C-MORE Publications

1. Brix, H., N. Gruber, D.M. Karl and N.R. Bates. 2006. On the relationship between primary, net community, and export production in subtropical gyres. Deep–Sea Research II 53: 698–717.

2. DeLong, E.F., C.M. Preston, T. Mincer, V. Rich, S.J. Hallam, N.–U. Frigaard, A. Martinez, M.B. Sullivan, R. Edwards, B.R. Brito, S.W. Chisholm and D.M. Karl. 2006. Community genomics among stratified microbial assemblages in the ocean‘s interior. Science 311: 496–503.

3. Follows, M.S. Dutkiewicz, S. Grant, S.W. Chisholm. 2007. Emergent biogeography of microbial communities in a model ocean. Science 315: 1843–1846

4. 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. 2007. Genomic analysis of the uncultivated marine crenarchaeote, Cenarchaeum symbiosum. Proc. Natl. Acad. Sci. USA 103: 18296–18301.

5. Greenfield, D.I., R. Marin III, S. Jensen, E. Massion, B. Roman, J. Feldman, C. Scholin. 2006. Application of the Environmental Sample Processor (ESP) methodology for quantifying Pseudonitzschia australis using ribosomal RNA–targeted probes in sandwich and fluorescent in situ hybridization. Limnology and Oceanography: Methods 4: 426–435.

6. Huisman, J., N.N.P. Thi, D.M. Karl and B. Sommeijer. 2006. Reduced mixing generates oscillations and chaos in the deep chlorophyll maximum. Nature 439: 322–325.

7. Rusch, D. B., A. L. Halpern, G. Sutton, K. B. Heidelberg, S. Williamson, S. Yooseph, D. Wu, J. A. Eisen, J. M. Hoffman, K. Rrmington, K. Beeson, B. Tran, H. Smith, H. Baden–Tillson, C. Stewart, J. Thorpe, J. Freeman, C. Andrews–Pfannkoch, J. E. Venter, K. Li, S. Kravitz, J. F. Heidelberg, T. Utterback, Y.–H. Rogers, L. I. Falcon, V. Souza, G. Bonilla–Rosso, L. E. Eguiarte, D. M. Karl, S. Sathyendranath, T. Platt, E. Bermingham, V. Gal–lardo, G. Tamayo–Castillo, M. R. Ferrari, R. L. Strausberg, K. Nealson, R. Friedman, M. Frazier and J. C. Venter 2007. The Sorcerer II global ocean sampling expedition: Northwest Atlantic through Eastern Tropical Pacific. Public Library of Science (PLOS), Biology 5:0398–0431

8. Martinez, A. , 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.

9. Martiny, A.C., Coleman, M.L and S. W, Chisholm. 2006. Phosphate acquisition genes in Prochlorococcus ecotypes: Evidence for genome–wide adaptation. Proc. Nat. Acad. Sci. USA 103 (33): 12552–12557

10. McAndrew, P.M., K.M. Bjorkman, M.J. Church, P.J. Morris, N. Jachowski, P.J. le B. Williams and D.M. Karl. 2007. Metabolic response of oligotrophic plankton communities to deep water nutrient enrichment. Marine Ecology Progress Series 332: 63–75.

11. 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.

12. Mincer T.J., Church, M,J. , Taylor, L.T., Preston, C.M., Karl, D.M., and E.F. DeLong. 2007. Quantitative distribution of presumptive archaeal and bacterial nitrifiers in Monterey Bay and the North Pacific Subtropical Gyre. Environ. Microbiol., doi: 10.1111/j.1462–2920.2007.01239.x

13. Roman, B., C. Scholin, S. Jensen, E. Massion, R, Marin III, C. Preston, D. Greenfield, W. Jones, and K. Wheeler. 2007. Controlling a robotic marine water sampler with the Ruby scripting language. Journal of American Laboratory Automation 12: 56–61.

14. Rothstein, L.M., J.J. Cullen, M. Abbott, E. Chassignet, K. Denman, S. Doney, H. Ducklow, K. Fennel, M. Follows, D. Haidvogel, E. Hofmann, D. Karl, J. Kindle, I. Lima, M. Maltrud, C. McClain, D. McGillicuddy, J. Olascoaga, Y. Spitz, J. Wiggert and J. Yoder. 2006. Modeling ocean ecosystems: The PARADIGM program. Oceanography 19: 17–45.

15. Steglich, C. Futschik, M., Rector, T. and S.W. Chisholm. 2006. Genome–wide analysis of light sensing in Prochlorococcus. J. Bacteriol. 188: 7796–7806

16. Sullivan, M.B., D. Lindell, J.A. Lee, L. R. Thompson, J. P. Bielawski, and S.W. Chisholm. 2006. Prevalence and evolution of core photosystem II genes in marine cyanobacterial viruses and their hosts. PLOS Biology 4 (8) 1345–1357.

17. Tolonen, A.C. Aach, J. Lindell, D., Johnson, Z.I., Rector, T. Steen, R., Church, G. M. and S.W. Chisholm (2006) Global gene expression of Prochlorococcus ecotypes in response to changes in nitrogen availability. Molecular Systems Biology. 3 October, Article 53. doi:10.1038/msb4100087.

18. White, A., Y. Spitz, D.M. Karl and R. M. Letelier. 2006. Flexible elemental stoichiometry in Trichodesmium spp. and its ecological implications. Limnology and Oceanography 51: 1777–1790.

19. Zehr, J. P., J. P. Montoya, B. D. Jenkins, I. Hewson, E. Mondragon, C. M. Short, M. J. Church, A. Hansen, and D. M. Karl. 2007. Experiments linking nitrogenase gene expression to nitrogen fixation in the North Pacific subtropical gyre. Limnol. Oceanogr. 52: 169–183.

20. Giovannoni, S.J., R.A. Foster, M.S. Rappé, and S. Epstein. 2007. New cultivation strategies bring more microbial plankton species into the laboratory. Oceanography 20: 24–30.

21. Karl, D., and L. Proctor, Editors. 2007. A Sea of Microbes, Oceanography 20 (2), special issue.

22. Karl, D., E. DeLong, and G. Rocap. 2007. Microbial Oceanography: Challenges and Opportunities, a report commissioned and published by The Agouron Institute, March 2007.

23. Becker, J. W., M. L. Brandon, and M. S. Rappé (2007) Cultivating microorganisms from dilute aquatic environments: melding traditional methodology with new cultivation techniques and molecular methods. In C. J. Hurst et al. [eds], Manual of Environmental Microbiology, 3rd Edition. ASM Press, pp. 399–406.

24. Rappé, M. S., M. L. Brandon, and J. W. Becker. Isolation of aquatic microorganisms via high throughput cultivation methods. In G. A. Kowalchuk, F. J. de Bruijn, I. M. Head, and A. D. Akkermans [eds], Molecular Microbial Ecology Manual, 3rd Edition. Kluwer Academic Publishers, in press.

25. Scholin, C.A., G.J. Doucette, and A.D. Cembella. Prospects for developing automated systems for in situ detection of harmful algae and their toxins. In: M. Babin, C.S. Roesler and J.J. Cullen (eds.) Real–Time Coastal Observing Systems for Ecosystem Dynamics and Harmful Algal Blooms, UNESCO Publishing, Paris, France. pp 413–462.

26. Zehr, J. P. and H.W. Paerl. 2008. Molecular ecological aspects of nitrogen fixation in the marine environment. p. 481–525 In, D. L. Kirchman (ed.), Microbial Ecology of the Oceans. 2nd Edition. Wiley–Liss, Inc. Durham, NC.

27. Buesseler, K. O., C. H .Lamborg, P. W. Boyd, P. J. Lam, T. W. Trull, R. R. Bidigare, J. K.B. Bishop, K. L. Casciotti, F. Dehairs, M. Elskens, M. Honda, D. M. Karl, D. Siegel, M. W. Silver, D. K. Steinberg, J. Valdes, B. Van Mooy and S. Wilson. 2007. Revisiting carbon flux through the ocean’s twilight zone. Science 316: 567–570.

28. Corno, G., D.M. Karl, M.A. Abbott, M.J. Church, R. Lukas, and R.M. Letelier 2007. Impact of climate forcing on ecosystem processes in the North Pacific subtropical gyre. J. Geophys. Res 112:C04021–doi:10.1029/2006JC003730

29. Karl, D.M. 2007. Microbial nucleotide fingerprints in nature. In: C. A. Reddy, T. Beveridge, J. A. Breznak, S. Maloy, G. A. Marzluf, T.M. Schmidt (eds.). Methods for General and Molecular Microbiology, ASM Press, Washington, D.C. pp. 869–878

30. Karl, D.M. The marine phosphorus cycle. 2007. In: Manual of Environmental Microbiology, Third Edition, ed. by J. L. Garland, American Society of Microbiology, pp. 523–539.

31. Karl, D. M., R. R. Bidigare, M. J. Church, J. E. Dore, R. M. Letelier, C. Mahaffey and J. P. Zehr. 2008. The nitrogen cycle in the North Pacific trades biome: An evolving paradigm, p. 705–769. In, Nitrogen in the Marine Environment, D. G. Capone, D. A. Bronk, M. R. Mulholland and E. J. Carpenter (ed.), Academic Press, New York, NY.

32. Steward, G.F. and M.S. Rappé. 2007. What’s the ”meta“ with metagenomics? The ISME Journal, 1:100–102. doi:10.1038/ismej.2007.25

33. Dhadwal, H.S., B. Mukherjee, P. Kemp, J. Aller, Y. Liu, and J. Radway. 2007. A dual detector Capillary Waveguide Sensor for detection and quantification of hybridized target species. Analytica Chimica Acta 598: 147–154.

34. Kolber, Z. 2007 Energy cycle in the ocean: Powering the microbial world. Oceanography 20, 79–88.

35. Saito, M.A. and D.L. Schneider. 2006. Examination of the precipitation chemistry and improvements in precision using the Mg(OH)₂ preconcentration ICP–MS method for high–throughput analysis of open–ocean Fe and Mn in seawater. Analytica Chimica Acta, 565, 222–233.

36. Bertrand, E.M., M.A. Saito, J.M. Rose, C.R. Riesselman, M.C. Lohan, A.E. Noble, P.A. Lee, G.R. DiTullio. 2007. Vitamin B12 and iron co–limitation of phytoplankton growth in the Ross Sea. Limnology and Oceanography 52: 1079–1093.

37. Saito, M.A. and T.J. Goepfert. 2008. Zinc–cobalt colimitation in Phaeocystis antarctica. Limnology and Oceanography. 53:266–275

38. Saito, M.A., T.J. Goepfert, and J.T. Ritt. 2008. Some thoughts on the concept of co–limitation: Three definitions and the importance of bioavailability. Limnology and Oceanography. 53:276–290

39. Moore, L.R., A. Coe, E.R. Zinser, M.A. Saito, M.B. Sullivan, D. Lindell, K. Frois–Moniz, J. Waterbury, and S. W. Chisholm. 2007. Culturing the marine cyanobacterium Prochlorococcus. Limnol. Oceanogr.: Methods. 5:353–362

40. Zinser, E.R.Z., I. Johnson, A. Coe, E. Karaca, D. Veneziano, and S.W. Chisholm. 2007. Influence of light and temperature on Prochlorococcus ecotype distributions in the Atlantic Ocean. Limnol. Oceanogr. 52 (5): 2205–2220.

41. Lindell, D., J.D. Jaffe, M.l. Coleman, I.M. Axmann, T. Rector, G. Kettler, M.B. Sullivan, R. Steen, W.R. Hess, G.M. Church, and S. W. Chisholm. 2007. Genome–wide expression dynamics of a marine virus and host reveal features of coevolution. Nature 449: 83–86.

42. Culley, A.I. and Steward G.F. 2007. New genera of RNA viruses in subtropical seawater, inferred from polymerase gene sequences. Appl. Environ. Microbiol. 73:5937–5944

43. D’Hondt, S., F. Inagaki, T. Ferdelman, B.B. Jørgensen, K. Kato, P. Kemp, P. Sobecky, M. Sogin and K. Takai. 2007. Exploring subseafloor life with the Integrated Ocean Drilling Program. Scientific Drilling 5: 58–69.

44. Kettler, G., A.C. Martiny, K. Huang, J. Zucker, M.L. Coleman, S. Rodrigue, F. Chen, A. Lapidus, S. Ferriera, J. Johnson, C. Steglich, G. Church, P. Richardson, and S.W. Chisholm. 2007. Patterns and Implications of Gene Gain and Loss in the Evolution of Prochlorococcus. PLoS Genetics 3:2515–2528

45. Aller, JY, Kemp, PF. Are Archaea inherently less diverse than Bacteria in the same environments? FEMS Microbiology Ecology 65:74–87.

46. Doney, S.C., I. Lima, J.K. Moore, K. Lindsay, M.J. Behrenfeld, T.K. Westberry, N. Ma–howald, D.M. Glover, and T. Takahashi, 2009: Skill metrics for confronting global upper ocean ecosystem–biogeochemistry models against field and remote sensing data, J. Mar. Systems, 76, 95–112, doi:10.1016/j.jmarsys.2008.05.015.

47. Jin, X., Gruber, N., Frenzel, H., Doney, S.C., and McWilliams, J.C. 2008. The impact on atmospheric CO2 of iron fertilization induced changes in the ocean's biological pump. Biogeosciences 5:385–406

48. Frias–Lopez, J., Shi, Y., Tyson, G. W.,. Coleman, M.L., Schuster, S. C., Chisholm, S.W., DeLong, E. F. 2008. Microbial community gene expression in ocean surface waters. Proc. Natl. Acad. Sci, U.S.A. 105:3805–3810

49. Woebken D., Teeling H., Wecker P., Dumitriu A., Kostadinov I., Delong E.F., Amann R., Glöckner F.O. 2007. Fosmids of novel marine Planctomycetes from the Namibian and Oregon coast upwelling systems and their cross–comparison with planctomycete genomes. ISME J. 5:419–435

50. Rich, V. I., K. Konstantinidis, DeLong, E. F. 2008. Design and testing of "genome–proxy" microarrays to profile marine microbial communities. Environ. Microbiol. 10:506–521

51. Giaquinto L., Curmi P.M., Siddiqui K.S., Poljak A., DeLong E. F., Dassarma S., Cavicchioli R. 2007. Structure and function of cold shock proteins in archaea. J Bacteriol. 189:5738–5748

52. DeLong, E. F. 2007. Microbial domains in the ocean: A lesson from the Archaea. Oceanography 20:124–129

53. Coleman, M.L. and Chisholm, S.W. 2007. Code and Context: Prochlorococcus as a model for cross–scale biology. Trends in Microbiology 15:398–407

54. Dammeyer, T.S., Bagby, S.C., Sullivan, M.B., Chisholm, S.W., and Frankenberg–Dinkel, N. 2008. Efficient phage–mediated pigment biosynthesis in oceanic cyanobacteria. Current Biology 18:442–448

55. Noble, A.E., Saito, M.A., Maiti, K., Benitez–Nelson C. in press. Cobalt, manganese, and iron near the Hawaiian Islands: A potential concentrating mechanism for cobalt within a cyclonic eddy and implications for the hybrid–type trace metals. Deep–Sea Research II 55: 1473–1490

56. Pham, V., Konstantinidis, K. T., Palden, T., DeLong, E. F. 2008. Phylogenetic Analyses of rDNA–containing Bacterioplankton Genome Fragments from a 4000–Metre Vertical Profile in the North Pacific Subtropical Gyre. Environ. Microbiol. 10:2313–30

57. Falkowski, P.G., Fenchel, T. DeLong E. F. 2008. The Microbial Engines that Drive Earth's Biogeochemical Cycles. Science 320: 1034–1039

58. Goebel, N. L., C. A. Edwards, M. J. Church, and J. P. Zehr. 2007. Modeled contributions of three types of diazotrophs to nitrogen fixation at Station ALOHA. ISME J. 1:606–619.

59. Zehr, J. P., S. R. Bench, E. A. Mondragon, J. McCarren, , and E. F. DeLong. 2007. Low genomic diversity in tropical oceanic N₂–fixing cyanobacteria. PNAS 104:17807–17812.

60. Hewson, I., P. H. Moisander, A. E. Morrison, J. P. Zehr. 2007. Diazotrophic bacterioplankton in a coral reef lagoon: phylogeny, diel nitrogenase expression, and response to phosphate enrichment. ISME J.1:78–91

61. Moisander, P. H., A. E. Morrison, B. B. Ward, B. D. Jenkins, and J. P. Zehr. 2007. Spatial–temporal variability in diazotroph assemblages in Chesapeake Bay using an oligonucleotide nifH microarray. Environ. Microbiol. 9:1823–1835

62. Needoba, J. A., R. A. Foster, C. Sakamoto, J. P. Zehr, and K. S. Johnson. 2007. Nitrogen fixation by unicellular diazotrophic cyanobacteria in the temperate, oligotrophic North Pacific Ocean. Limnol. Oceanogr. 52:1317–1327

63. Rabouille, S., C. A. Edwards, and J. P. Zehr. 2007. Modelling the vertical distribution of Prochlorococcus and Synechococcus in the North Pacific Subtropical Ocean. Environ. Microbiol. 9:2588–2602.

64. Ward, B. B., D. G. Capone, and J. P. Zehr. 2007. What's new in the nitrogen cycle? Oceanography 20:101–109.

65. Laney, S.R. and R.M. Letelier 2008. Artifacts in measurements of chlorophyll fluorescence transients, with specific application to fast repetition rate fluorometry. . Limnol. Oceanogr.: Methods 6:40–50

66. Dore, J.E., R.M. Letelier, M.J. Church, R.Lukas, and D.M. Karl 2008. Summer phytoplankton blooms in the oligotrophic North Pacific Subtropical Gyre: Historical perspective and recent observations. Progress in Oceanography 76:2–38

67. Desiderio, R., S. Laney, R. Letelier, and S. Giovannoni 2007. Using lasers to probe the transient light absorption by proteorhodopsin in marine bacterioplankton. Applied Optics 46:7329–7336

68. White, A.E., Y.H. Spitz, and R.M. Letelier 2007. What factors are driving summer phytoplankton blooms in the North Pacific subtropical gyre? J. Geophys. Res. 112(c2): :C12006–doi:10.1029/2007JC004129

69. Bane, J.M., Y.H. Spitz, R.M. Letelier, and W.T. Peterson 2007. Jet stream intraseasonal oscillations drive dominant ecosystem variations in Oregon's summertime coastal upwelling system. Proc. Nat. Acad. Sci. 104:13,262–13,267

70. Huyer, A., M. Kosro, R. Letelier, R.L. Smith, and P.A. Wheeler 2007. The Newport Line off Oregon: Studies in the North East Pacific. Progress in Oceanography 112: –, doi: 10.1016/j.pocean.2007.08.003

71. White, A. E., F.G. Prahl, R.M. Letelier, and B.N. Popp 2007. Summer surface waters in the Gulf of California: prime habitat for biological N2 fixation. Global Biogeochemical Cycles 21: GB2017–doi:10.1029/2006GBC002779

72. Church, M.J., K. M. Bjorkman, D. M. Karl, M. A. Saito, and J. P. Zehr. 2008. Regional distributions of nitrogen–fixing bacteria in the Pacific Ocean. Limnol. Oceanogr. 53:63–77.

73. Fong, A. A., D. M. Karl, R. Lukas, R. M. Letelier, J. P. Zehr, and M. J. Church. 2008. Nitrogen fixation in an anticyclonic eddy in the oligotrophic North Pacific Ocean. ISME J. 2:663–676.

74. Church, M.J. 2008. Resource control of bacterial dynamics in the sea. In: Kirchman, D.L. Microbial Ecology of the Oceans. pp 335–382. Wiley Liss.

75. Karl, D. M. and L. Proctor 2007. Foundations of microbial oceanography. Oceanography 20:16–27

76. Karl, D. M. 2007. Microbial oceanography: paradigms, processes and promise. Nature Reviews Microbiology 5:759–769

77. Buessler, K. O., S. C. Doney, D. M. Karl, P. W. Boyd, K. Caldiera, F. Chai, K. H. Coale, H. J. W. de Baar, P. G. Falkowski, K. S. Johnson, R. S. Lampitt, A. F. Michaels, S. W. A. Naqvi, V. Smetacek, S. Takeda and A. J. Watson 2008 Ocean iron fertilization – Moving forward in a sea of uncertainty. Science 319:162–162

78. Moutin, T., D. M. Karl, S. Duhamel, P. Rimmelin, P. Raimbault, B. A. S. Van Mooy and H. Claustre 2008. Phosphate availability and the ultimate control of new nitrogen input by nitrogen fixation in the tropical Pacific Ocean. Biogeosciences 5:95–109

79. Karl, D. M 2007. Plastics–irradiated–etched: The Nuclepore filter turns 45 years old. Limnology and Oceanography Bulletin 16:49–54

80. Paul, J., Scholin, C., van den Engh, G., Perry, M.J. 2007. In situ Instrumentation. Oceanography 20:58–66

81. Bruno, B.C., K. Achilles, K. Weersing, G. Walker, P. Kemp (2008), Professional Development at the Center for Microbial Oceanography: Research and Education (C–MORE), The Earth Scientist XXVII (2):7–10.

82. Sullivan, Matthew B., Coleman, Maureen L., Quinlivan,Vanessa, Rosenkrantz, Jessica E., DeFrancesco, Alicia S., Tan, G., Fu, Ross, Lee, Jessica A., Waterbury, John B., Bielawski, Joseph P., and Chisholm, Sallie W. 2008. Portal protein diversity and phage ecology. Environmental Microbiology 10:2810–2823

83. Webb, E.A., Ehrenreich,I.M., Brown, S.L., Valois, F.W., Waterbury, J.B. 2008. Phenotypic and genotypic characterization of multiple strains of the diazotrophic cyanobacterium, Crocosphaera watsonii, isolated from the open ocean. Environmental Microbiology 11:338–348

84. Bragg, J. G., Chisholm, S. W. 2008. Modeling the fitness consequences of a cyanophage–encoded photosynthesis gene. PLoS ONE 3:e3550–

85. Culley A.I., B. Asuncion, G.F. Steward. 2009. Detection of inteins among diverse DNA polymerase genes of uncultivated members of the Phycodnaviridae. The ISME Journal 3: 409-413

86. Doney, S.C., Fabry, V.J., Feely, R.A., Kleypas, J.A. 2009. Ocean acidification: the other CO2 problem. Ann. Rev. Mar. Sci 1:169–192

87. Ducklow, H., Doney, S.C., Steinberg, D.K. 2009. Contributions of long–term research and time–series observations to marine ecology and biogeochemistry. Ann. Rev. Mar. Sci. 1:279–302

88. Stow, C., Jolliff, A.J., McGillicuddy, D.J. Jr., Doney, S.C., Allen, J.I., Friedrichs, M.A.M., Rose, K.A., Wallhead, P. 2009. Skill assessment for coupled biological/physical models of marine systems. J. Mar. Systems 76:4–15

89. Gregg, W.W., Friedrichs, M.A.M., Robinson, A.R., Rose, K.A., Schlitzer, R., Thompson, K.R., Doney, S.C. 2009. Skill assessment in ocean biological data assimilation. J. Mar. Systems 76:16–33

90. Friedrichs, M.A.M., Carr, M.–E., Barber, R.T, Scardi, M., Antoine, D., Armstrong, R.A., Asanuma, I., Behrenfeld, M.J., Buitenhuis, E.T., Chai, F., Christian, J.R., Ciotti, A.M., Doney, S.C., Dowell, M., Dunne, J., Gentili, B., Gregg, W., Hoepffner, N., Ishizaka, J., Kameda, T., Lima, I., Marra, J., Mélin, F., Moore, J.K., Morel, A., O'Malley, R.T., O'Reilly, J., Saba, V.S., Schmeltz, M., Smyth, T.J., Tjiputra, J., Waters, K., Westberry, T.K., Winguth, A. 2009. Assessing the uncertainties of model estimates of primary productivity in the tropical Pacific Ocean. J. Mar. Systems 76:113–133

91. Gruber, N., Doney, S.C. 2009. Modeling of ocean biogeochemistry and ecology. In: ed. Steele, J., Turekian, K.K., Thorpe, S.A. Encyclopedia of Ocean Sciences . pp 4105–4120. Elseiver

92. Hynes, A. 2008. A most ingenious paradoxical plankton. Oceanus 47:36–39

93. Foster, R.A., A. Paytan, and J.P. Zehr 2009. Seasonality of N2 fixation and nifH diversity in the Gulf of Aqaba (Red Sea). Limnol. Oceanogr. 54:219–223

94. Foster, R. A., A. Subramaniam, and J. P. Zehr 2008. Distribution and activity of diazotrophs in the Eastern Equatorial Atlantic. Environ. Microbiol. 11:741–750

95. Guidi, L., Ibanez, F., Calcagno, V., Beaugrand, G. 2009. A new procedure to optimize the selection of groups in a classification tree: Applications for ecological data. Ecological Modelling 220:451–461

96. Zinser, E.R., Lindell, D., Johnson, Z.I., Futschik, M.E., Steglich, C., Coleman, M.L., Wright, M.A., Rector, T., Steen, R., McNulty, N., Thompson, L.R., and Chisholm, S.W. 2009. Choreography of the transcriptome, photophysiology, and cell cycle of a minimal photoautotroph, Prochlorococcus. PLoS ONE 4(4):e5135

97. Martiny, A.C., Tai, A.P.K., Veneziano, D., Primeau, F., and Chisholm, S.W. 2008. Taxonomic resolution, ecotypes, and the biogeography of Prochlorococcus. Environmental Microbiology doi:10.1111/j.1462–2920.2008.01803.x

98. Frias–Lopez, J., Thompson, A., Waldbauer, J., and Chisholm, S.W. 2009. Use of stable isotope labeled cells to identify active grazers of picocyanobacteria in ocean surface waters. Environmental Microbiology doi:10.1111/j.1462–2920.2008.01793.x

99. Steglich, C. Futschik M.E., Lindell, D., Voss, B., Chisholm, S.W., and Hess, W.R. 2008. The challenge of regulation in a minimal photoautotroph: Non–coding RNAs in Prochlorococcus. PLoS Genetics 4:e1000173–

100. Greenfield, D., Marin III, R., Doucette, G., Mikulski, C., Jensen, S., Roman, B., Alvarado, N., Scholin, C.A. 2008. Field applications of the second–generation Environmental Sample Processor (ESP) for remote detection of harmful algae: 2006–2007. Limnology and Oceanography: Methods 6:667–679

101. Scholin, C. 2009. What are ecogenomic sensors. Ocean Science Discussions 6:191–213

102. Wood–Charlson, E.M., Weis, V.M. 2009. The diversity of C–type lectins in the genome of a basal metazoan, Nematostella vectensis. Developmental and Comparative Immunology 33:881–889

103. Preston, C., Marin III, R., Jenson, S., Feldman, J., Massion, E., DeLong, E., Suzuki, M., Wheeler, K., Cline, D., Alvarado, N., Scholin, C. 2009. Near real–time, autonomous detection of marine bacterioplankton on a coastal mooring in Monterey Bay, California, using rRNA–targeted DNA probes. Environmental Microbiology 11:1168–1180. doi:10.1111/j.1462–2920.2009.01848.x

104. Scholin, C, Doucette, G., Jensen, S., Roman, B., Pargett, D., Marin III, R., Preston, C., Jones, W., Feldman, J., Everlove, C., Harris, A., Avarado, N., Massion, E., Birch, J., Greenfield, D., Wheeler, K., Vrijenhoek, R., Mikulski, C., Jones, K. 2009. Remote detection of marine microbes, small invertebrates, harmful algae and biotoxins using the Environmental Sample Processor (ESP). Oceanography 22:158–167

105. Pidgeon, E., Doney S.C. 2008. The role of the oceans (Chapter 8). In: R.A. Mittermeier et al., A Climate for Life, Meeting the Global Challenge. pp 246–276. CEMEX Conservation Book Series, with Conservation International and the International League of Conservation Photographers

106. Doney, S.C. 2008. Ocean Acidification. In: Earle, S.A., Glover, L.K. Ocean: An Illustrated Atlas (National Geographic Atlas). pp 39–39. National Geographic

107. Cooley, S.R., Doney, S.C. 2009. Ocean acidification's impact on fisheries and societies: a U.S. perspective. Current–the Journal of Marine Education 25:15–19

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