Publications (peer reviewed)
63. Acosta K., Juhl A., Subramaniam A., and S. Duhamel. Spatial and temporal variation in surface nitrate and phosphate in the northern Gulf of Mexico over 35 years. Scientific Reports, 14 (1), 7305. https://doi.org/10.1038/s41598-024-58044-4.
62. Koblizek M., Ferrera I., Kolářová E., Duhamel S., Popendorf K., Gasol J., and B. Van Mooy. 2024. Activity of aerobic anoxygenic phototrophs in the North Pacific subtropical gyre. Applied and Environmental Microbiology. In press
61. Hadland N.K., Hamilton C.W., and S. Duhamel. 2024. Young volcanic terrains are windows into early microbial colonization. Nature - Communications Earth & Environment, 5, 114. doi.org/ 10.1038/s43247-024-01280-3
60. Millette N.C., Gast R.J., Luo J.Y., Moeller H.V., Stamieszkin K., Andersen K.H., Brownlee E.F., Cohen N., Duhamel S., Dutkiewicz S., Glibert P.M., Johnson M.D., Leles S.G., Maloney A.E., McManus G., Poulton N., Princiotta S.D., Sanders R., and S. Wilken. Mixotrophs and mixotrophy: future research priorities. Journal of Plankton Research, 45 (4), 576–596. doi.org/10.1093/plankt/fbad020
59. Su B., Song X., Duhamel S., Mahaffey C., Davis C., Ivančić I., and J. Liu. 2023. A dataset of global ocean alkaline phosphatase activity. Scientific Data 10, 205. doi.org/10.1038/s41597-023-02081-7
58. del Carmen Muñoz-Marín M., Duhamel S., Björkman K.M., Magasin J., Díez J., Karl D.M., and J.M. García-Fernández. 2022. Differential timing for glucose assimilation in Prochlorococcus and coexistent microbial populations in the North Pacific Subtropical Gyre. Microbiology Spectrum. e02466-22. doi.org/10.1128/spectrum.02466-22
57. Filella A., Riemann L., Van Wambeke F., Pulido-Villena E., Vogts A., Bonnet S., Grosso O., Diaz J.M., Duhamel S., and M. Benavides. 2022. Contrasting roles of DOP as a source of phosphorus and energy for marine diazotrophs. Frontiers in Marine Science, 9. doi.org/10.3389/fmars.2022.923765.
56. Duhamel S., Hamilton C.W., Pálsson S., and S. Björnsdóttir. Microbial response to increased temperatures within a lava-induced hydrothermal system in Iceland as an analog for Mars. Astrobiology. Astrobiology, 22 (11), xx–xx. doi.org/10.1089/ast.2021.0124.
55. Bock N.A., M. Cornec, H. Claustre, and S. Duhamel. 2022. Biogeographical classification of the global ocean from BGC-Argo floats. Global Biogeochemical Cycles, 36, e2021GB007233. doi.org/10.1029/2021GB007233
54. Bock N.A., Subramaniam A., Juhl A. Montoya J., and S. Duhamel. 2022. Quantifying per-cell chlorophyll a in natural picophytoplankton populations using fluorescence-activated cell sorting. Frontiers in Marine Science 9. doi.org/10.3389/fmars.2022.850646
53. Benavides M., Caffin M., Duhamel S., Foster R., Grosso O., Guieu C., Van Wambeke Fr, and S. Bonnet. 2022. Anomalously high abundance of Crocosphaera in the South Pacific Gyre. FEMS Microbiology Letters, fnac039. doi.org/10.1093/femsle/fnac039.
52. Rabouille, S., Tournier, L., Duhamel, S., Claquin, P., Crispi, O., Talec, A., Landolfi, A., A. Oschlies. 2022. Organic phosphorus scavenging supports efficient growth of diazotrophic cyanobacteria under phosphate depletion. Frontiers in Microbiology, 13. doi.org/10.3389/fmicb.2022.848647
51. Yang H., Genot B., Duhamel S., Kerney R., and J. Burns. 2022. Organismal and cellular interactions in vertebrate-alga symbioses. Biochemical Society Transactions, 50 (1), 609–620. doi: 10.1042/BST20210153
50. Adams J.C., Steffen R., Chou C-W., Duhamel S., and J.M. Diaz. 2022. Dissolved organic phosphorus utilization by the marine bacterium Ruegeria pomeroyi DSS-3 reveals chain length-dependent polyphosphate degradation. Environmental Microbiology, 24: 2259-2269. doi.org/10.1111/1462-2920.15877
50. Charvet S., Kim E., Subramanian A., Montoya J., and S. Duhamel. 2021. Small pigmented eukaryote assemblages of the western tropical North Atlantic around the Amazon River plume during spring discharge. Scientific Reports 11(1), 16200. doi.org/10.1038/s41598-021-95676-2.
49. Berthelot H., Duhamel S., L’Helguen S., Maguer J.F., and N. Cassar. 2021. Inorganic and organic carbon and nitrogen uptake strategies of picoplankton groups in the northwestern Atlantic Ocean. Limnology and Oceanography. doi.org/10.1002/lno.11909
48. Duhamel S., J.M Diaz, J.C. Adams, K. Djaoudi, V. Steck, E.M. Waggoner. 2021. Phosphorus as an integral component of global marine biogeochemistry. Nature Geosciences. 14, 359–368, https://doi.org/10.1038/s41561-021-00755-8
47. Bock N.A., Charvet S., Burns J., Gyaltshen Y., Rozenberg A., Duhamel S., and E. Kim. Experimental identification and in silico prediction of bacterivory in green algae. The ISME Journal. https://doi.org/10.1038/s41396-021-00899-w
46. Burns J.A., Kerney R.R., and S. Duhamel. 2020. Heterotrophic carbon fixation in a salamander-alga symbiosis. Frontiers in Microbiology, section Microbial Symbioses, 11, 1815. doi: 10.3389/fmicb.2020.01815
45. Benavides M., Duhamel S., Van Wambeke F., Shoemaker K.M., Moisander P.H., Salamon E., Riemann L., and S. Bonnet. 2020. Dissolved organic matter stimulates N2 fixation and nifH gene expression in Trichodesmium. FEMS Microbiology Letters, 367(4), fnaa034. doi.org/10.1093/femsle/fnaa034
44. Bonnefoy L.E., Hamilton C.W., Scheidt S.P., Duhamel S., Hoskuldsson Á., Jonsdottir I., Thordarson T., and U. Münzer. Landscape evolution associated with the 2014–2015 Holuhraun eruption in Iceland. Journal of Volcanology and Geothermal Research, 387, 106652, doi:10.1016/j.jvolgeores.2019.07.019
43. Shoemaker K. M., Duhamel S. and P. H. Moisander. 2019. Copepods promote bacterial community changes in surrounding seawater through farming and nutrient enrichment. Environmental Microbiology, 21(10), 3737–3750, doi:10.1111/1462-2920.14723
42. Duhamel S., E. Kim, B. Sprung, and O. R. Anderson. 2019. Small pigmented eukaryotes play a major role in carbon cycling in the P‐depleted western subtropical North Atlantic, which may be supported by mixotrophy. Limnology and Oceanography, 64, 2424–2440, doi:10.1002/lno.11193 Open access
41. Diaz J.M., Steffen R., Sanders J.G., Tang Y., and S. Duhamel. 2019. Preferential utilization of inorganic polyphosphate over other bioavailable phosphorus sources by the model diatoms Thalassiosira spp. Environmental Microbiology, 21, 2415–2425, doi: 10.1111/1462-2920.14630. Open access
40. Berthelot H., Duhamel S., L’Helguen S., Maguer J.F., Wang S., and N. Cassar. 2018. NanoSIMS single cell analyses reveal the contrasting nitrogen sources for small phytoplankton. The ISME Journal, doi: 10.1038/s41396-018-0285-8 Access
39. Diaz J.M., Holland A., Sanders J.G., Bulski K., Mollett D., Chou C-W., Phillips D., Tang Y., and S. Duhamel. 2018. Dissolved organic phosphorus utilization by phytoplankton reveals preferential degradation of polyphosphates over phosphomonoesters. Frontiers in Marine Sciences, 5, 380, doi: 10.3389/fmars.2018.00380. Open access
38. Dupouy C., Frouin R., Tedetti M., Maillard M., Rodier M., Lombard F., Guidi L., Picheral M., Duhamel S., Charrière B., and R. Sempéré. 2018. Diazotrophic Trichodesmium impact on UV–Vis radiance and pigment composition in the western tropical South Pacific. Biogeosciences 15, 5249–5269, doi: 10.5194/bg-15-5249-2018. Open access
37. Bock N.A., Van Wambeke F., Dion M., and S. Duhamel. 2018. Microbial community structure in the western tropical South Pacific. Biogeosciences, 15, 3909-3925, doi:10.5194/bg-15-3909-2018. Open access
36. Björkman K.M., S. Duhamel, M.J. Church and D.M. Karl. 2018. Spatial and Temporal Dynamics of Inorganic Phosphate and Adenosine-5’-Triphosphate in the North Pacific Ocean. Frontiers in Marine Science 5 (235). doi: 10.3389/fmars.2018.00235. Open access
35. Van Wambeke F., Gimenez A., Duhamel S., Dupouy C., Lefevre D., Pujo-Pay M., and T. Moutin. 2018. Dynamics and controls of heterotrophic prokaryotic production in the western tropical South Pacific Ocean: links with diazotrophic and photosynthetic activity. Biogeosciences 15, 2669–2689, doi: 10.5194/bg-15-2669-2018. Open access
34. Benavides M., Shoemaker K.M., Moisander P.H., Niggemann J., Dittmar T., Duhamel S., Grosso O., Pujo-Pay M., Hélias-Nunige S., and S. Bonnet. 2018. Aphotic N2 fixation along an oligotrophic to ultraoligotrophic transect in the Western Tropical South Pacific Ocean. Biogeosciences 15, 3107–3119, doi: 10.5194/bg-15-3107-2018. Open access
33. Duhamel S., Van Wambeke F., Lefevre D., Benavides M., Bonnet S., and T. Moutin. Mixotrophic metabolism by natural communities of unicellular cyanobacteria in the western tropical South Pacific Ocean. Environmental Microbiology 20(8), 2743–2756, doi:10.1111/1462-2920.14111. Access
32. Rousselet L., de Verneil A., Doglioli A.M., Petrenko A.A., Duhamel S., Maes C., and B. Blanke. Large- to submesoscale surface circulation and its implications on biogeochemical/biological horizontal distributions during the OUTPACE cruise (southwest Pacific). Biogeosciences, 15, 2411–2431, doi: 10.5194/bg-15-2411-2018. Open access
31. Duhamel S., Björkman K.M., Repeta D.J. and D.M. Karl. Phosphorus dynamics in biogeochemically distinct regions of the southeast subtropical Pacific Ocean. Progress in Oceanography, 151, 261–274, doi: 10.1016/j.pocean.2016.12.007. Open access
30. Benavides M., Berthelot H., Raimbault P., Duhamel S., S. Bonnet. 2017. Dissolved organic matter uptake by Trichodesmium in the Southwest Pacific. Nature Scientific Reports, 7, 41315
29. Duhamel S., Nogaro G., and A.D. Steinman. 2017. Effects of water level fluctuation and sediment–water nutrient exchange on phosphorus biogeochemistry in two Great Lakes coastal wetlands. Aquatic Sciences. 1-16, doi: 10.1007/s00027-016-0479-y
28. Kim E., Sprung B., Duhamel S., Filardi C., M.K. Shin. 2016. Oligotrophic lagoons of the South Pacific Ocean are home to a surprising number of novel eukaryotic microorganisms. Environmental Microbiology, 18(12), 4549–4563. doi: 10.1111/1462-2920.13523.
27. Rii Y.M, S. Duhamel, R.R. Bidigare, D.M. Karl, D. Repeta, M.J. Church. 2016. Diversity and productivity of photosynthetic picoeukaryotes in biogeochemically distinct regions of the South East Pacific Ocean. Limnology and Oceanography, 61:806–824, doi:10.1002/lno.10255. Open access
26. Popendorf K., and S. Duhamel. Variable phosphorus uptake rates and allocation across microbial groups in the oligotrophic Gulf of Mexico. Submitted to Environmental Microbiology, 17(10): 3992–4006. doi: 10.1111/1462-2920.12932. Open Access
25. Duhamel S., Björkman K.M., Doggett J.K., and D.M. Karl. 2014. Microbial response to enhanced phosphorus cycling in the North Pacific Subtropical Gyre. Marine Ecology Progress Series, 504: 43–58, doi: 10.3354/meps10757. Open Access
24. Sharma A.K., Becker J.W., Ottesen E.A., Bryant J.A., Duhamel S., Karl D.M., Cordero O.X., Repeta D.J. and E.F. DeLong. 2013. Distinct dissolved organic matter sources induce rapid transcriptional responses in coexisting populations of Prochlorococcus, Pelagibacter and the OM60 Clade. Environmental Microbiology, doi: 10.1111/1462-2920.12254. Access
23. Duhamel S., Björkman K.M., and D.M. Karl. 2012. Light dependence of phosphorus uptake by microorganisms in the North and South Pacific subtropical gyres. Aquatic Microbial Ecology, doi: 10.3354/ame01593. Open access
22. Björkman K.M., Duhamel S., and D.M. Karl. 2012. Microbial group specific uptake kinetics of inorganic phosphate and adenosine-5’-triphosphate (ATP) in the North Pacific Subtropical Gyre. Frontiers in Microbiology 3(189):1-17. Open access
21. Guidi, L., Calil P. H. R., Duhamel S., Björkman K. M., Doney S. C., Jackson G. A., Li B., Church M. J., Tozzi S., Kolber Z. S., Richards K. J., Fong A. A., Letelier R. M., Gorsky G., Stemman L., and D. M. Karl. 2012. Does eddy-eddy interaction control surface phytoplankton distribution and carbon export in the North Pacific Subtropical Gyre? Journal of Geophysical Research, 117, G02024, doi:10.1029/2012JG001984. Open access
20. Talarmin A., Van Wambeke F., Duhamel S., Catala P., Moutin T., and P. Lebaron, 2011. Improved methodology to measure taxon-specific phosphate uptake in live and unfiltered samples. Limnology and Oceanography: Methods 9, 443-453. Open access
19. Duhamel S., Björkman K.M., Van Wambeke F., Moutin T., and D.M. Karl, 2011. Characterization of alkaline phosphatase activity in the North and South Pacific subtropical gyres: implication for the phosphorus cycle. Limnology and Oceanography 56, 1244-1254. Open access
18. Duhamel S., Dyhrman S.T., and D.M. Karl, 2010. Alkaline phosphatase activity and regulation in the North Pacific Subtropical Gyre. Limnology and Oceanography, 55(3), 1414–1425. Open access
17. Van Wambeke F., Tedetti M., Duhamel S., and R. Sempéré, 2009. Diel variability of heterotrophic bacterial production and underwater UV doses in the eastern South Pacific. Marine Ecology Progress Series 387, 97–108. DOI: 10.3354/meps08075. Access
16. Duhamel S., Gregori G., Van Wambeke F., and J. Nedoma, 2009. Detection of extracellular phosphatase activity of heterotrophic prokaryotes at the single cell level by flow cytometry. Current Protocols in Cytometry 11.18. DOI: 10.1002/0471142956.cy1118s49. Access
15. Duhamel S., Gregori G., Van Wambeke F., and J. Nedoma, 2009. Detection of extracellular phosphatase activity at the single cell level by enzyme-labelled fluorescence and flow cytometry: the importance of time kinetics in ELFA labelling. Cytometry: Part A 75A, 163-168. DOI: 10.1002/cyto.a.20686. Open access
14. Duhamel S., and T. Moutin, 2008. C and P incorporation rates of microbial assemblages in contrasting environments in the Southeast Pacific. Marine Ecology Progress Series 375, 53-64. DOI: 10.3354/meps07765MEPS. Open access
13. Duhamel S., Gregori G., Van Wambeke F., Mauriac R., and J. Nedoma, 2008. A method for analysing phosphatase activity in aquatic bacteria at the single cell level using flow cytometry. Journal of Microbiological Methods 75, 269–278. DOI:10.1016/j.mimet.2008.1006.1018. Access
12. Van Wambeke F., Nedoma J., Duhamel S., and P. Lebaron, 2008. Alkaline phosphatase activity of marine bacteria studied with ELF97 phosphate: Success and limits in P-limited Mediterranean Sea. Aquatic Microbial Ecology 52, 245–251. DOI: 10.3354/ame01238. Access
11. Van Wambeke F., Obernosterer I., Moutin T., Duhamel S., Ulloa O. and H. Claustre. 2008. Heterotrophic prokaryotic production in the South East Pacific: longitudinal trends and coupling with primary production. Biogeosciences 5, 157-169. Open access
10. Van Mooy B., Moutin T., Duhamel S., and F. Van wambeke, 2008. Phospholipids synthesis rates in the eastern subtropical South Pacific Ocean. Biogeosciences 5, 133-139. Open access
9. Moutin T., Karl D.M., Duhamel S., Rimmelin P., Raimbault P., Van Mooy B., 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. Open access
8. Duhamel S., Moutin T., Van Mooy B., Van Wambeke F., and H. Claustre, 2007. Growth and specific P-uptake rates of bacterial and phytoplanktonic communities in the Southeast Pacific (BIOSOPE cruise). Biogeosciences 4, 941-956. Open access
7. Nedoma J., Van Wambeke F., Strojsova A., Strojsova M., and S. Duhamel, 2007. Affinity of extracellular phosphatases for ELF 97 phosphate in aquatic environments. Marine and Freshwater Research 58(5), 454–460. Access
6. Duhamel S., Zeman F., and T. Moutin, 2006. A dual-labeling method for the simultaneous measurement of dissolved inorganic carbon and phosphate uptake by marine planktonic species. Limnology and Oceanography: Methods 4, 416-425. Open access
5. Personnic S., Duhamel S., Bettarel Y., Sime-Ngando T., and S. Jacquet, 2006. Les virus planctoniques : un compartiment biologique clef des milieux aquatiques, Le Courrier de l'Environnement de l'INRA 53, 19-34. Access
4. Duhamel, S., Personnic S., Domaizon I., and S. Jacquet, 2006. Assessing the microbial community dynamics and the role of bacteriophages as mortality agents in Lake Geneva. Journal of water science 19(2), 115-126. Open access
3. Duhamel S., and S. Jacquet, 2005. Flow cytometric analysis of viruses in lake sediments. Journal of Microbiological Methods 64(3), 316-332. Access
2. Jacquet S., Domaizon I., Personnic S., Pradeep-Ram A.S., Heldal M., Duhamel S., and T. Sime-Ngando, 2005. Estimates of protozoan and virus-mediated mortality of bacterioplankton in Lake Bourget (France). Freshwater Biology 50, 627-645. Access
1. Duhamel, S., Personnic S. et S. Jacquet, 2005. Importance des virus en milieu lacustre. INRA mensuel 122, 8-9. Access
Book Chapters
5. Cade-Menun, B.J., R.J. Dodd, S. Duhamel, C. Lønborg, C.T Parsons, and R. Shinohara. 2023. Editorial: Phosphorus Along the Soil-Freshwater-Ocean Continuum II. Frontiers in Marine Science. Edited by: Eric Pieter Achterberg. E-book 10:1166111. doi: 10.3389/fmars.2023.1166111
4. IOCCG Protocol Series (2022). Aquatic Primary Productivity Field Protocols for Satellite Validation and Model Synthesis. Balch W.M., Carranza M., Cetinic I., Chaves J.E., Duhamel S., Fassbender A., Fernandez-Carrera A., Ferrón S., García-Martín E., Goes J., Gomes H., Gundersen K., Halsey K., Hirawake T., Isada T., Juranek L., Kulk G., Langdon C., Letelier R., López-Sandoval D., Mannino A., Marra J., Neale P., Nicholson D., Silsbe G., Stanley R., Vandermeulen R.A. IOCCG Ocean Optics and Biogeochemistry Protocols for Satellite Ocean Colour Sensor Validation, Volume 7.0, edited by R.A. Vandermeulen, J. E. Chaves, IOCCG, Dartmouth, NS, Canada. doi:http://dx.doi.org/10.25607/OBP-1835
3. Cade-Menun, B., S. Duhamel, R. Dodds, C. Lonborg, C.T. Parsons, and W.D. Taylor. 2019. Editorial: Phosphorus Along the Soil-Freshwater-Ocean Continuum. Frontiers in Marine Science, section Marine Biogeochemistry. Edited by: Eric Pieter Achterberg. E-book. Volume 6, issue 28.
2. Steinman A.D., and S. Duhamel. 2017. Phosphorus Limitation, Uptake, and Turnover in Benthic Stream Algae. Methods in Stream Ecology (Third Edition). Academic Press. pp 197-218.
1. Grégori, G., M. Denis, S. Duhamel, and F. Wambeke. 2011. Analysis of Phosphatase Activity from Aquatic Heterotrophic Bacteria at the Single Cell Level by Flow Cytometry: Example of a Development Achieved in the Regional Flow Cytometry Platform for Microbiology (Precym) Hosted by the Oceanology Center of Marseille, p. 255-258. In H.-J. Ceccaldi, I. Dekeyser, M. Girault and G. Stora [eds.], Global Change: Mankind-Marine Environment Interactions. Springer Netherlands. DOI: 10.1007/978-90-481-8630-3_44