Publications

Accepted

Catherine Fiset, Andrew J. Irwin, Zoe V. Finkel (2019), The macromolecular composition of non-calcified marine microalgae, Journal of Phycology, doi: 10.1111/jpy.12913


Under Review

Ignacio-Espinoza, J. Cesar, Nathan A. Ahlgren, and Jed A. Fuhrman. Long-term stability, seasonality, and Red Queen-like strain dynamics in marine viruses. Nature Microbiology

Inomura, K. A-W. Omta, D. Talmy, J. Bragg, C. Deutsch, and M.J. Follows, Growth rate and elemental stoichiometry of phytoplankton governed by macromolecular allocation

Mutshinda, C.M., Finkel, Z.V., Widdicombe, C.E. & Irwin, A.J. Bayesian inference to partition determinants of community dynamics. Ecological Modelling

François Ribalet, Chris Bertiaume, Annette Hynes, Jarred Swalwell, Michael Carlson,  Sophie Clayton, Gwenn Hennon, Camille Poirier, Eric Shimabukuro, Angelicque White, E. Virginia Armbrust, SeaFlow data 1.0: high-resolution abundance, size and biomass of small phytoplankton in the North Pacific. Scientific Data


Submitted

Casey, J., K. Bjorkman, S. Ferron, D. Karl. Size dependence of physiology and metabolism within marine picoplankton populations. Submitted to Limnology and Oceanography.

Dutkiewicz, S., P. Cermeno, O. Jahn, M.J. Follows, A. Hickman, D. Taniguichi, B.A. Ward (2019), Dimensions of phytoplankton diversity, doi: 10.5194/bg-2019-311. Submitted to Biogeosciences.

Inomura, K., A-W. Omta, D. Talmy, J. Bragg, C. Deutsch, and  M.J. Follows. Growth rate and elemental stoichiometry of phytoplankton governed by macromolecular allocation. Submitted to ISMEj.

Jones et al (2019a), Heat distribution in the Southeast Pacific is only weakly sensitive to high-latitude heat flux and wind stress [Forget]

Jones et al (2019b), The sensitivity of Southeast Pacific heat distribution to local and remote changes in ocean properties [Forget]

Juranek, L.W., A.E. White, M. Dugenne, S. Dutkiewicz, S. Ferron, and D. Karl. The importance of the “middle class” to oceanic net community production. Submitted to Nature Geosciences.

Mutshinda C.M., Irwin A.J. & Sillanpää M.J. A Bayesian framework for robust quantitative trait locus mapping and outlier detection. Submitted to International Journal of Biostatistics.

Omta, A.W., Talmy, D., Inomura, K., Irwin, A.J., Finkel, Z.V., Sher, D., Liefer, J.D., and Follows, M.J., Quantifying nutrient throughput and DOM production by algae in continuous culture.

Sonnewald, M., S. DutkiewiczC.N. HillG. Forget. Elucidating Ecological Complexity: Unsupervised Learning determines global marine eco-provinces. Submitted to Science Advances


In Preparation

Dutkiewicz, S., Boyd, P., and U. Riebesell. Biogeochemical and ecological redundancy in phytoplankton communities.

Follett, C.L., S. DutkiewiczG. Forget, B.B. Cael, M.J. Follows. Moving ecological and biogeochemical transitions across the North Pacific.

Juranek, L.W., A.E. White, M. Dugenne, S. Dutkiewicz, S. Ferron, and D. Karl, The importance of the “middle class” to oceanic net community production.

Losa, S.N., S. Dutkiewicz, M. Losch, J. Oelker, M.A. Soppa, S. Trimborn, H. Xi, and A. Bracher. On Modeling the Southern Ocean Phytoplankton Functional Types.

Jann Paul Mattern,  Christopher A. Edwards , Christopher N. Hill, Dual number-based variational data assimilation: Constructing exact tangent linear and adjoint code from nonlinear model evaluations.

Mutshinda. C.M.Finkel, Z.V., Widdicombe, C.E. & Irwin, A.J. A trait-based taxonomy for phytoplankton biomass modeling and prediction.

Mutshinda, C.M., Finkel, Z.V., Widdicombe, C.E. & Irwin, A.J. Bayesian integration of alternative modes of resource co-limitation to population growth.

Ribalet, F.S. Dutkiewicz, J. Casey, G. Armbrust. Nutrient and temperature control of Prochlorococcus growth rates.


Published

2019

Braakman, R (2019), Evolution of cellular metabolism and the rise of a globally productive biosphere, Free Radical  Biology and Medicine, doi: 10.1016/j.freeadbiomed.2019.05.004

Robert J.W. Brewin, Stefano Ciavatta, Shubha Sathyendranath, Jozef Skákala, Jorn Bruggeman, David Ford, and Trevor Platt (2019), The Influence of Temperature and Community Structure on Light Absorption by Phytoplankton in the North Atlantic, Sensors, doi: 10.3390/s19194182

Forget, G. and D. Ferreira (2019), Global ocean heat transport dominated by heat export from the tropical Pacific, Nature Geoscience, doi: 10.1038/s41561-019-0333-7 – view paper @ https://rdcu.be/bue5V

Frawley T.H., D.K. Briscoe, P.C. Daniel, G.L. Britten, L.B. Crowder, C.J. Robinson, W.F. Gilly (2019),  Impacts of a transition to tropical oceanic conditions on Gulf of California Jumbo Squid Dosidicus gigas, ICES Journal of Marine Science, doi: 10.1093/icesjms/fsz133

Liefer, J.D., A. Garg, M.H. Fyfe, A.J. Irwin, I. Benner, C.M. Brown, M.J. Follows, A.W. Omta, Z.V. Finkel (2019), The macromolecular basis of phytoplankton C:N:P under nitrogen starvation, Frontiers in Microbiology, doi: 10.3389/fmicb.2019.00763

Heimbach P., Fukumori, I., Hill C.N., Ponte R., Stammer D., Wunsch C., Campin J-M., Cornuelle B., Fenty I., Forget G,  Köhl A., Mazloff M., Menemenlis D., Nguyen A., Piecuch C., Trossman D., Verdy A., Wang O., Zhang H. (2019), Putting It All Together: Adding Value to the Global Ocean and Climate Observing Systems With Complete Self-Consistent Ocean State and Parameter EstimatesFrontiers in Marine Science, doi: 10.3389/fmars.2019.00055

Inomura, K., J. Bragg, L. Riemann, and M.J. Follows (2108), A mechanistic model of nitrogen fixation in the presence of ammoniumPLoS Computational Biology, doi: 10.1371/journal.pone.0208282

Jozef I. Nissimov, David Talmy, Liti Haramaty, Helen F. Fredricks , Ehud Zelzion, Ben Knowles, A. Murat Eren , Rebecca Vandzura, Christien P. Laber, Brittany M. Schieler, Christopher T. Johns, Kuldeep D. More, Marco J. L. Coolen, Michael J. Follows, Debashish Bhattacharya, Benjamin A. S. Van Mooy, and Kay D. Bidle (2019), Biochemical diversity of glycosphingolipid biosynthesis as a driver of Coccolithovirus competitive ecology, Environmental Microbiology, doi: 10.1111/1462-2920.14633

Memarzadeh, M, G.L. Britten, B. Worm, C. Boettiger (2019), Rebuilding global fisheries under uncertainty, Proceedings of the National Academy of Sciences, doi: 10.1073/pnas.1902657116

Roemmich, et al. On the future of Argo: An enhanced global array of physical and biogeochemical sensing floatsFrontiers in Marine Science, doi: 10.3389/fmars.2019.00439 [Forget]

Salgado-Hernanz, P.M., M.-F. Racault, J.S. Font-Muñoz, G. Basterretxea (2019), Trends in phytoplankton phenology in the Mediterranean Sea based on ocean-colour remote sensingRemote Sensing of Environment, doi: 10.1016/j.rse.2018.10.036

Andrea Storto, Aida Alvera-Azcárate, Magdalena A. Balmaseda, Alexander Barth, Matthieu Chevallier, Francois Counillon, Catia M. Domingues, Marie Drevillon, Yann Drillet, Gaël Forget, Gilles Garric, Keith Haines, Fabrice Hernandez, Doroteaciro Iovino, Laura C. Jackson, Jean-Michel Lellouche, Simona Masina, Michael Mayer, Peter R. Oke, Stephen G. Penny, K. Andrew Peterson, Chunxue Yang and Hao Zuo (2019), Ocean Reanalyses: Recent Advances and Unsolved ChallengesFrontiers of Marine Science, doi: 10.3389/fmars.2019.00418

David Talmy, Stephen J. Beckett, Darcy A.A. Taniguchi, Corina P.D. Brussard, Joshua S. Weitz, and Michael J. Follows (2019), An empirical model of carbon flow through marine viruses and microzooplankton grazers, Environmental Microbiology, doi: 10.1111/1462-2920.14626

Wagner, C.C, H.M. Amos, C.P. Thackray, Y. Zhang, E.W. Lundgren, G. Forget, C.L. Friedman, N.E. Selin, R. Lohmann, E.M. Sunderland (2019), A global 3‐D ocean model for polychlorinated biphenyls (PCBs): Benchmark compounds for understanding the impacts of global change on neutral persistent organic pollutants, Global Biogeochemical Cycles, doi: 10.1029/2018GB006018

Frajka-Williams, et al. (2019), Atlantic Meridional Overturning Circulation: Observed transports and variability, Frontiers in Marine Science [Forget]

2018

Ajani, P.A., N. McGinty, Z.V. Finkel, and A.J. Irwin (2018), Phytoplankton realized niches track changing oceanic conditions at a long-term coastal station off Sydney AustraliaFrontiers in Marine Science, 5: 285, doi: 10.3389/fmars.2018.00285

Amrhein, D.E., C. Wunsch, O. Marchal, G. Forget (2018), A global glacial ocean state estimate constrained by upper-ocean temperature proxies, Journal of Climate, doi: 10.1175/JCLI-D-17-0769.1

Bouman, H.A., T. Platt, M. Doblin, M., M.G. Figueiras, K. Gudmundsson, H.G. Gudfinnsson, B. Huang, A. Hickman, M. Hiscock, T. Jackson, V.A. Lutz, F. Mélin, F. Rey, P. Pepin, V. Segura, G.H. Tilstone, V. van Dongen-Vogels, S. Sathyendranath (2018), Photosynthesis–irradiance parameters of marine phytoplankton: synthesis of a global data setEarth System Science Data, doi: 10.5194/essd-10-251-2018

Cael, B.B., M.C.G. Carlson, C.L. Follett, and M.J. Follows (2018), Marine virus-like particles and microbes: a linear interpretation, Frontiers in Microbiology, doi: 10.3389/fmicb.2018.00358

Cael, B.B., K. Bisson, and C. L. Follett (2018), Can ocean primary production and biological carbon export be related through their probability distributions? Global Biogeochemical Cycles, doi: 10.1029/2017GB005797

Follett, C.L., A.E. White, S.T. Wilson, M.J. Follows (2018), Nitrogen Fixation Rates Diagnosed from Diurnal Changes in Elemental Stoichiometry, Limnology and Oceanography dot: 10.1002/lno.10815

Inomura, K., J. Bragg, L. Riemann, and M.J. Follows (2108), A mechanistic model of nitrogen fixation in the presence of ammoniumPLoS Computational Biology, doi: 10.1371/journal.pone.0208282

Jones, D.C., G. Forget, B. Sinha, S.A. Josey, E.J.D. Boland, A.J.S Meijers and E. Shuckburgh (2018), Local and remote influences on the heat content of the Labrador Sea: An adjoint sensitivity study, Journal of Geophysical Research: Oceans, 123, 2646‐2667, doi: 10.1002/2018JC013774

Kovac, Ž., T. Platt, S. Sathyendranath and S. Lomas (2018), Extraction of photosynthesis parameters from time series measurements of in situ production: Bermuda Atlantic Time-Series Study Remote Sensing, Remote Sensing, doi: 10.3390/rs10060915

Mattern, J.P. and C.A. Edwards (2018), A simple difference quotient-based approximation for biogeochemical tangent linear and adjoint modelsJournal of Geophysical Research – Oceans, doi: 10.1029/2018JC014283

McGinty, N., A.D. Barton, N.R. Record, Z.V. Finkel, A.J. Irwin (2018), Traits structure copepod niches in the North Atlantic and Southern Ocean, Marine Ecology Progress Series, doi: 10.3354/meps12660

Strobach, E., A. Molod, G. Forget, J-M. Campin, C. Hill, D. Menemenlis, P. Heimbach (2018), Consequences of different air-sea feedbacks on ocean using MITgcm and MERRA-2 forcing: Implications for Coupled Data Assimilation Systems, Ocean Modelling, doi: 10.1016/j.ocemod.2018.10.006

Vallino, J.J. and J.A. Huber (2018),  Using maximum entropy production to describe microbial biogeochemistry over time and space in a meromictic pond, Frontiers in Environmental Science, doi: 10.3389/fenvs.2018.00100

2017

Jackson, T, S. Sathyendranath, T. Platt (2017), An exact solution for modelling photoacclimation of the carbon-to-chlorophyll ratio in Phytoplankton, Frontiers in Marine Science, doi: 10.3389/fmars.2017.00283

Platt, T, S. Sathyendranath, G.N. White III, T. Jackson, S. Saux-Picart, H. Bouman (2017), Phytoplankton production as archived data: sensitivity to surface irradianceFrontiers in Marine Science, doi: 10.3389/fmars.2017.00387

CBIOMES members in bold.


 

CBIOMES members: per Simons Foundation policy publications resulting from projects supported by the Simons Foundation are required to carry a specifically worded acknowledgment.

For CBIOMES that language is:

“This work was supported by the Simons Collaboration on Computational Biogeochemical Modeling of Marine Ecosystems/CBIOMES) (Grant Id: XXXXX, Awardee Initials).”