1984-1986 Teaching Assistant, Biology Dept., UC San Diego
1982-1986 Research Assistant, Scripps Inst. of Oceanography, UC San Diego
1981-1982 Research Assistant, University of California, Davis, Ca.

Professional interests: Physiology, biochemistry, ecology, and evolution of microbes.
Environmental science and biogeochemical cycles. Microbial evolution and ecology. Genomic
analyses of microbial evolution, ecology and natural history. Systems biology of natural microbial
populations. Development of molecular tools for microbial characterization and quantification.

Honors and Awards

Independent Study Award, Woods Hole Oceanographic Inst., September, 1989
Office of Naval Research, Young Investigator Award, March 1990
American Society for Microbiology, Young Investigator Travel Award, May 1990
DuPont Young Faculty Award, April 1993.
Honorary Professorship, University of Queensland, Brisbane, Australia, 1999-2002.
Adjunct Professor UC Santa Cruz, 1998-2003.
Elected Fellow in the American Academy of Microbiology, August 2000.
Courtesy Professor appointment in the Biology Dept., Stanford University, May 2002.
Apple Bioinformatics Cluster Award, June 2004
Moore Investigator in Marine Microbiology, August, 2004.
Elected Fellow in the American Academy of Arts and Sciences, May 2005.
Vladimir Ivanovich Vernadsky Medal of the European Geosciences Union, 2008
Proctor and Gamble Award in Applied and Environmental Microbiology, 2008
Elected, Member of the Board of Governors, American Academy of Microbiology, 2008

Elected Fellow, National Academy of Sciences U. S. A., April 2008
American Society for Microbiology D.C. White Research and Mentoring Award, 2009
Elected Fellow, American Association for the Advancement of Science, 2011


Professional Affiliations:

American Academy of Microbiology; American Society of Microbiology; AAAS; American
Society of Limnology and Oceanography;
American Academy of Arts and Science; US National Academy of Science

Special Appointments and Professional Activity

Editorial Board member, Applied and Environmental Microbiology 1990-2005.
Editorial Board member, Marine Biotechnology, 1999 - 2002
Editorial Board member, Environmental Microbiology, 1999-2010
Invited participant, Workshop on "Transfer of the tools of biotechnology and molecular biology
to the ocean sciences", September, 1988
Invited participant, Jan. 1991, Workshop molec methods in ecology, DOE, Monterey, CA
NSF Panel member, NSF Biological Oceanog. Review Panel, January, 1993
Committee member, National Research Council Ocean Studies Board Committee on Biological
Diversity in Marine Systems
Marine Biological Diversity Workshop, May 23-26, 1994, Irvine, CA
DOE Panel member, Microbial Genome Initiative, Washington DC., July, 1994.
NSF Panel Member, LExEn Intiative, June 22, 1997
Scientific adviser, The Microbial Literacy Committee, Amer. Soc. Microbiol., Sept. 1997
Invited participant, NSF LexEn workshop, June 1998.
Invited participant, NRC/NAS Space Studies Board Workshop on the Size Limits of Very Small
Microorganisms, October 1998, Washington DC.
Invited NSF delegate, SCAR meeting on Research planning for Lake Vostok, Sept. 1999
Instructor, Antarctic Course in Integrative Biology, McMurdo Sta. Antarctica, Jan 2000.
Invited participant, NSF Workshop on Marine Microbial Genomics, April 2000.
Member, Rev. Comm. West Cost &Polar Regions Underwater Research Cntr, July 2000
Convener, Ridge Theoretical Workshop on the Deep Subsurface Biosphere, July 2000.
Convener, ASM Colloqium on Biogeology, November, 2000.
Invited participant, NSF Workshop on White House OST interagency “Microbe Project’
Member, Advisory Committee, SETI Institute program on Life in the Universe.
Co-organizer, ASM Colloquium on Geobiology, Tuscon, AZ, Nov 2000
Chair, Microbial Ecology Div, ASM Annual Meeting Program Committee, 2000-2001.
Member, Scientific Advisory Board (Fachbeirat) for Max-Planck-Institut fur Marine
Mikrobiologie 2002-2006.
Co-chair and organizer, ASM Colloquium on ‘The Global Genome Question’, 2002
Member, NRC Committee on Implementation of Deep Sea Observatories, 2002
Scientific adviser, Canadian Institute for Advanced Research Evolutionary Program, 2002-2007
Member, DOE/Joint Genome Institute Policy Board, 2003-2010
Member, DOE/Joint Genome Institute Scientific Advisory Committee, 2003-2010.
Editor, Environmental Microbiology, 2004-present
Member, Board of Reviewing Editors, Science Magazine, 2005-2010 AAAS
Member, National Research Council Committee on Metagenomics, 2006
Chair, DOE-Joint Genome Institute Users Committee, 2005-2007

2

Member, CAMERA Scientific Advisory Board, 2006-present
Member, Board of Governors, American Society for Microbiology 2008-2011
Co-Chair, American Academy of Microbiology Colloquium on Climate change and
biogeochemical cycles 2009-2011
Director of Research, NSF STC Center for Microbial Oceanography: Research & Education. 2006-
present
Member, MIT steering committee, Dalai Lama Center for Ethics and Transformative
Values 2009-present



Scientific field expeditions and cruises

1985, Palau Trench, Sulu Sea, Celebes Sea; RV Th. Washington, cruise scientist
1987, Sargasso Sea, RV Weatherbird I, cruise scientist
1988, Central North Pacific, RV Moana Wave, cruise scientist
1992, Oregon-Hawaii transect, RV Wecoma, cruise scientist and blue water diver
1993, Santa Barbara Channel , RV Gordon Sproul, cruise scientist
1993, Santa Barbara Channel, Delta submersible cruise, Chief scientist
1995, Drake Passage/Bransfield Straight, RV Polar Duke, cruise scientist
1995, Palmer Station Antarctica, Station Science Leader and field team leader
1996, Drake Passage/Bransfield Straight, RV Polar Duke, cruise scientist
1996, Palmer Station Antarctica, Station Science Leader and field team leader
2000, Instructor, Field course in Antarctic Biology, McMurdo Station, Antarctica


Publications

1. DeLong, E. F., L. Baumann, R. D. Bowditch, and P. Baumann. 1984. Evolutionary
relationships of superoxide dismutases and glutamine synthetases from marine species of
Alteromonas, Oceanospirillum, Pseudomonas and Deleya. Arch. Microbiol. 138: 170-178
2. DeLong, E. F. and A.A. Yayanos. 1985. Adaptation of the membrane lipids of a deep-sea
bacterium to changes in hydrostatic pressure. Science 228:1101-1103.
3. DeLong, E. F. and A. A. Yayanos. 1986. Biochemical function and ecological
significance of novel bacterial lipids in deep-sea procaryotes. Appl. Environ. Microbiol.
51: 730-737
4. DeLong, E. F., D. Steinhauer, A. Israel, and K. H. Nealson. 1987. Isolation of the lux
genes from Photobacterium leiognathi and expression in Escherichia coli. Gene 54:203-
210
5. Yayanos, A. A. and E. F. DeLong. 1987. Deep-sea bacterial fitness to environmental
temperatures and pressures. In Current Perspectives in High Pressure Biology, H.W.
Jannasch, R. E. Marquis, and A. M. Zimmerman, eds., pp.17-32, Academic Press, London.
6. DeLong, E. F. and A. A. Yayanos. 1987. Properties of the glucose transport system in
some deep-sea bacteria. Appl. Environ. Microbiol. 53:527-532
7. Giovannoni, S. J., E. F. DeLong, G. J. Olsen and N. R. Pace. 1988. Phylogenetic group-
specific oligodeoxynucleotide probes for identification of single microbial cells. J.
Bacteriol. 170: 720-726

3

8. Turner, S., E. F. DeLong, S. J. Giovannoni, G.J. Olsen and N. R. Pace. 1989.
Phylogenetic analysis of organisms and natural populations using ribosomal RNA
sequences. In Microbial Mats; Ecological Physiology of Benthic Microbial Communities,
Y. Cohen and E. Rosenberg, eds., Am. Soc. Microbiol., pp. 390-401
9. DeLong E.F., G. Wickham, and N. R. Pace. 1989. Phylogenetic stains: Ribosomal RNA-
based probes for identification of single microbial cells. Science 243:1360-1363.
10. DeLong E. F., T. M. Schmidt and N. R. Pace. 1989. Analysis of single cells and
oligotrophic picoplankton populations using 16S rRNA sequences, In Recent Advances in
Microbial Ecology, T. Hattori, Y. Ishida, Y. Maruyama, R. Morita, and A. Uchida, eds.,
Japan Sci. Soc. Press, Tokyo, pp. 697-701
11. DeLong E. F. and J. Shah. 1990. Fluorescent ribosomal RNA probes for clinical
application. Clin. Diagnos. 28:41-44
12. Giovannoni, S. J., T. M. Schmidt, E. F. DeLong and N. R. Pace. 1990. Tangential flow
filtration and preliminary phylogenetic analysis of marine picoplankton. Appl. Environ.
Microbiol. 56 :2572-2575
13. Schmidt, T. M., E. F. DeLong and N. R. Pace. 1991. Analysis of a marine picoplankton
community by 16S rRNA gene cloning and sequencing. J. Bacteriol. 173: 4371-4378
14. Distel, D., E. F. DeLong, and J. W. Waterbury. 1991. Phylogenetic characterization and in
situ localization of the bacterial symbionts of shipworms by using 16S rRNA sequence
analysis and oligodeoxynucleotide probe hybridization. Appl. Environ. Microbiol. 57:
2376-2382
15. DeLong E. F. 1991. Molecular systematics, microbial ecology and single cell analysis. In
Single Cell and Particle Analysis in Oceanography,S. Demerge, ed., NATO ASI Series,
Springer-Verlag, Heidelberg, Vol. G27, pp. 237-257.
16. Schmidt, T. M. , E. F. DeLong and N. R. Pace. 1991. Phylogenetic identification of
uncultivated microorganisms in natural habitats. In Rapid Methods and Automation in
Microbiology and Immunology, A. Vaheri, R. C. Tilton, A. Balows, eds., Springer-Verlag,
Berlin, pp. 37-46.
17. DeLong, E. F. 1992. Aquatic habitats: High Pressure Environments, In Joshua
Lederberg, ed, Encyclopedia of Microbiology, Academic Press, Vol. 2, pp 405-417.
18. DeLong, E. F. 1992. Archaea in coastal marine environments, Proc. Natl. Acad. Sci. USA,
89: 5685-5689.
19. DeLong, E. F. and B. B. Ward. 1992. Molecular approaches in biological oceanography.
Oceanus 35:47-54.
20. DeLong, E. F., R. B. Frankel and Dennis A. Bazylinski. 1993. Multiple evolutionary
origins of magnetotaxis in bacteria. Science 259:803-806
21. Lim, E. L., L. A. Amaral, D. A. Caron and E. F. DeLong. 1993. Application of ribosomal
RNA-based probes for observing marine nanoplanktonic protists. Appl. Environ.
Microbiol. 59:1647-1655
22. DeLong, E. F. 1993. Single cell identification using fluorescently labeled, ribosomal RNA
specific probes. In Handbook of Methods in Aquatic Microbial Ecology, P. F. Kemp, B.
F. Sherr, E. B. Sherr and J. J. Cole,eds, Lewis Pub., Ann Arbor, pp. 285 - 294.
23. DeLong, E. F., D. G. Franks and A. L. Alldredge. 1993. Phylogenetic diversity of
aggregate-attached versus free-living marine bacterial assemblages. Limnol. Oceanog. 38
:924-934.

4

24. Pace, N. R. , E. R. Angert, E. F. DeLong, T. M. Schmidt and G. S. Wickham. 1993. New
perspectives on the natural microbial world, In Genetics and molecular biology of
industrial microorganisms-5, Hegeman, G. (ed.), ASM Press, pp. 77-84.
25. Ledyard, K. M. , E. F. DeLong and J. W. Dacey. 1993. Characterization of a DMSP-
degrading bacterial isolate from the Sargasso Sea. Arch. Microbiol. 160: 312-318
26. DiChristina, T. J., and E. F. DeLong. 1993. Design and application of rRNA-targeted
oligonucleotide probes for the dissimilatory iron- and manganese-reducing bacterium
Shewanella putrefaciens. Appl. Environ. Microbiol. 59: 4152-4160
27. DiChristina, T. J., and E. F. DeLong. 1994 Isolation of anaerobic respiratory mutants of
Shewanella putrefaciens and genetic analysis of mutants deficient in anaerobic growth on
Fe3+, J. Bacteriol. 176:1468-1474.
28. DeLong, E.F.1994. Antarctic Microbiology. Science 263: 401-402 (book review)
29. DeLong, E. F., K. Y. Wu, B. B. Prezelin and R. V. M. Jovine. 1994. High abundance of
Archaea in Antarctic marine picoplankton. Nature 371: 695-697.
30. Butman, C.A., J. Carlton, G. W. Boehlert, S. H. Brawley, E. F. DeLong, J. F. Grassle, J. B.
C. Jackson, S. L. Levin, A. R. M. Nowell, R. T. Paine, S. R. Palumbi, G. J. Veermeij, and
L. Watling. 1995. Understanding Marine Biodiversity, National Academy Press
31. Brantley, S. E., T. F. Molinski, C. M. Preston, and E. F. DeLong. 1995. Brominated fatty
acids from Xestospongia sp., a marine sponge-bacteria association. Tetrahedron 51: 7667-
7672.
32. DeLong, E. F. 1995. Diversity of naturally-occurring prokaryotes: a beginning, In
Microbial diversity in Space and Time, Plenum Press, pp. 125 - 133
33. Stein, J. , T. L. Marsh, K. Y. Wu, H. Shizuya, and E. F. DeLong. 1996. Characterization of
uncultivated marine prokaryotes: isolation and analysis of a 40 kilobase genome fragment
from a planktonic marine Crenarchaeote, J. Bacteriol.178: 591-599.
34. Lim, E. L, D. A. Caron and E. F. DeLong. 1996. Development and field application of a
quantitative method for the examination of natural assemblages of protists using
oligonucleotide probes, Appl. Environ. Microbiol. 62: 1416-1423
35. Preston, C. M., K. Y. Wu, T. F. Molinski, and E. F. DeLong. 1996. A psychrophilic
crenarchaeon inhabits a marine sponge; Cenarchaeum symbiosum, gen. nov. sp. nov.
Proc. Natl. Acad. Sci. USA, 93: 6241-6246.
36. Hovanec, T. A. and E. F. DeLong. 1996. Comparative analysis of nitrifying bacteria
associated with freshwater and marine aquaria. Appl. Environ. Microbiol., 62: 2888-2896.
37. Massana, R., A. E. Murray, K. Y. Wu, and E. F. DeLong. 1997. Vertical distribution and
phylogenetic characterization of marine planktonic Archaea in the Santa Barbara Channel.
Appl. Environ. Microbiol. 63: 50-56
38. DeLong, E. F. 1997. Marine microbial diversity: the tip of the iceberg. Trends Biotechnol.,
15:203-207
39. DeLong, E. F. D. G. Franks and A. A. Yayanos. 1997. Evolutionary relationships of
cultivated psychrophilic and barophilic deep-sea bacteria. Appl. Environ. Microbiol. 63:
2105 - 2108
40. Schleper, C. Swanson, R. V., Mathur, E. J., and E. F. DeLong. 1997. Characterization of a
DNA polymerase from the uncultivated psychrophilic archaeon Cenarchaeum symbiosum.
J. Bacteriol. 179:7803-7811.

5

41. DeLong, E. F. 1997. Molecular phylogenetics: new perspective on the ecology, evolution,
and biodiversity of marine organisms, In Molecular Approaches in the Study of the Ocean,
K. Cooksey, ed., Chapman and Hall, pp. 1-27.
42. Hovanec, T. A., L. T. Taylor,. A. Blakis, and E. F. DeLong. 1998. Nitrospira-like
bacteria associated with nitrite oxidation in freshwater aquaria. Appl. Environ. Microbiol.
64:258-264
43. E. F. DeLong, L. L. King, R. Massana, H. Cittone, A. Murray, C. Schleper and S. G.
Wakeham. 1998. Dibiphytanyl ether lipids in nonthermophilic crenarchaeotes. Appl.
Environ. Microbiol. 64:1133-1138.
44. DeLong, E. F. 1998. Archaeal means and extremes. Science 280: 542-543.
45. Rath, J., K. Y. Wu, G. J. Herndl and E. F. DeLong. 1998. High phylogenetic diversity in a
marine snow-associated bacterial assemblage. Aquatic Microbial Ecology 14: 261-269.
46. Murray, A. E., C. M. Preston,. R. Massana, L. T. Taylor, A. Blakis, K. Y. Wu and E. F.
DeLong. 1998. Seasonal and spatial variability of bacterial and archaeal assemblages in
the coastal waters off Anvers Island, Antarctica. Appl. Environ. Microbiol. 64: 2585-
2595.
47. Vergin, K. L, E. Urbach, J. L. Stein, E. F. DeLong, and S. J. Giovannoni. 1998. Screening
of a fosmid library of marine environmental genomic DNA fragments reveals four clones
related to the Planctomycetales. Appl. Environ. Microbiol. 64:3075-3078.
48. Massana, R., Taylor, T., Murray, A., Jeffrey, W., and E. F. DeLong. 1998. Distribution of
marine planktonic archaea in the Gerlache Straight Antarctica during early Spring. Limnol.
and Oceanog. 43: 607-617.
49. Schleper, C., Preston, C. M. , Feldman, R. A., Ke Ying Wu, E. F. DeLong, and R. V.
Swanson. 1998. Genomic analysis reveals chromosomal variation in natural populations of
the uncultured psychrophilic archaeon Cenarchaeum symbiosum , J. Bacteriol. 180:5003-
5009.
50. DeLong E. F. 1998. Novel niches. Trends Microbiol. 6: 416 (book review).
51. DeLong, E. F. 1998. Everything in moderation : Archaea as "nonextremophiles" Curr.
Opin. Genet. Develop. 8:649-654.
52. Sandler, S. J., Hugenholtz, P., Schleper, C., DeLong, E. F. Pace, N. R., and A. J. Clark.
1999. Diversity of radA genes from cultured and uncultured Archaea: comparative
analysis of their putative RadA proteins and their use as a phylogenetic marker. J.
Bacteriol., 181:907-915.
53. DeLong, E. F. 1999. The planetary crucible : Bacterial biogeochemistry. Trends
Microbiol, 7: 133-134. (book review).
54. DeLong, E. F. 1999. Diminutive cells in the oceans - unanswered questions, pp. 81-84, In
Size Limits of Very Small Microorganisms: Proceedings of a Workshop, Steering Group
on Astrobiology of the Space Studies Board, National Research Council, 1999.
55. K.-U. Hinrichs, J. M. Hayes, S. P. Sylva, P. G. Brewer, and E. F. DeLong, 1999. Methane-
consuming archaea Molecular-isotopic and phylogenetic evidence, Nature 398:802-805.
56. DeLong , E. F., Schleper, C., Feldman, R., and R. V. Swanson. 1999. Application of
genomics for understanding the evolution of hyperthermophilic and nonthermophilic
Crenarchaeota, Biol. Bull. 196:363-366
57. A. E. Murray, K. Y. Wu, C.L. Moyer, D. M. Karl and E. F. DeLong. 1999. Evidence for
circumpolar distribution of planktonic Archaea in the Southern Ocean. Aquat. Microb.
Ecol.18: 263-273.

6

58. Caron, DA; Lim, EL; Dennett, MR; Gast, RJ; Kosman, C; DeLong, EF. 1999. Molecular
phylogenetic analysis of the heterotrophic Chrysophyte genus Paraphysomonas
(Chrysophyceae), and the design of rRNA-targeted oligonucleotide probes for two species.
J. Phycol., 35:824-837.
59. DeLong, E.F., Taylor, L.T. , Marsh, T. L. and C. M. Preston. 1999. Visualization and
enumeration of marine planktonic archaea and bacteria using polyribonucleotide probes
and fluorescence in situ hybridization. Appl. Environ. Microbiol. 65: 5554-5563.
60. Murray, A. E, Blakis, A., Massana, R., Strawzewski, S. Passow, U., Alldredge, A. and E.
F. DeLong. 1999. A time series assessment of planktonic archaeal variability in the Santa
Barbara Channel. Aquat. Microb. Ecol. 20: 129-145.
61. Suzuki, M. T. and E. F. DeLong. 2000. Marine prokaryote diversity, in Biodiversity of
microbial life: foundation of the Earth’s Biosphere, Staley, J. T. and Reysenbach, A.L., eds,
J. Wiley and Sons, Inc., N.Y., N.Y., pp. 209-234.
62. Orphan, V. J., L. T. Taylor, D. Hafenbradl, and E. F. DeLong. 2000. Culture-dependent
and -independent characterization of microbial assemblages associated with high
temperature oil reservoirs. Appl. Environ. Microbiol. 66:700-711.
63. DeLong, E. F. 2000. A phylogenetic perspective on hyperthermophilic microorganisms, in
Hyperthermophilic Enzymes, Methods in Enzymology series, Academic Press, 330:3-11.
64. Massana, R., E. F. DeLong and C. Pedros-Alios. 2000. A few cosmopolitan phylotypes
dominate planktonic archaeal assemblages in widely different oceanic provinces. Appl.
Environ. Microbiol. 66:1777-1787.
65. Béjà, O., Suzuki, M. T., Koonin, E.V., Aravind, L., Hadd, A., Nguyen, L.P., Villacorta, R.,
Amjadi, M., Garrigues, C., Jovanovich, S.B., Feldman, R. and E. F. DeLong. 2000.
Construction and analysis of Bacterial Artificial Chromosome libraries from a natural
microbial assemblage, Environ. Microbiol.2:516-529.
66. Béjà, O., L. Aravind, E. V. Koonin, M. T. Suzuki, A. Hadd, L. P. Nguyen, S. B.
Jovanovich, C. Gates, R. A. Feldman, J. L. Spudich, E. N. Spudich, and E. F. DeLong.
2000. Bacterial rhodopsin: evidence for a new type of phototrophy in the sea. Science
289: 1902-1906.
67. DeLong, E. F. 2000. Resolving a methane mystery. Nature 407: 577-579.
68. Suzuki, M. T., L. T. Taylor, and E. F. DeLong. 2000. Quantitative analysis of small
subunit ribosomal RNA genes in mixed microbial populations employing 5’ nuclease
assays, Appl. Environ. Microbiol. 66:4605-4614.
69. Dawson, S. C., DeLong E. F. and N. R. Pace. 2000. Phylogenetic and Ecological
Perspectives on Uncultured Crenarchaeota and Korarchaeota. In The Prokaryotes,
Springer Verlag, Electronic publication.
70. DeLong, E. F. 2000. Extreme genomes, Genome Biology 1:reviews1029.1-1029.3
71. Karner, M, E. F. DeLong, and D. M. Karl. 2001. Archaeal dominance in the mesopelagic
zone of the Pacific Ocean. Nature 409:507-510.
72. Suzuki, M. T. , Preston, C. F. Chavez, and E. F. DeLong. 2001. Quantitative mapping of
bacterioplankton populations in seawater: field tests across an upwelling plume in the
Monterey Bay. Aquat. Microb. Ecol., 24:117-127.
73. Orphan, V. J., K.-U., Hinrichs, W. Ussler III, C. K. Paull, L. T. Taylor, S. Sylva, J. M.
Hayes and E. F. DeLong. 2001. Comparative analysis of methane-oxidizing archaea and
sulfate-reducing bacteria in anoxic marine sediments. Appl. Environ. Microbiol. 67:1922-
1927.

7

74. DeLong, E. F. 2001. Microbial seascapes revisited. Curr. Op. Microbiol. 4:290-295.
75. DeLong, E. F. and N. R. Pace. 2001. Environmental Diversity of Bacteria & Archaea,
Systematic Biol. 50:1-9.
76. Suzuki, M. T., Béjà, O., Taylor, L.T. and E. F. DeLong. 2001. Phylogenetic analysis of
ribosomal RNA operons from uncultivated coastal marine bacterioplankton, Environ.
Microbiol. 3:323-331.
77. Béjà, O., E. N.. Spudich, J. L. Spudich, M. LeClerc, and E. F. DeLong. 2001.
Proteorhodopsin phototrophy in the ocean. Nature 411:786-789.
78. Orphan, V. J., C. House, K. U. Hinrichs, K. McKeegan, and E.F. DeLong. 2001.
Methane-consuming archaea revealed by directly coupled isotopic and phylogenetic
analysis. Science 293:484 487.
79. Béjà O., E. V. Koonin, L. Aravind, L. T. Taylor, H. Seitz, J. L. Stein, D. C. Bensen, R. A.
Feldman, R. V. Swanson, and E. F. DeLong. 2001. Comparative Genomic Analysis of
Archaeal Genotypic Variants in a Single Population and in Two Different Oceanic
Provinces. Appl. Environ. Microbiol. 68: 335–345.
80. C. O. Wirsen, S. M. Sievert, C. M. Cavanaugh, S. J. Molyneaux, A. Ahmad,L. T. Taylor,
E. F. DeLong, and C. D. Taylor. 2002. Characterization of an Autotrophic Sulfide-
Oxidizing Marine Arcobacter sp. That Produces Filamentous Sulfur. Appl. Environ.
Microbiol. 68: 316–325
81. Béjà O., Suzuki, M. T., Heidelberg, J.F., Nelson, W.C., Preston, C.M., Hamada T., Eisen,
J.A., Fraser, C., and E. F. DeLong. 2002. Unexpected diversity among marine aerobic
anoxygenic phototrophs. Nature 415:630-633.
82. Pernthaler, A,, C.M. Preston, J. Pernthaler, E. F. DeLong, and R. Amann. 2002.
Comparison of fluorescently labeled oligonucleotide and polynucleotide probes for the
detection of pelagic marine bacteria and archaea. Appl. Environ. Microbiol. 68:661-667.
83. DeLong, E. F. 2002. Towards microbial systems science: integrating microbial
perspectives, from genomes to biomes. Environ. Microbiol. 4:9-10.
84. Victoria J. Orphan, Christopher H. House, Kai-Uwe Hinrichs, Kevin D. McKeegan and
Edward F. DeLong. 2002. Multiple archaeal groups mediate methane oxidation in anoxic
cold seep sediments, Proc. Natl. Acad. Sci 99: 7663-7668.
85. DeLong, E. F. 2002. Mille milliards de mille microbes. La Recherche 355: 54-57.
86. DeLong E. F. and P. Chandler. 2002. Power from the sea. Nature Biotech.. 20:788-789.
87. DeLong E. F. 2002. Microbial population genomics and ecology. Curr. Op. Microbiol. 5:
520-524
88. DeLong, E. F. 2002. Its all in the packaging. Nature 419, 676 – 677.
89. Zeidner, G. C. M. Preston, E. F. Delong, R. Massana, A. F. Post,, D. J. Scanlan, O. Béjà.
2003. Molecular diversity among marine picophytoplankton as revealed by psbA analyses.
Environ. Microbiol. 5: 212–216
90. Orphan, V. J., J. Boles, S. K. Goffredi, and E. F. DeLong. 2002. Geochemical influence
on microbial processes in high temperature oil reservoirs. Geomicrobiol. J. 20:1-17.
91. DeLong, E. F. 2003. A plentitude of microorganisms. Natural History Magazine, 112:40-
46.
92. Sabehi, G., Ramon M., Delong E. F. and O. Béjà. 2003. New Proteorhodopsin Variants
from the Mediterranean and Red Seas, Environ. Microbiol. 5: 842–849

8

93. Girguis, P. R., V. Orphan And E. F. Delong. 2003. Enrichment Of Anaerobic Methane
Oxidizing Archaeal/Bacterial Consortia In Deep-Sea Marine Sediments. Appl. Environ.
Microbiol. 69: 5472–5482
94. Hallam S. J., P. R. Girguis, C. M. Preston, P. M. Richardson, and E. F. DeLong. 2003.
Identification of Methyl Coenzyme M Reductase A (mcrA) genes in Methane Oxidizing
Archaea. Appl. Environ. Microbiol. 69: 5483–5491
95. de la Torre, J. R, Christianson, L.M., Béjà , O., Heidelberg, J., Karl D.M., and E. F.
DeLong. 2003. Proteorhodopsin genes are distributed among divergent marine bacterial
taxa.. Proc. Natl. Acad. Sci. U.S.A. 100:12830-12835.
96. Church, M.J., DeLong, E.F., Ducklow, H.W., Karner, M.B., Preston, C.M., and D. M.
Karl. 2003. Abundance and distribution of planktonic Archaea and Bacteria in the Western
Antarctic Peninsula. Limnol. Oceanogr. 48: 1893-1902.
97. DeLong, E. F. 2003. Oceans of archaea. ASM News 69:503-511.
98. DeLong E. F. 2004. Microbial population genomics and ecology: a new frontier. In
Microbial Genomics, ed. C.M. Fraser, K. E. Nelson, T.D. Read, Human Press Inc.,
Totowa, N.J., pp 419-442.
99. DeLong, E. F., 2004. Reconstructing the wild types. Nature 428:25-26
100. Suzuki, M.T., Preston, C.M., Béjà, O., de la Torre, J., Steward, G., and DeLong, E.F.
2004. Phylogenetic Screening of Ribosomal RNA Gene-Containing Clones in Bacterial
Artificial Chromosome (BAC) Libraries from Different Depths in Monterey Bay,
Microbial Ecology, 48:473-488.
101. Cary, S.C., and Campbell, B.J., DeLong, E.F. 2004. Studying the Deep Subsurface
biosphere: emerging technologies and applications. In The Subseafloor Biosphere at Mid-
Ocean Ridges
, Wilcock, W. W., DeLong, E. F., Kelley, D. S. and Cary, S. C., eds., AGU
Press,. Washington D. C. pg. 383-399.
102. Sabehi, G., Béjà, O., Suzuki, M.T., Preston, C.M. & E. F. DeLong. 2004. Different
SAR86 subgroups harbour divergent proteorhodopsins, Environ. Microbiol. 6:903–910.
103. DeLong, E. F. 2004. Microbial population genomics and ecology: the road ahead.
Environ. Microbiol. 6:875–878.
104. Hallam, S. J., Putnam, N.. Preston, C.M., Detter, J.C., Richardson, P. M., Rokhsar, D.,
and E. F. DeLong. 2004. Reverse Methanogenesis: Testing the Hypothesis with
Environmental Genomics, Science, 305: 1457-1462.
105. DeLong, E. F. 2004. Microbial life breathes deep. Science 306:2198-2200.
106. Schirmer A., Gadkari, R., Reeves, C. D., Ibrahim, F, De Long, E. F., and Hutchinson, C.
R. 2005. Metagenomic analysis reveals diverse polyketide synthase gene clusters in
microorganisms associated with the marine sponge Discodermia dissolute, Appl. Environ.
Microbiol. 71:4840-4849.
107. DeLong, E. F. 2005. Microbial community genomics in the ocean. Nat Rev Microbiol.
3:459-69.
108. Girguis P. R., A. Cozen and E. F. DeLong. 2005. Growth and population dynamics of
anaerobic methane-oxidizing archaea and sulfate -reducing bacteria in a continuous flow
bioreactor. Appl. Environ. Microbiol. 71:3725-3733.
109. Cubonová,L., Sandman, K., Hallam, S. J. DeLong, E. F. and J. N. Reeve. 2005 Histones
in Crenarchaea J. Bacteriol. 187: 5482-5485.
110. DeLong. E. F. and D. M. Karl. 2005. Genomic perspectives in microbial
oceanography. Nature 437: 336-342.

9

111. Frigaard, N.U, Martinez, C., Mincer, T., E. F. DeLong. 2006. Proteorhodopsin lateral
gene transfer between marine planktonic Bacteria and Archaea. Nature 439:847-850.
112. DeLong, E. F., Preston, C. M.., Martinez, A., Mincer, T., Frigaard, N.U., Rich, V.,
Hallam, S. J., Sullivan, M., Edwards, R., Beltran, R.B., Chisholm, S. W., and D. M. Karl
2006. Community genomics among stratified microbial assemblages in the ocean’s interior.
Science, 311: 496-503.
113. Grzymski, J. J. Carter, B., DeLong, E.F. , Feldman, R. Ghadiri, A., and A. E. Murray.
2006. Comparative Genomics of DNA Fragments from Six Antarctic Marine Planktonic
Bacteria Appl. Environ. Microbiol 72: 1532–1541
114. Hallam, S. J., Mincer, T., Roberts, K., Preston, C. M., Schleper, C., Detter, J. C.,
Richardson, P. M., and E. F. DeLong. 2006. Pathways of Carbon Assimilation and
Ammonia Oxidation Suggested by Environmental Genomic Analyses of Marine
Crenarchaeota. PloS Biology, 4(4): e95.
115. Coleman, M. L. Sullivan, M. B., Martiny , A. C., Steglich, C., Barry, K., DeLong, E. F.,
and S. W. Chisholm. 2006. Genomic islands and the ecology and evolution of
Prochlorococcus. Science 311: 768-770.
116. DeLong, E. F. 2006. Archaeal mysteries of the deep revealed. Proc Natl Acad Sci U S
A. 103: 6417-6418.
117. Yoshinari S, Itoh T, Hallam SJ, DeLong EF, Yokobori S, Yamagishi A, Oshima T, Kita
K, Watanabe Y. 2006. Archaeal pre-mRNA splicing: a connection to hetero-oligomeric
splicing endonuclease. Biochem Biophys Res Commun. 346:1024-32.
118. Hallam, S. J., Konstantinidis, K. T., Putnam, N., Schleper, C., Watanabe, Y., Sugahara,
J., Preston, C. M., de la Torre, J, Richardson, P.R. and DeLong, E. F. 2006. Genomic
analysis of the uncultivated marine crenarchaeote, Cenarchaeum symbiosum. Proc. Natl.
Acad. Sci U.S.A. 103:18296-18301
119. McCarren, J. and E. F. DeLong. 2007. Proteorhodopsin photosystem gene clusters
exhibit co-evolutionary trends and shared ancestry among diverse marine microbial phyla.
Environ. Microbiol. 9:846-858.
120. Mincer T. J., Church, M, J.. , Taylor, L. T., Preston, C. M., Karl, D. M., and DeLong, E.
F. 2007. Quantitative distribution of presumptive archaeal and bacterial nitrifiers in
Monterey Bay and the North Pacific Subtropical Gyre. Environ. Microbiol. 9:1162-1175.
121. A. Martinez, A. Bradley, J. Waldbauer, R. Summons and E. F. DeLong. 2007.
Proteorhodopsin photosystem gene expression enables photophosphorylation in a
heterologous host. Proc. Natl Acad Sci. 104: 5590-5595.
122. DeLong, E. F. 2007. Sea change for metagenomics ? Nat Rev. Microbiol. . 5: 326.
123. DeLong, E. F. 2007. Microbial domains in the ocean: A lesson from the Archaea,
Oceanography 20:124-129
124. E. F. DeLong. 2007. Life on the thermodynamic edge. Science 317:327-328.
125. E. F. DeLong. 2007. Construction of BAC and fosmid libraries from naturally occurring
microbial populations in Reddy and Schmidt ed., Methods for General and Molecular
Microbiology,
pp. 879-885, ASM Press, Washington D. C.
126. Giaquinto L, Curmi PM, Siddiqui KS, Poljak A, DeLong E. F., Dassarma S, Cavicchioli
R. 2007. Structure and function of cold shock proteins in archaea. J Bacteriol. 189:5738-
5748.
127. Woebkena, D., Teeling, H., Weckerb, P, Dumitriuc, A., Kostadinovb, I., DeLong, E.
F., Amann, R. and F. O. Glöckner. 2007. Fosmids of novel marine Planctomycetes from

10

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