Track Record

2017

Adams K, Hosegood P, Taylor J, Sallee J-B, Bachman S, Torres R, Stamper M. 2017. Frontal Circulation and Submesoscale Variability during the Formation of a Southern Ocean Mesoscale Eddy. American Meteorological Society. doi.org/10.1175/JPO-D-16-0266.1

Aldridge JN, Lessin G, Amoudry LO, Hicks N, Hull T, Klar JK, Kitidis V, McNeill CL, Ingels J, Parker ER, Silburn B, Silva T, Sivyer DB, Smith HEK, Widdicombe S. 2017. Comparing benthic biogeochemistry at a sandy and a muddy site in the Celtic Sea using a model and observations. Biogeochemistry. 135: 155. 10.1007/s10533-017-0367-0

Alendal G, Blackford J, Chen B, Avlesen H, Omar A. 2017. Using Bayes Theorem to Quantify and Reduce Uncertainties when Monitoring Varying Marine Environments for Indications of a Leak. Energy Procedia,  pp. 3607-3612. 10.1016/j.egypro.2017.03.1492

Barange M, Butenschön M, Yool A, Beaumont N, Fernandes JA, Adrian MP, Allen JI. 2017. The Cost of Reducing the North Atlantic Ocean Biological Carbon Pump, Frontiers in Marine Science, 3. 290. 10.3389/fmars.2016.00290

Blackford J, Artioli Y, Clark J, de Mora L. 2017. Monitoring of offshore geological carbon storage integrity: implications of natural variability in the marine system and the assessment of anomaly detection criteria. International Journal of Greenhouse Gas Control. 64, 99-112. 10.1016/j.iggc.2017.06.020

Brewin R, de Mora L, Billson O, Jackson T, Russell P, Brewin T, Shutler J, Miller P, Taylor B, Smyth T, Fishwick J. 2017. Evaluating operational AVHRR sea surface temperature data at the coastline using surfers. Estuarine, Coastal and Shelf Science, Volume 196, 5 September 2017, Pages 276-289. 10.1016/j.ecss.2017.07.011

Brewin RJ, Ciavatta S, Sathyendranath S, Jackson T, Tilstone G, Curran K, Airs RL, Cummings D, Brotas V, Organelli E, Dall'Olmo G. 2017. Uncertainty in Ocean-Color Estimates of Chlorophyll for Phytoplankton Groups. Frontiers in Marine Science, 4, p.104. 10.3389/fmars.2017.00104

Calosi P, Melatunan S, Turner, LM, Artioli Y, Davidson RL, Byrne JJ, Viant MR, Widdicombe S, Rundle SD. 2017. Regional adaptation defines sensitivity to future ocean acidification. Nature Communications, 8. 13994. 10.1038/ncomms13994

Gilcoto M, Largier JL, Barton ED, Piedracoba S, Torres R, Graña R, Alonso-Pérez F, Villacieros-Robineau N, de la Granda F. 2017. Rapid response to coastal upwelling in a semienclosed bay, Geophys. Res. Lett., 44, 2388–2397, 10.1002/2016GL072416

Hosegood PJ, Nightingale PD, Rees AP,  Widdicombe CE, Woodward EMS, Clark DR, Torres RJ. 2017. Nutrient Pumping by Submesoscale Circulations in the Mauritanian Upwelling System. Progress in Oceanography. 10.1016/j.pocean.2017.10.004

McClelland HLO, Bruggeman J, Hermoso M, Rickaby REM. 2017. The origin of carbon isotope vital effects in coccolith calcite. Nature Communications 8: 14511. 10.1038/ncomms14511

Yakushev EV, Protsenko EA, Bruggeman J, Wallhead P, Pakhomova SV, Yakubov SK, Bellerby RGJ, Couture R-M. 2017. Bottom RedOx Model (BROM v.1.1): a coupled benthic–pelagic model for simulation of water and sediment biogeochemistry. Geosci. Model Dev. 10.5194/gmd-10-453-2017 

2016

Aiken J, Brewin RJW, Dufois S, Polimene L, et al. 2016. A synthesis of the environmental response of the North and South Atlantic Sub-Tropical Gyres during two decades of AMT. Progress in Oceanography. DOI: 10.1016/j.pocean.2016.08.004

Barton ED, Torres R, Figueiras FG, Gilcoto, M, Largier J 2016. Surface water subduction during a downwelling event in a semi-enclosed bay. Journal of Geophysical Research-Oceans. 10.1002/2016JC011950 (In Press) 

Beaulieu C, Cole H, Henson S, Yool A, Anderson T, de Mora L, Buitenhuis ET, Butenschon M, Totterdell, IJ, Allen JI. 2016. Marine regime shifts in ocean biogeochemical models: a case study in the Gulf of Alaska. Biogeosciences, 13 (15). 4533-4553. 10.5194/bg-13-4533-2016

Beecham J, Bruggeman J, Aldridge J, Mackinson S. 2016. Couplerlib: a metadata-driven library for the integration of multiple models of higher and lower trophic level marine systems with inexact functional group matching, Geosci. Model Dev., 9, 947-964, doi:10.5194/gmd-9-947-2016, 2016.

Butenschon M, Clark JR, Aldridge JN, Allen JI, Artioli Y, Blackford JC, Bruggeman J, Cazenave P, Ciavatta S, Kay S, Lessin G, van Leeuwen S, Van der Molen J, de Mora L, Polimene L, Sailley SF, Stephens N, Torres R. 2016. ERSEM 15.06: a generic model for marine biogeochemistry and the ecosystem dynamics of the lower trophic levels. Geoscientific Model Development, 9 (4). 1293-1339. DOI: 10.5194/gmd-9-1293-2016 

Cazenave PW, Torres R, Allen JI. 2016. Unstructured grid modelling of offshore wind farm impacts on seasonally stratified shelf seas, Progress in Oceanography, Volume 145, Pages 25-41, ISSN 0079-6611, http://dx.doi.org/10.1016/j.pocean.2016.04.004.

Ciavatta SKay S, Saux-Picart S, Butenschon MAllen JI. 2016. Decadal reanalysis of biogeochemical indicator and fluxes in the North West European shelf-sea ecosystem, Journal of Geophysical Research - Oceans. DOI: 10.1002/2015JC011496

Clark JR, Cole M, Lindeque PK, Fileman E, Blackford JC, Lewis C, Lenton TM and Galloway TS. 2016. Marine microplastic debris: a targeted plan for understanding and quantifying interactions with marine life Frontiers in Ecology and the Environment, 2016, 14, 317-324. DOI: 10.1002/fee.1297

Cole M, Lindeque PK, Fileman E, Clark JR, Lewis C, Halsband C, Galloway TS. 2016. Microplastics Alter the Properties and Sinking Rates of Zooplankton Faecal Pellets. Environmental Science & Technology. DOI: 10.1021/acs.est.5b05905

Cormier r, Kelble CR, Robin Anderson M, Allen JI, Grehan A, Gregersen O. 2016. Moving from ecosystem-based policy objectives to operational implementation of ecosystem-based management measures.  ICES Journal of Marine Science DOI: 10.1093/icesjms/fsw181

Dall’Olmo G, Dingle J, Polimene L, Brewin RJW, Claustre H. 2016. Substantial energy input to the mesopelagic ecosystem from the seasonal mixed-layer pump. Nature Geoscience: DOI: 10.1038/NGEO2818

de Mora L, Butenschön M and Allen JI. 2016. The assessment of a global marine ecosystem model on the basis of emergent properties and ecosystem function: a case study with ERSEM, Geosci. Model Dev., 9, 59-76, DOI:10.5194/gmd-9-59-2016.

Fernandes JA, Papathanasopoulou E, Hattam C, Queirós AM, Cheung W, Yool A, Artioli Y,  Pope EC, Flynn KJ, Merino G, Calosi P, Beaumont N, Austen MC, Widdicombe S and Barange M. 2016. Estimating the ecological, economic and social impacts of ocean acidification and warming on UK fisheries. Fish and Fisheries: in press doi:10.1111/faf.12183

Goolsby EW, Bruggeman J, Rphylopars AC . 2016. fast multivariate phylogenetic comparative methods for missing data and within-species variation. Methods Ecol. Evol. doi:10.1111/2041-210X.12612.

Groeneveld RA, Bosello F, Butenschön M, Elliott M, Peck MA, Pinnegar JK. 2016. Defining scenarios of future vectors of change in marine life and associated economic sectors. Estuarine, Coastal and Shelf Science. DOI:10.1016/j.ecss.2015.10.020

Hellweger FL, Clegg RJ, Clark JR, Plugge CM and Kreft J-U. 2016. Advancing microbial sciences by individual-based modelling Nat. Rev. Micro., 2016, 14, 461-471 DOI:10.1038/nrmicro.2016.62

Holland RA, Scott K, Hinton ED, Austen MC, Barrett J, Beaumont, NJ, Blaber-Wegg T, Brown, G, Carter-Silk E, Cazenave P, Eigenbrod F, Hiscock K, Hooper TL, Lovett A, Papathanasopoulou E, Smith P, Thomas A, Tickner R, Torres R, Taylor G. 2016. Bridging the gap between energy and the environment. Energy Policy. DOI: 10.1016/j.enpol.2016.01.037

Holt J, Schrum C, Cannaby H, Daewel U, Allen JIArtioli Y, Bopp L, Butenschon M, Fach BA, Harle J, Pushpadas D, Salihoglu B, Wakelin S. 2016.  Potential impacts of climate change on the primary production of regional seas: A comparative analysis of five European seas. Progress in Oceanography, 140. 91-115. DOI: 10.1016/j.pocean.2015.11.004 

Hu F, Bolding K, Bruggeman J, Jeppesen E, Flindt MR, van Gerven L, Janse JH, Janssen ABG, Kuiper JJ, Mooij WM and Trolle D. 2016. FABM-PCLake – linking aquatic ecology with hydrodynamics, Geosci. Model Dev., 9, 2271-2278, DOI:10.5194/gmd-9-2271-2016, 2016.

Kay S, Butenschon M. 2016. Projections of change in key ecosystem indicators for planning and management of marine protected areas: An example study for European seas. Estuarine, Coastal and Shelf Science. DOI: 10.1016/j.ecss.2016.03.003 (In Press)

Le Quéré C, Buitenhuis E, Moriarty R, Séverine A, Aumont O, Bopp L, Chollet S, Enright C, Franklin DJ, Geider RJ, Harrison SP, Hirst A, Larsen S, Legendre L, Platt T, Prentice C, Rivkin R, Sailley S, Sathyendranath S, Stephens N,  Vogt M, Sergio VM. 2016. Role of zooplankton dynamics for Southern Ocean phytoplankton biomass and global biogeochemical cycles. Biogeosciences, 13 (14). 4111-4133. DOI: 10.5194/bg-13-4111-2016

Lessin G, Artioli Y, Queiros AM, Widdicombe S, Blackford JC. 2016. Modelling impacts and recovery in benthic communities exposed to localised high CO2. Marine Pollution Bulletin, 109 (1). 267-280. 10.1016/j.marpolbul.2016.05.071

Mullon C, Steinmetz F, Merino G, Fernandes JA, Cheung WWL, Butenschön M, Barange M. 2016. Quantitative pathways for Northeast Atlantic fisheries based on climate, ecological-economic and governance modelling scenarios. Ecological Modelling 320, 273-291. DOI: 10.1016/j.ecolmodel.2015.09.027

Peck MA, Arvanitidis C, Butenschön M, Canu DM, Chatzinikolaou E, Cucco A, Domenici P, Fernandes JA, Gasche L, Huebert KB, Hufnagl M, Jones MC, Kempf A, Keyl F, Maar M, Mahévas S, Marchal P, Nicolas D, Pinnegar JK, Rivot E, Rochette S, Sell AF, Sinerchia M, Solidoro C, Somerfield PJ, Teal LR, Travers-Trolet M, van de Wolfshaar KE. 2016. Projecting changes in the distribution and productivity of living marine resources: A critical review of the suite of modelling approaches used in the large European project VECTORS. Estuarine, Coastal and Shelf Science. DOI: 10.1016/j.ecss.2016.05.019

Queiros AM, Strong JA, Mazik K, Carstensen J, Bruun J, Somerfield PJ, Bruhn A, Ciavatta A, Chueve R, Nygaard H, Flo E, Bizsel N, Ozaydinli M, Muxika II, Papadopoulou I, Pantazi  M Krause-Jensen D. 2016. An objective framework to test the quality of candidate indicators of good environmental status. Front. Mar. Sci., 26 May 2016. DOI: 10.3389/fmars.2016.00073

She J, Allen JI, Buch E, Crise A, Johannessen JA, Le Traon PY, Lips U, Nolan G, Pinardi N, Reißmann JH, Siddorn J, Stanev W and Wehde H. 2016. Developing European operational oceanography for Blue Growth, climate change adaptation and mitigation and ecosystem-based management. Ocean Science Ocean Sci., 12, 953-976. DOI:10.5194/os-12-953-2016

Skákala J, Cazenave PW, Smyth TJ, Torres R. 2016. Using multifractals to evaluate oceanographic model skill. Journal of Geophysical Research: Oceans. DOI 10.1002/2016JC011741

Waggitt, J., Cazenave, P., Torres, R., Williamson, B., Scott, B. 2016. Quantifying pursuit diving seabirds’ associations with fine-scale physical features in a high tidal energy environment Journal of Applied Ecology DOI: 10.1111/1365-2664.12646

Waggitt JJ, Cazenave PTorres R, Williamson B, Scott B. 2016. Predictable hydrodynamic conditions explain temporal variations in the density of benthic foraging seabirds in a tidal stream environment. ICES Journal of Marine Science. DOI: 10.1093/icesjms/fsw100

Yang M, Bell TG, Hopkins FE, Kitidis V, Cazenave P, Nightingale PD, Yelland MJ, Pascal RW, Prytherch, J, Brooks IM, Smyth TJ. 2016.  Air-sea fluxes of CO2 and CH4 from the Penlee Point Atmospheric Observatory on the south-west coast of the UK. Atmospheric Chemistry and Physics, 16 (9). 5745-5761. DOI: 10.5194/acp-16-5745-2016

2015

Acevedo-Trejos E, Brandt G, Bruggeman J, Merico A (2015). Mechanisms shaping size structure and functional diversity of phytoplankton communities in the ocean. Scientific Reports, 5. 8918. 10.1038/srep08918

Beaulieu C, Cole H, Henson S, Yool A, Anderson TR, de Mora L, Buitenhuis ET, Butenschon M, Totterdell IJ, Allen JI. (2015). Marine regime shifts in ocean biogeochemical models: a case study in the Gulf of Alaska.   Biogeosciences Discussions, 12 (16). 14003-14048. doi.org/10.5194/bgd-12-14003-2015.    

Barnes, MKS; Tilstone, GH; Suggett, DJ; Widdicombe, CE; Bruun, JT; Martinez-Vicente, V; Smyth, TJ. 2015 Temporal variability in total, micro- and nano-phytoplankton primary production at a coastal site in the Western English Channel. Progress in Oceanography, 137. 470-483. 10.1016/j.pocean.2015.04.017

Barton, ED; Largier, JL; Torres, R; Sheridan, M; Trasvina, A; Souza, AJ; Pazos, Y; Valle-Levinson, A. 2015 Coastal upwelling and downwelling forcing of circulation in a semi-enclosed bay: Ria de Vigo. Progress in Oceanography, 134. 173-189. 10.1016/j.pocean.2015.01.014

Blackford, JC; Bull, JM; Cevatoglu, M; Connelly, DP; Hauton, C; James, RH; Lichtschlag, A; Stahl, H; Widdicombe, S; Wright, IC. 2015 Marine baseline and monitoring strategies for carbon dioxide capture and storage (CCS). International Journal of Greenhouse Gas Control, 38. 221-229. 10.1016/j.ijggc.2014.10.004

Blackford J, Stahl H, Kita J, Sato T. 2015. Preface to the QICS special issue. Int J of Greenhouse Gas Control, 38, 1. 10.1016/j.ijggc.2015.03.024

Brewin, RJW; de Mora, L; Jackson, T; Brewin, TG; Shutler, J. 2015 On the Potential of Surfers to Monitor Environmental Indicators in the Coastal Zone. PLoS ONE, 10 (7), e0127706. 22, pp. 10.1371/journal.pone.0127706

Cazenave P, Allen JI, Blackford J, Artioli Y, Torres R, Hawkins A, Morris K. 2015. Risks and Opportunities for Sustainable Aquaculture, Aquaculture 2015 Conference, Montpellier, France.

Cross, J; Nimmo-Smith, WAM; Hosegood, PJ; Torres, R. 2015. The role of advection in the distribution of plankton populations at a moored 1-D coastal observatory. Progress in Oceanography, 137. 342-359. 10.1016/j.pocean.2015.04.016

Ducklow HW, Doney SC, Sailley SF. 2015. Ecological controls on biogeochemical fluxes in the western Antarctic Peninsula studied with an inverse foodweb model.  ADVANCES IN POLAR SCIENCE, 26 (2). 122-139.  doi.org/10.13679/j.advps.2015.2.00122

Fernandes JA, Kay S, Hossain MAR, Ahmed M, Cheung WWL, Lazar AN, Barange M. 2015. Projecting marine fish production and catch potential in Bangladesh in the 21st century under long-term environmental change and management scenarios. ICES J. Mar. Sci. J. Cons. fsv217. DOI:10.1093/icesjms/fsv217

Flynn, KJ; Clark, DR; Mitra, A; Fabian, H; Hansen, PJ; Glibert, PM; Wheeler, GL; Stoecker, DK; Blackford, JC; Brownlee, C. 2015. Ocean acidification with (de)eutrophication will alter future phytoplankton growth and succession.. Proceedings. Biological sciences / The Royal Society, 282 (1804). 20142604. 10.1098/rspb.2014.2604

Garmendia M, Borja A, Breton F, Butenschon M, Marin A, Miller PI, Morisseau F, Xu W. 2015.  Challenges and difficulties in assessing the Environmental Status under the requirements of the Ecosystem Approach in North-African countries, illustrated by eutrophication assessment.   Environmental Monitoring and Assessment, 187 (5). 1-22. doi.org/10.1007/s10661-015-4316-x    

Groeneveld RA, Bosello F, Butenschon M, Elliott M, Peck MA, Pinnegar JK. 2015. Defining scenarios of future vectors of change in marine life and associated economic sectors.   Estuarine, Coastal and Shelf Science.   doi.org/10.1016/j.ecss.2015.10.020

Hyder K, Rossberg AG, Allen JI, Austen MC, Barciela RM, Bannister HJ, Blackwell PG, Blanchard JL, Burrows MT, Defriez E, Dorrington TS, Edwards KP, Garcia-Carreras B, Heath MR, Hembury DJ, Heymans JJ, Holt JT, Houle JE, Jennings S, Mackinson S, Malcolm SJ, McPike R, Mee LD, Mills DK, Montgomery C, Pearson D, Pinnegar JK, Pollicino M, Popova EE, Rae L, Rogers SI, Speirs D, Spence MA, Thorpe R, Turner RK, Van der Molen J, Yool A, Paterson DM. 2015 Making modelling count - increasing the contribution of shelf-seas community and ecosystem models to policy development and management. Marine Policy, 61. 291-302. 10.1016/j.marpol.2015.07.015 

Janssen A, Arhonditsis G, Beusen A, Bolding K, Bruce L, Bruggeman J, Couture R-M, Downing A, Elliot JA, Frassl M, Gal G, Gerla DJ, Hipsey M, Hu F, Ives SC, Janse Jh, Jeppesen E et al. 2015. Exploring, exploiting and evolving diversity of aquatic ecosystem models: a community perspective. Aquatic Ecology, Volume 49, Issue 4, pp 513–548. 10.1007/s10452-015-9544-1 

Jones DG, Beaubien SE, Blackford JC, Foekema, EM, Lions J, De Vittor C, West JM, Widdicombe S, Hauton C, Queiros AM. 2015. Developments since 2005 in understanding potential environmental impacts of CO2 leakage from geological storage. International Journal of Greenhouse Gas Control. 10.1016/j.ijggc.2015.05.032

Kay S, Caesar J, Wolf J, Bricheno L, Nicholls RJ, Saiful Islam AKM, Haque A, Pardaens A, Lowe JA. 2015.  Modelling the increased frequency of extreme sea levels in the Ganges–Brahmaputra–Meghna delta due to sea level rise and other effects of climate change [in special issue: ESPA Deltas]   Environ. Sci.: Processes Impacts, 17 (7). 1311-1322.  doi.org/10.1039/C4EM00683F   

Mabon L, Shackley S, Blackford JC, Stahl H, Miller A. 2015 Local perceptions of the QICS experimental offshore CO2 release: Results from social science research. International Journal of Greenhouse Gas Control, 38. 18-25. 10.1016/j.ijggc.2014.10.022

Marras S, Cucco A, Antognarelli F, Azzurro E, Milazzo M, Bariche M, Butenschon M, Kay S, Di Bitetto M, Quattrocchi G, Sinerchia M, Domenici P. 2015 Predicting future thermal habitat suitability of competing native and invasive fish species: from metabolic scope to oceanographic modelling. Conservation Physiology, 3 (1). cou059-cou059. 10.1093/conphys/cou059

Mullon C, Steinmetz F, Merino G, Fernandes JA, Cheung WWL, Butenschon M, Barange M. 2015. Quantitative pathways for Northeast Atlantic fisheries based on climate, ecological–economic and governance modelling scenarios.   Ecological Modelling, 320. 273-291. doi.org/10.1016/j.ecolmodel.2015.09.027      

Phelps JJC, Blackford JC, Holt JT, Polton JA. 2015 Modelling large-scale CO2 leakages in the North Sea. International Journal of Greenhouse Gas Control, 38. 210-220. 10.1016/j.ijggc.2014.10.013

Pinna A, Pezzolesi L, Pistocchi R, Vanucci S, Ciavatta S, Polimene L. 2015. Modelling the Stoichiometric Regulation of C-Rich Toxins in Marine Dinoflagellates. PLoS ONE 10(9): e0139046. DOI:10.1371/journal.pone.0139046

Polimene L, Mitra A, Sailley SF, Ciavatta S, Widdicombe CE, Atkinson A, Allen JI. 2015. Decrease in diatom palatability contributes to bloom formation in the Western English Channel. Progress in Oceanography, Vol. 137, Part B, 484-497. DOI:10.1016/j.pocean.2015.04.026

Queiros AM, Bruggeman J, Stephens N, Artioli Y, Butenschon M, Blackford JC, Widdicombe S, Allen JI, Somerfield PJ. 2015. Placing biodiversity in ecosystem models without getting lost in translation. Journal of Sea Research. 10.1016/j.seares.2014.10.004

Queiros AM, Fernandes JA, Nunes J, Rastrick S, Mieszkowska N, Artioli Y, Yool A, Calosi P, Arvanitidis C, Findlay HS, Barange M, Cheung W, Widdicombe S. 2015 Scaling up experimental ocean acidification and warming research: from individuals to the ecosystem

Queirós AM, Fernandes JA, Faulwetter S, Nunes J, Rastrick SPS, Mieszkowska N, Artioli Y, Yool A, Calosi P, Arvanitidis C, Findlay HS, Barange M, Cheung WWL and Widdicombe S. 2015. Scaling up experimental ocean acidification and warming research: from individuals to the ecosystem. Global Change Biology 21:130-143. DOI: 10.1111/gcb.12675

Sailley SF, Polimene L, Mitra A, Atkinson A and Allen JI. 2015. Impact of zooplankton food selectivity on plankton dynamics and nutrient cycling. J. Plankton Res. (May/June 2015) 37 (3): 519-529. DOI:10.1093/plankt/fbv020

Saux Picart S, Allen JI, Butenschon M, Artioli Y, de Mora L, Wakelin S, Holt JT. 2015 What can ecosystem models tell us about the risk of eutrophication in the North Sea?. Climatic Change. 10.1007/s10584-014-1071-x

Smyth TJ, Atkinson A, Widdicombe S, Frost MT, Allen JI, Fishwick J, Queiros AM, Sims DW, Barange M. 2015. The Western Channel Observatory. Progress in Oceanography, 137. 335-341. 10.1016/j.pocean.2015.05.020

Tarran GA, Bruun JT. 2015 Nanoplankton and picoplankton in the Western English Channel: abundance and seasonality from 2007–2013 [in special issue: UK Western Channel Observatory] Progress in Oceanography, 137 (Part B), PROOCE1578. 446-455. 10.1016/j.pocean.2015.04.024

Taylor P, Stahl H, Vardy ME, Bull JM, Akhurst M, Hauton C, James RH, Lichtschlag A, Long D, Aleynik D, Toberman M, Naylor M, Connelly DP, Smith D, Sayer MDJ, Widdicombe S, Wright IC, Blackford JC. 2015 A novel sub-seabed CO2 release experiment informing monitoring and impact assessment for geological carbon storage. International Journal of Greenhouse Gas Control, 38. 3-17. 10.1016/j.ijggc.2014.09.007

Villarino E, Chust G, Licandro P, Butenschon M, Ibaibarriaga L, Larrañaga A, Irigoien X. 2015.  Modelling the future biogeography of North Atlantic zooplankton communities in response to climate change.   Marine Ecology Progress Series, 531. 121-142. 10.3354/meps11299

Wakelin SL, Artioli Y, Butenschon M, Allen JI, Holt JT. 2015. Modelling the combined impacts of climate change and direct anthropogenic drivers on the ecosystem of the northwest European continental shelf.   Journal of Marine Systems, 152. 51-63. 10.1016/j.jmarsys.2015.07.006

2014

Artioli, Y; Blackford, JC; Nondal, G; Bellerby, RGJ; Wakelin, SL; Holt, JT; Butenschon, M; Allen, JI. 2014 Heterogeneity of impacts of high CO<sub>2</sub> on the North Western European Shelf. Biogeosciences, 11 (3). 601-612. 10.5194/bg-11-601-2014

Barange, M; Merino, G; Blanchard, JL; Scholtens, J; Harle, J; Allison, EH; Allen, JI; Holt, JT; Jennings, S. 2014 Impacts of climate change on marine ecosystem production in societies dependent on fisheries. Nature Climate Change. 6, pp. 10.1038/NCLIMATE2119

Blackford, JC; Stahl, H; Bull, JM; Bergès, BJP; Cevatoglu, M; Lichtschlag, A; Connelly, DP; James, RH; Kita, J; Long, D; Naylor, M; Shitashima, K; Smith, D; Taylor, P; Wright, I; Akhurst, M; Chen, B; Gernon, TM; Hauton, C; Hayashi, M; Kaieda, H; Leighton, TG; Sato, T; Sayer, MDJ; Suzumura, M; Tait, K; Vardy, ME; White, PR; Widdicombe, S. 2014 Detection and impacts of leakage from sub-seafloor deep geological carbon dioxide storage. Nature Climate Change. 10.1038/nclimate2381

Brown, IJ; Torres, R; Rees, AP. 2014 The origin of sub-surface source waters define the sea-air flux of methane in the Mauritanian Upwelling, NW Africa. Dynamics of Atmospheres and Oceans. 10.1016/j.dynatmoce.2014.06.001

Bruggeman, J; Bolding, K. 2014 A general framework for aquatic biogeochemical models. Environmental Modelling & Software, 61. 249-265. 10.1016/j.envsoft.2014.04.002

Chust, G; Allen, JI; Bopp, L; Schrum, C; Holt, JT; Tsiaras, K; Zavatarelli, M; Chifflet, M; Cannaby, H; Dadou, I; Daewel, U; Wakelin, SL; Machu, E; Pushpadas, D; Butenschon, M; Artioli, Y; Petihakis, G; Smith, C; Garçon, VC; Goubanova, K; Le Vu, B; Fach, BA; Salihoglu, B; Clementi, E; Irigoien, X. 2014 Biomass changes and trophic amplification of plankton in a warmer ocean. Global Change Biology. n/a-n/a. 10.1111/gcb.12562

Ciavatta, S; Torres, R; Martinez-Vicente, V; Smyth, TJ; Dall’Olmo, G; Polimene, L; Allen, JI. 2014 Assimilation of remotely-sensed optical properties to improve marine biogeochemistry modelling. Progress in Oceanography, 127. 74-95. 10.1016/j.pocean.2014.06.002

Cross, J; Nimmo-Smith, WAM; Hosegood, PJ; Torres, R. 2014 The dispersal of phytoplankton populations by enhanced turbulent mixing in a shallow coastal sea. Journal of Marine Systems, 136. 55-64. 10.1016/j.jmarsys.2014.03.009

Daines, SJ; Clark, JR; Lenton, TM. 2014 Multiple environmental controls on phytoplankton growth strategies determine adaptive responses of the N : P ratio. Ecology Letters, 17 (4). 414-425. 10.1111/ele.12239

Glibert, PM; Allen, JI; Artioli, Y; Beusen, A; Bouwman, L; Harle, J; Holmes, R; Holt, JT. 2014 Vulnerability of coastal ecosystems to changes in harmful algal bloom distribution in response to climate change: projections based on model analysis. Global Change Biology. n/a-n/a. 10.1111/gcb.12662

Holt, JT; Allen, JI; Anderson, TR; Brewin, RJW; Butenschon, M; Harle, J; Huse, G; Lehodey, P; Lindemann, C; Memery, L; Salihoglu, B; Senina, I; Yool, A. 2014 Challenges in integrative approaches to modelling the marine ecosystems of the North Atlantic: Physics to fish and coasts to ocean. Progress in Oceanography, 129. 285-313. 10.1016/j.pocean.2014.04.024

Kitidis, V; Tilstone, GH; Serret, P; Smyth, TJ; Torres, R; Robinson, C. 2014 Oxygen photolysis in the Mauritanian upwelling: Implications for net community production. Limnology and Oceanography, 59 (2). 299-310. 10.4319/lo.2014.59.2.0299

Kwiatkowski, L; Yool, A; Allen, JI; Anderson, TR; Barciela, R; Buitenhuis, ET; Butenschon, M; Enright, C; Halloran, PR; Le Quere, C; de Mora, L; Racault, M-FLP; Sinha, B; Totterdell, IJ; Cox, PM. 2014 iMarNet: an ocean biogeochemistry model intercomparison project within a common physical ocean modelling framework. Biogeosciences, 11 (24). 7291-7304. 10.5194/bg-11-7291-2014

Lessin, G; Raudsepp, U; Stips, A. 2014 Modelling the Influence of Major Baltic Inflows on Near-Bottom Conditions at the Entrance of the Gulf of Finland. PLoS ONE, 9 (11). e112881. 10.1371/journal.pone.0112881

Polimene, L; Brunet, C; Butenschon, M; Martinez-Vicente, V; Widdicombe, CE; Torres, R; Allen, JI. 2014 Modelling a light-driven phytoplankton succession. Journal of Plankton Research, 36 (1). 214-229. 10.1093/plankt/fbt086

Queiros, AM; Fernandes, JA; Faulwetter, S; Nunes, J; Rastrick, SPS; Mieszkowska, N; Artioli, Y; Yool, A; Calosi, P; Arvanitidis, C; Findlay, HS; Barange, M; Cheung, WWL; Widdicombe, S. 2014 Scaling up experimental ocean acidification and warming research: from individuals to the ecosystem. Global Change Biology, 21 (1). 130-143. 10.1111/gcb.12675

Siegel, DA; Buesseler, KO; Doney, SC; Sailley, SF; Behrenfeld, MJ; Boyd, PW. 2014 Global assessment of ocean carbon export by combining satellite observations and food-web models. Global Biogeochemical Cycles, 28 (3). 181-196. 10.1002/2013GB004743

Smyth, TJ; Allen, JI; Atkinson, A; Bruun, JT; Harmer, RA; Pingree, RD; Widdicombe, CE; Somerfield, PJ. 2014 Ocean Net Heat Flux Influences Seasonal to Interannual Patterns of Plankton Abundance. PLoS ONE, 9 (6). e98709. 10.1371/journal.pone.0098709

Talmy, D; Blackford, JC; Hardman-Mountford, NJ; Polimene, L; Follows, MJ; Geider, RJ. 2014 Flexible C : N ratio enhances metabolism of large phytoplankton when resource supply is intermittent. Biogeosciences, 11 (17). 4881-4895. 10.5194/bg-11-4881-2014

Terseleer, N; Bruggeman, J; Lancelot, C; Gypens, N. 2014 Trait-based representation of diatom functional diversity in a plankton functional type model of the eutrophied southern North Sea. Limnology and Oceanography, 59 (6). 1958-1972. 10.4319/lo.2014.59.6.1958

2013

Allen, JI, Blackford, JC, Fulton, B, Cheung, W., 2013. Overview of the third Advances in Marine Ecosystem Modelling Research (AMEMR) Symposium, 27-30 June 2011, Plymouth. Journal of Marine Systems, 125, 1-2.

Blackford, JC; Kita, J. 2013 A novel experimental release of CO2 in the marine environment to aid monitoring and impact assessment. Energy Procedia, 37. 3387 - 3393. 10.1016/j.egypro.2013.06.227

Blackford, JC; Torres, R; Artioli, Y; Cazenave, P. 2013 Modelling dispersion of CO2 plumes in sea water as an aid to monitoring and understanding ecological impact. Energy Procedia, 37. 3379 - 3386. 10.1016/j.egypro.2013.06.226

Boyle, RA; Clark, JR; Poulton, SW; Shields-Zhou, G; Canfield, DE; Lenton, TM. 2013 Nitrogen cycle feedbacks as a control on euxinia in the mid-Proterozoic ocean. Nature Communications, 4. 1533. 10.1038/ncomms2511

Brunet, C; Conversano, F; Margiotta, F; Dimier, C; Polimene, L; Tramontano, F; Saggiomo, V. 2013 Role of light and photophysiological properties on phytoplankton succession during the spring bloom in the north-western Mediterranean Sea. Advances in Oceanography and Limnology, 4 (1). 1-19. 10.1080/19475721.2013.779937

Christensen, A; Butenschon, M; Gurkan, Z; Allen, JI. 2013 Towards an integrated forecasting system for fisheries on habitat-bound stocks. Ocean Science. 261 - 279. 10.5194/os-9-261-2013

Clark, JR; Lenton, TM; Williams, HTP; Daines, SJ. 2013 Environmental selection and resource allocation determine spatial patterns in picophytoplankton cell size. Limnology and Oceanography, 58 (3). 1008-1022. 10.4319/lo.2013.58.3.1008

Cross, J; Nimmo-Smith, WAM; Torres, R; Hosegood, PJ. 2013 Biological controls on resuspension and the relationship between particle size and the Kolmogorov length scale in a shallow coastal sea. Marine Geology, 343. 29-38. 10.1016/j.margeo.2013.06.014

de Mora, L; Butenschon, M; Allen, JI. 2013 How should sparse marine in situ measurements be compared to a continuous model: an example. Geoscientific Model Development, 6 (2). 533-548. 10.5194/gmd-6-533-2013

Fernandes, JA; Cheung, W; Jennings, S; Butenschon, M; de Mora, L; Frölicher, TL; Barange, M; Grant, A. 2013 Modelling the effects of climate change on the distribution and production of marine fishes: accounting for trophic interactions in a dynamic bioclimate envelope model. Global Change Biology, 19 (8). 2596-2607. 10.1111/gcb.12231

Findlay, HS; Artioli, Y; Moreno Navas, JMN; Hennige, SJ; Wicks, LCW; Huvenne, VAIH; Woodward, EMS; Roberts, JM. 2013 Tidal downwelling and implications for the carbon biogeochemistry of cold-water corals in relation to future ocean acidification and warming. Global Change Biology, 19. 2708 - 2719. 10.1111/gcb.12256

Hardman-Mountford, NJ; Polimene, L; Hirata, T; Brewin, RJW; Aiken, J. 2013 Impacts of light shading and nutrient enrichment geo-engineering approaches on the productivity of a stratified oligotrophic ocean ecosystem.. Journal of the Royal Society Interface, 10. 1-9. 10.1098/rsif.2013.0701

Hirata, T; Saux-Picart, S; Hashioka, T; Aita-Noguchi, M; Sumata, H; Shigemitsu, M; Allen, JI; Yamanaka, Y. 2013 A comparison between phytoplankton community structures derived from a global 3D ecosystem model and satellite observation. Journal of Marine Systems, 109-11. 129 - 137. 10.1016/j.jmarsys.2012.01.009

Kay, S; Hedley, J; Lavender, SJ. 2013 Sun glint estimation in marine satellite images: a comparison of results from calculation and radiative transfer modeling. Applied Optics, 52 (23). 5631-5639. 10.1364/AO.52.005631

Kreft, J-U; Plugge, CM; Grimm, V; Prats, C; Leveau, JHJ; Banitz, T; Baines, S; Clark, JR; Rose, A; Klapper, I; Topping, CJ; Field, AJ; Schuler, A; Litchman, E; Hellweger, FL. 2013 Mighty small: Observing and modeling individual microbes becomes big science. Proceedings of the National Academy of Sciences of the United States of America, 110 (45). 18027-18028. 10.1073/pnas.1317472110

Lovato, T; Ciavatta, S; Brigolin, D; Rubino, A; Pastres, R. 2013 Modelling dissolved oxygen and benthic algae dynamics in a coastal ecosystem by exploiting real-time monitoring data. Estuarine, Coastal and Shelf Science, 119. 17 - 30. 10.1016/j.ecss.2012.12.025

Rose, KA; Allen, JI. 2013 Modeling marine ecosystem responses to global climate change: Where are we now and where should we be going?. Ecological Modelling, 264. 1-6. 10.1016/j.ecolmodel.2013.04.014

Sailley, SF; Ducklow, HW; Moeller, HV; Fraser, WR; Schofield, OM; Steinberg, DK; Garzio, LM; Doney, SC. 2013 Carbon fluxes and pelagic ecosystem dynamics near two western Antarctic Peninsula Adélie penguin colonies: an inverse model approach. Marine Ecology Progress Series, 492. 253-272. 10.3354/meps10534

Shutler, J; Land, PE; Brown, CW; Findlay, HS; Donlon, CJ; Medland, M; Snooke, R; Blackford, JC. 2013 Coccolithophore surface distributions in the North Atlantic and their modulation of the air-sea flux of CO<sub>2</sub> from 10 years of satellite Earth observation data. Biogeosciences, 10 (4). 2699-2709. 10.5194/bg-10-2699-2013

Talmy, D; Blackford, JC; Hardman-Mountford, NJ; Dumbrell, AJ; Geider, RJ. 2013 An optimality model of photoadaptation in contrasting aquatic light regimes. Limnology and Oceanography, 58 (5). 1802 - 1818. 10.4319/lo.2013.58.5.1802

Uncles, RJ; Torres, R. 2013 Estimating dispersion and flushing time-scales in a coastal zone: Application to the Plymouth area. Ocean & Coastal Management, 72. 03-12. 10.1016/j.ocecoaman.2011.09.013

Ussher, SJ; Achterberg, EP; Powell, C; Baker, AR; Jickells, TD; Torres, R; Worsfold, PJ. 2013 Impact of atmospheric deposition on the contrasting iron biogeochemistry of the North and South Atlantic. Global Biogeochemical Cycles, 27. 01-Dec. 10.1002/gbc.20056

Widdicombe, S; Blackford, JC; Spicer, JI. 2013 Assessing the environmental consequences of CO2 leakage from geological CCS: Generating evidence to support environmental risk assessment. Marine Pollution Bulletin, 73 (2). 399-401. 10.1016/j.marpolbul.2013.05.044

Williamson, P; Turley, CM; Brownlee, C; Findlay, HS; Ridgwell, AJ; Schmidt, DN; Schroeder, DC; Blackford, JC; Tyrrell, T; Pinnegar, JK. 2013 Impacts of ocean acidification. MCCIP. 1-16.

Yang, M; Archer, SD; Blomquist, BW; Ho, DT; Lance, VP; Torres, R. 2013 Lagrangian evolution of DMS during the Southern Ocean gas exchange experiment: The effects of vertical mixing and biological community shift. Journal of Geophysical Research: Oceans, 118 (12). 6774-6790. 10.1002/2013JC009329

2012

Artioli, Y; Blackford, JC; Butenschon, M; Holt, JT; Wakelin, SL; Thomas, H; Borges, AV; Allen, JI. 2012 The carbonate system of the NW European shelf: sensitivity and model validation. Journal of Marine Systems, 102-10. Jan-13. 10.1016/j.jmarsys.2012.04.006

Blackford, JC. 2012 Simulating CO2 leakage into marine environments. Greenhouse gases-Science and Technology, 2 (5). 325 - 328. 10.1002/ghg.1312

Blanchard, J; Jennings, S; Holmes, R; Harle, J; Merino, G; Allen, JI; Holt, JT; Dulvy, NK; Barange, M. 2012 Potential consequences of climate change for primary production and fish production in large marine ecosystems. Philosophical Transactions of the Royal Society of London Series B-Biological Sciences, 367. 2979 - 2989. 10.1098/rstb.2012.0231

Bruun, JT; Rees, AP; Stephens, JA; Thomalla, S; Philibert, R; Waldron, HN; Somerfield, PJ; Jeansson, E; Bellerby, RGJ; Moiseev, D. 2012 Assessment of seasonal and decadal signals in the in situ Atlantic plankton data. ICES CM. R:11 - R:11.
Bruun, JT; Somerfield, PJ; Allen, JI. 2012 Applications of Box Jenkins Transfer function methods to identify seasonal and longer term. ICES CM. R:22 - R:22.

Bruun, JT; Somerfield, PJ; Allen, JI; Vichi, M; McKiver, W; Racault, M-FLP; Johannessen, J; Bellerby, RGJ; Waldron, HN. 2012 New methodologies to build an integrated global plankton database: the GreenSeas Analysis Framework. ICES CM. R:10 - R:10.

Cazenave, P; Dix, JK; Lambkin, DO; McNeill, LC. 2012 A method for semi-automated objective quantification of linear bedforms from multi-scale Digital Elevation Models. Earth Surface Processes and Landforms, 38. 221-236. 10.1002/esp.3269

Christensen, A; Butenschon, M; Gurkan, Z; Allen, JI. 2012 Towards an integrated forecasting system for pelagic fisheries. Ocean Science Discussions, 9. 1437 - 1479. 10.5194/osd-9-1437-2012

Flynn, KJ; Blackford, JC; Baird, ME; Raven, J; Clark, DR; Beardall, J; Brownlee, C; Fabian, H; Wheeler, G. 2012 Changes in pH at the exterior surface of plankton with ocean acidification. Nature Climate Change, 2. 510 - 513. 10.1038/nclimate1489

Holt, JT; Butenschon, M; Wakelin, SL; Artioli, Y; Allen, JI. 2012 Oceanic controls on the primary production of the northwest European continental shelf: model experiments under recent past conditions and a potential future scenario. Biogeosciences, 9. 97 - 117. 10.5194/bg-9-97-2012

Loucaides, S; Tyrrell, T; Achterberg, EP; Torres, R; Nightingale, PD; Kitidis, V; Serret, P; Woodward, EMS; Robinson, C. 2012 Biological and physical forcing of carbonate chemistry in an upwelling filament off northwest Africa: Results from a Lagrangian study. Global Biogeochemical Cycles, 26. Jan-13. 10.1029/2011gb004216

Merino, G; Barange, M; Blanchard, J; Harle, J; Holmes, R; Allen, JI; Allison, EH; Badjeck, MC; Dulvy, NK; Holt, JT; Jennings, S; Mullon, C; Rodwell, LD. 2012 Can marine fisheries and aquaculture meet fish demand from a growing human population in a changing climate?. Global Environmental Change, 22. 795 - 806. 10.1016/j.gloenvcha.2012.03.003

Meunier, T; Barton, ED; Barreiro, B; Torres, R. 2012 Upwelling filaments off Cap Blanc: Interaction of the NW African upwelling current and the Cape Verde frontal zone eddy field?. Journal of Geophysical Research-Oceans, 117 (C8). 1-18. 10.1029/2012jc007905

Polimene, L; Archer, SD; Butenschon, M; Allen, JI. 2012 A mechanistic explanation of the Sargasso Sea DMS summer paradox. Biogeochemistry, 110. 243 - 255. 10.1007/s10533-011-9674-z

Polimene, L; Brunet, C; Allen, JI; Butenschon, M; White, DA; Llewellyn, CA. 2012 Modelling xanthophyll photoprotective activity in phytoplankton. Journal of Plankton Research, 34. 196 - 207. 10.1093/plankt/fbr102

Racault, M-FLP; Platt, T; Sathyendranath, S; Agirbas, E; Martinez Vicente, V; Bruun, JT. 2012 Challenges in the integration of ecological indicators within a network of Atlantic Ocean. ICES CM. R:06 - R:06.

Roy, S; Broomhead, DS; Platt, T; Sathyendranath, S; Ciavatta, S. 2012 Sequential variations of phytoplankton growth and mortality in an NPZ model: A remote-sensing-based assessment. Journal of Marine Systems, 92. 16 - 29. 10.1016/j.jmarsys.2011.10.001

Shutler, J; Land, PE; Brown, CW; Findlay, HS; Donlon, CJ; Medland, M; Snooke, R; Blackford, JC. 2012 Coccolithophore surface distributions in the North Atlantic and their modulation of the air-sea flux of CO2 from 10 years of satellite Earth observation data. Biogeosciences Discussions, 9. 5823-5848.

Wakelin, SL; Holt, JT; Blackford, JC; Allen, JI; Butenschon, M; Artioli, Y. 2012 Modeling the carbon fluxes of the northwest European continental shelf: Validation and budgets.. Journal of Geophysical Research-Oceans, 117. 0 - 0. 10.1029/2011jc007402

2011

Allen, JI; Polimene, L. 2011 Linking physiology to ecology: towards a new generation of plankton models. Journal of Plankton Research, 33. 989 - 997. 10.1093/plankt/fbr032

Ciavatta, S; Pastres, R. 2011 Exploring the long-term and interannual variability of biogeochemical variables in coastal areas by means of a data assimilation approach. Estuarine, Coastal and Shelf Science, 91. 411 - 422. 10.1016/j.ecss.2010.11.006

Ciavatta, S; Torres, R; Saux-Picart, S; Allen, JI. 2011 Can ocean color assimilation improve biogeochemical hindcasts in shelf seas?. Journal of Geophysical Research-Oceans, 116. Jan-19. 10.1029/2011JC007219

Kitidis, V; Tilstone, GH; Smyth, TJ; Torres, R; Law, CS. 2011 Carbon Monoxide Emission from a Mauritanian Upwelling Filament. Marine Chemistry, 127. 123 - 133. 10.1016/j.marchem.2011.08.004

Polimene, L; Archer, SD; Butenschon, M; Allen, JI. 2011 A mechanistic explanation of the Sargasso Sea DMS summer paradox. Biogeochemistry. Jan-13. 10.1007/s10533-011-9674z

Rees, AP; Brown, IJ; Clark, DR; Torres, R. 2011 The Lagrangian progression of nitrous oxide within filaments formed in the Mauritanian upwelling. Geophysical Research Letters, 38. 0 - 0. 10.1029/2011GL049322

Shutler, J; Smyth, TJ; Saux-Picart, S; Wakelin, SL; Hyder, P; Orekhov, P; Grant, MG; Tilstone, GH; Allen, JI. 2011 Evaluating the ability of a hydrodynamic ecosystem model to capture inter- and intra-annual spatial characteristics of chlorophyll-a in the north east Atlantic. Journal of Marine Systems, 88. 169 - 182. 10.1016/j.jmarsys.2011.03.013

Uncles, RJ; Torres, R. 2011 Estimating dispersion and flushing time-scales in a coastal zone: application to the Plymouth area. Ocean & Coastal Management. 0 - 0.

Vichi, M; Allen, JI; Masina, S; Hardman-Mountford, NJ. 2011 The emergence of ocean biogeochemical provinces: A quantitative assessment and a diagnostic for model evaluation. Global Biogeochemical Cycles, 25. 0 - 0. 10.1029/2010GB003867

White, DA; Polimene, L; Llewellyn, CA. 2011 Effects Of Ultraviolet-A Radiation And Nutrient Availability On The Cellular Composition Of Photoprotective Compounds In Glenodinium Foliaceum (Dinophyceae). Journal of Phycology, 47. 1078 - 1088. 10.1111/j.1529-8817.2011.01046.x

2010

Allen, JI. 2010 Marine ecosystem response to multiple climatic and anthropogenic drivers: A modelling approach. Comparative Biochemistry and Physiology Part A: Molecular & Integrative Physiology, 157. 01-Jan. 10.1016/j.cbpa.2010.06.002

Allen, JI; Aiken, J; Anderson, TR; Buitenhuis, E; Cornell, S; Geider, RJ; Haines, K; Hirata, T; Holt, JT; Le Quere, C; Hardman-Mountford, NJ; Ross, RN; Sinha, B; While, J. 2010 Marine ecosystem models for earth systems applications: The MarQUEST experience. Journal of Marine Systems, 81 (1-. 19 - 33. 10.1016/j.jmarsys.2009.12.017

Allen, JI; Fulton, EA. 2010 Top-down bottom-up or middle-out? Avoiding extraneous detail and over-generality in marine ecosystem models. Progress in Oceanography, 84 (1-. 129 - 133. 10.1016/j.pocean.2009.09.016

Blackford, JC. 2010 Predicting the impacts of ocean acidification: Challenges from an ecosystem perspective. Journal of Marine Systems, 81. Dec-18. 10.1016/j.jmarsys.2009.12.016

Blackford, JC; Allen, JI; Anderson, TR; Rose, KA. 2010 Challenges for a new generation of marine ecosystem models: Overview of the Advances in Marine Ecosystem Modelling Research (AMEMR) Symposium 23-26 June 2008 Plymouth UK Preface. Journal of Marine Systems, 81. 01-Mar. 10.1016/j.jmarsys.2009.12.018

Glibert, PM; Allen, JI; Bouwman, AF; Brown, CW; Flynn, KJ; Lewitus A, J; Madden, CJ. 2010 Modeling of HABs and eutrophication Status advances challenges. Journal of Marine Systems, 83 (3. 262 - 275. 10.1016/j.jmarsys.2010.05.004

Le Clainche, Y; Vezina, A; Levasseur, M; Cropp, R; Gunson, JR; Vallina, SM; Vogt, M; Lancelot, C; Allen, JI; Archer, SD; Bopp, L; Laurent, L; Deal, C; Elliott, S; Jin, MM; Malin, G; Schoemann, V; Simo, F; Six, KD; Stefels, J. 2010 A first appraisal of prognostic ocean DMS models and prospects for their use in climate models. Global Biogeochemical Cycles, 24. 0 - 0. 10.1029/2009GB003721

Litt, EJ; Hardman-Mountford, NJ; Blackford, JC; Mitchelson-Jacob, G; Goodman, A; Moore, GF; Cummings, DG; Butenschon, M. 2010 Biological control of pCO(2) at station L4 in the Western English Channel over 3 years. Journal of Plankton Research, 32. 621 - 629. 10.1093/plankt/fbp133

Rose, KA; Allen, JI; Artioli, Y; Barange, M; Blackford, JC; Carlotti, F; Cropp, R; Daewel, U; Flynn, KJ; Hill, SL; Hille Ris Lambers, R; Huse, G; Mackinson, S; Megrey, B; Moll, A; Rivkin, R; Salihoglu, B; Schrum, C; Shannon, L; Shin, Y-J; Smith, SL; Smith, C; Solidoro, C; St John, M; Zhou, M. 2010 End-To-End Models for the Analysis of Marine Ecosystems: Challenges Issues and Next Steps. Marine and Coastal Fisheries: Dynamics Management and Ecosystem Science, 2. 115 - 130. 10.1577/C09-059.1

Saba, VS; Friedrichs, MAM; Carr, ME; Antoine, D; Armstrong, RA; Asanuma, I; Aumont, O; Olivier, O; Bates, NR; Behrenfeld, M; Bennington, V; Bopp, L; Laurent, L; Bruggeman, J; Buitenhuis, E; Church, MJ; Ciotti, AM; Doney, SC; Dowell, M; Dunne, J; Dutkiewicz, S; Gregg, W; Hoepffner, N; Hyde, KJW; Ishizaka, J; Kameda, T; Karl, DM; Lima, I; Lomas, MW; Marra, J; McKinley, GA; Melin, F; Moore, JK; Morel, A; O'Reilly, J; Salihoglu, B; Scardi, M; Smyth, TJ; Tang, S; Tjiputra, JF; Uitz, J; Vichi, M; Waters, K; Westberry, TK; Yool, A. 2010 Challenges of modeling depth-integrated marine primary productivity over multiple decades: A case study at BATS and HOT. Global Biogeochemical Cycles, 24. 0 - 0. 10.1029/2009GB003655

2009

Allen, JI; Somerfield, PJ. 2009 A multivariate approach to model skill assessment. Journal of Marine Systems, 76. 83 - 94. 10.1016/j.jmarsys.2008.05.009

Barausse, A; Duci, A; Mazzoldi, C; Artioli, Y; Palmeri, L. 2009 Trophic network model of the Northern Adriatic Sea: analysis of an exploited and eutrophic ecosystem. Estuarine, Coastal and Shelf Science, 83. 577 - 590.

Blackford, JC; Jones, N; Proctor, R; Holt, JT; Widdicombe, S; Lowe, DM; Rees, AP. 2009 An initial assessment of the potential environmental impact of CO2 escape from marine carbon capture and storage systems. Proceedings of the Institution of Mechanical Engineers Part a-Journal of Power and Energy, 223. 269 - 280. 10.1243/09576509JPE623

Fox, C; Harris, RP; Sundby, S; Achterberg, EP; Allen, JI; Allen, J; Baker, AR; Brussaard, CPD; Buckley, P; Cook, E; Dye, S; Edwards, M; Fernand, L; Kershaw, P; Metcalfe, JD; Østerhus, S; Potter, T; Sakshaug, E; Speirs, D; Stenevik, E; St John, M; Thingstad, TF; Wilson, B. 2009 Transregional linkages in the North-Eastern Atlantic - An ‘end-to-end ’ analysis of pelagic ecosystems. Oceanography and Marine Biology, 47. 1-75.

Holt, JT; Harle, J; Proctor, R; Michel, S; Ashworth, M; Batstone, C; Allen, JI; Holmes, R; Smyth, TJ; Haines, K; Bretherton, D; Smith, GC. 2009 Modelling the global coastal ocean. Philosophical Transactions of the Royal Society of London Series A-Mathematical Physical and Engineering Sciences. 939 - 951. 10.1098/rsta.2008.0210

Lewis, K; Allen, JI. 2009 Validation of a hydrodynamic-ecosystem model simulation with time-series data collected in the western English Channel. Journal of Marine Systems, 77. 296 - 311. 10.1016/j.jmarsys.2007.12.013

McQuatters-Gollop, A; Gilbert, AJ; Mee, LD; Vermaat, JE; Artioli, Y; Humborg, C; Wulff, F. 2009 How well do ecosystem indicators communicate the effects of anthropogenic eutrophication?. Estuarine, Coastal and Shelf Science, 82 (4). 583-596. 10.1016/j.ecss.2009.02.017

Stow, C; Jolliff, J; McGillicuddy, DJ; Doney, SC; Allen, JI; Friedrichs, MAM; Rose, KA; Wallheadg, P. 2009 Skill assessment for coupled biological/physical models of marine systems. Journal of Marine Systems, 01-Feb. Apr-15. 10.1016/j.jmarsys.2008.03.011

Stromberg, KHP; Smyth, TJ; Allen, JI; Pitois, SG; O'Brien, TD. 2009 Estimation of global zooplankton biomass from satellite ocean colour. Journal of Marine Systems, 78. 18 - 27. 10.1016/j.jmarsys.2009.02.004

Turley, CM; Blackford, JC; Hardman-Mountford, NJ; Litt, EJ; Llewellyn, CA; Lowe, DM; Miller, PI; Nightingale, PD; Rees, AP; Smyth, TJ; Tilstone, GH; Widdicombe, S. 2009 Carbon Uptake Transport and Storage by Oceans and the Consequences of Change In Carbon Capture and Storage (CCS) Issues. Environmental Science & Technology, 29. 240 - 284. 

2008

Allen, JI; Smyth, TJ; Siddorn, JR; Holt, JT. 2008 How well can we forecast high biomass algal bloom events in a eutrophic coastal sea?. Harmful Algae, 8(1). 70 - 76. 10.1016/j.hal.2008.08.024

Artioli, Y; Friedrich, J; Gilbert, AJ; McQuatters-Gollop, A; Mee, LD; Vermaat, JE; Wulff, F; Humborg, C; Palmeri, L; Pollehne, F. 2008 Nutrient budgets for European seas: A measure of the effectiveness of nutrient reduction policies. Marine Pollution Bulletin, 56 (9). 1609-1617.

Aveytua-Alcazar, L; Camacho-Ibar, VF; Souza, AJ; Allen, JI; Torres, R. 2008 Modelling Zostera marina and Ulva spp. in a coastal lagoon. Ecological Modelling, 218(3-. 354 - 366. 10.1016/j.ecolmodel.2008.07.019

Blackford, JC; Jones, N; Proctor, R; Holt, JT. 2008 Regional scale impacts of distinct CO2 additions in the North Sea. Marine Pollution Bulletin, 56. 1461 - 1468. 10.1016/j.marpolbul.2008.04.048

Hardman-Mountford, NJ; Moore, GF; Bakker, DCE; Watson, AJ; Schuster, U; Barciela, R; Hines, A; Moncoiffe, G; Brown, J; Dye, S; Blackford, JC; Somerfield, PJ; Holt, JT; Hydes, DJ; Aiken, J. 2008 An operational monitoring system to provide indicators of CO(2)-related variables in the ocean. ICES Journal of Marine Science, 65. 1498 - 1503. 10.1093/icesjms/fsn110

Litt, EJ; Hardman-Mountford, NJ; Mitchelson-Jacob, G; Blackford, JC; Wilton, R; Moore, GF; Hirata, T. 2008 Seasonal variability of CO2 flux estimates in the Irish Sea. Conference Proceedings. 0 - 0.

Vichi, M; Allen, JI; Hardman-Mountford, NJ. 2008 Biogeographic validation of a global ocean biogeochemistry model. Conference Proceedings. 38 - 38. 

2007

Allen, JI; Clarke, KR. 2007 Effects of demersal trawling on ecosystem functioning in the North Sea: a modelling study. Marine Ecology Progress Series, 336. 63 - 75. 10.3354/meps336063

Allen, JI; Holt, JT; Proctor, R; Blackford, JC. 2007 Error quantification of a high-resolution coupled hydrodynamic-ecosystem coastal-ocean model: Part 2. Chlorophyll-a nutrients and SPM. Journal of Marine Systems, 68. 381 - 404. 10.1016/j.jmarsys.2007.01.005

Allen, JI; Somerfield, PJ; Gilbert, FJH. 2007 Quantifying uncertainty in high-resolution coupled hydrodynamic-ecosystem models. Journal of Marine Systems, 64. Mar-14. 10.1016/j.jmarsys.2006.02.010

Blackford, JC; Allen, JI; de Young, B. 2007 Advances in marine ecosystem modelling research. Journal of Marine Systems, 64. 01-Feb. 10.1016/j.jmarsys.2006.05.001

Blackford, JC; Gilbert, FJH. 2007 pH variability and CO2 induced acidification in the North Sea. Journal of Marine Systems, 64. 229 - 241. 10.1016/j.jmarsys.2006.03.016

Dagnino, A; Allen, JI; Moore, MN; Viarengo, A. 2007 Development of an expert system for the integration of biomarker responses in mussels into an animal health index. Biomarkers, 12. 155 - 172. 10.1080/13547500601037171

Moore, MN; Lowe, DM; Allen, JI; McVeigh, A; Somerfield, PJ. 2007 Predicting health of the environment - lysosomal biomarker responses in mussels. In: Proceedings of the Workshop on the Med Pol Biological Effects Programme: Acheivements and Future Orientations Alessandria Italy 20 - 21 December 2006. MAP Technical Reports Series No 166 United Nations Environment Programme/Mediterranean Action Plan (UNEP/MAP) Athens greece. Mar-20.

Polimene, L; Zavatarelli, M; Allen, JI. 2007 A numerical simulation study of dissolved organic carbon accumulation in the northern Adriatic Sea. Journal of Geophysical Research-Oceans, 112 (C (Art. N). 10.1029/2006JC003529

Siddorn, JR; Allen, JI; Blackford, JC; Gilbert, FJH; Holt, JT; Holt, M; Osbourne, J; Proctor, R; Mills, DK. 2007 Modelling the hydrodynamics and ecosystem of the North-West European continental shelf for operational oceanography. Journal of Marine Systems, 65. 417 - 429. 10.1016/j.jmarsys.2006.01.018

Torres, R; Barton, ED. 2007 Onset of the Iberian upwelling along the Galician coast. doi:10.1016/j.csr.2007.02.005. Continental Shelf Research, 27. 1759 - 1778.

Turley, CM; Blackford, JC; Widdicombe, S; Lowe, DM; Nightingale, PD; Rees, AP. 2006 Reviewing the Impact of Increased Atmospheric CO2 on Oceanic pH and the Marine Ecosystem. Proceedings of the Avoiding Dangerous Climate Change Symposium. 65 - 70.

2006

Allen, JI; Archer, SD; Gilbert, FJH; Blackford, JC; Taylor, AH. 2006 Changes in DMS production and flux in relation to decadal shifts in ocean circulation. Tellus Series B-Chemical and Physical Meteorology, 58B. 242 - 254. 10.1111/j.1600-0889.2006.00183.x

Lewis, K; Allen, JI; Richardson, AJ; Holt, JT. 2006 Error quantification of a high resolution coupled hydrodynamic-ecosystem coastal-ocean model: Part3 validation with Continuous Plankton Recorder data. Journal of Marine Systems, 63 (3 - 4). 209 - 224. 10.1016/j.jmarsys.2006.08.001

McVeigh, A; Moore, MN; Allen, JI; Dyke, P. 2006 Lysosomal responses to nutritional and contaminant stress in mussel hepatopancreatic digestive cells: A modelling study. Marine Environmental Research, 62 Sup. S433 - S438. 10.1016/j.marenvres.2006.04.021

Moore, MN; Allen, JI; McVeigh, A. 2006 Environmental prognostics: An integrated model supporting lysosomal stress responses as predictive biomarkers of animal health status. Marine Environmental Research, 61. 278 - 304. 10.1016/j.marenvres.2005.10.005

Moore, MN; Allen, JI; McVeigh, A; Shaw, JP. 2006 Lysosomal and autophagic reactions as predictive indicators of environmental impact in aquatic animals. Autophagy, 2. 217 - 220.

Moore, MN; Allen, JI; Somerfield, PJ. 2006 Autophagy: Role in surviving environmental stress. Marine Environmental Research, 62 Sup. S420 - S425. 10.1016/j.marenvres.2006.04.055

Torres, R; Allen, JI; Figueiras, FG. 2006 Sequential data assimilation in an upwelling influenced estuary. Journal of Marine Systems. 0 - 0. 10.1016/j.jmarsys.2006.02.001

Torres, R; Barton, ED. 2006 Onset and development of the Iberian poleward flow along the Galician coast. Continental Shelf Research, 26 (10). 1134 - 1153. 10.1016/j.csr.2006.03.009

Turley, CM; Blackford, JC; Widdicombe, S; Lowe, DM; Nightingale, PD; Rees, AP. 2006 Reviewing the Impact of Increased Atmospheric CO2 on Oceanic pH and the Marine Ecosystem. Proceedings of the Avoiding Dangerous Climate Change Symposium. 65 - 70. 

2005

Hardman-Mountford, NJ; Allen, JI; Frost, MT; Hawkins, SJ; Kendall, MA; Mieszkowska, N; Richardson, K; Somerfield, PJ. (2005). Diagnostic monitoring of a changing environment: An alternative UK perspective. Marine Pollution Bulletin, 50. 1463 - 1471. 10.1016/j.marpolbul.2005.06.022

Holt, JT; Allen, JI; Proctor, R; Gilbert, FJH. 2005 Error quantification of a high-resolution coupled hydrodynamic-ecosystem coastal-ocean model: Part 1 model overview and assessment of the hydrodynamics. Journal of Marine Systems, 57. 167 - 188. 10.1016/j.jmarsys.2005.04.008

Llewellyn, CA; Fishwick, J; Blackford, JC. 2005 Phytoplankton community assemblage in the English Channel: a comparison using chlorophyll a derived from HPLC-CHEMTAX and carbon derived from microscopy cell counts. Journal of Plankton Research, 27 (1). 103 - 119. 10.1093/plankt/fbh158

2004

Allen, JI; Blackford, JC; Gilbert, FJH; Siddorn, JR. 2004 Turbulence as a control on the microbial loop in a temperate seasonally stratified marine systems model. Journal of Sea Research, 52. 1 - 20. 10.1016/j.seares.2003.09.004
Allen, JI; McVeigh, A. 2004 Towards computational models of cells for environmental toxicology. Journal of Molecular Histology, 35(7). 697 - 706.

Allen, JI; Moore, MN. 2004 Environmental prognostics: Is the current use of biomarkers appropriate for environmental risk evaluation?. Marine Environmental Research, 58 (2-5). 227 - 232. 10.1016/j.marenvres.2004.03.119

Archer, SD; Gilbert, FJH; Allen, JI; Blackford, JC; Nightingale, PD. 2004 Modelling of the seasonal patterns of dimethylsulphide production and fate during 1989 at a site in the North Sea. Canadian Journal of Fisheries and Aquatic Sciences, 61. 765 - 787. 10.1139/F04-028

Blackford, JC; Allen, JI; Gilbert, FJH. 2004 Ecosystem dynamics at six contrasting sites: a generic modelling study. Journal of Marine Systems, 52 (1 - 4). 191 - 215. 10.1016/j.jmarsys.2004.02.004

Holt, JT; Proctor, R; Blackford, JC; Allen, JI; Ashworth, M. 2004 Advective controls on primary production in the stratified western Irish Sea: An eddy-resolving model study. Journal of Geophysical Research-Oceans, 109 C5. 5024 - 5034. 10.1029/2003JC001951

McVeigh, A; Allen, JI; Moore, MN; Dyke, P; Noble, D. 2004 A carbon and nitrogen flux model of mussel digestive gland epithelial cells and their simulated response to pollutants. Marine Environmental Research, 58. 821 - 827. 10.1016/j.marenvres.2004.03.099

Moore, MN; Allen, JI; McVeigh, A. 2004 Ecophysiomics: a systems biology approach to environmental toxico-pathology from the molecular and cellular levels to the ecosystem.. Journal of Histochemistry & Cytochemistry. 12 - 12.

Zubkov, MV; Allen, JI; Fuchs, BM. 2004 Coexistence of dominant groups in marine bacterioplankton community - a combination of experimental and modelling approaches. Journal of the Marine Biological Association of the United Kingdom, 84. 519 - 529. 10.1017/S002531540400952Xh

2003

Allen JI, Eknes M, and Evensen G. 2003. An Ensemble Kalman Filter with a complex marine ecosystem model: hindcasting phytoplankton in the Cretan Sea. Annales Geophysicae, 21(1), 399-411.