Being an instrument used in many scientific and practical applications, the CytoBuoy instruments have contributed to numerous publications over the years. Here you can find a selection of publications and presentations based on, working with or making use of (data of)the CytoSense, CytoSub, CytoBuoy or their predecessors the (Eur)OPA flow cytometers for phytoplankton.


Philipp Doppler, Ricarda Kriechbaum, Oliver Spadiut: High-throughput characterization of the filamentous cyanobacterium Anabaena sp. using flow cytometry.  
Journal of Microbiological Methods 199 (2022) 106510

Robin Fuchs, Melilotus Thyssen,Véronique Creach, Mathilde Dugenne, Lloyd Izard, Marie Latimier, Arnaud Louchart, Pierre Marrec, Machteld Rijkeboer, Gérald Grégori, Denys Pommeret: Automatic recognition of flow cytometric phytoplankton functional groups using convolutional neural networks.
Limnol. Oceanogr.: Methods 2022 ©
doi: 10.1002/lom3.10493

Michelle L. Barnett, Alan E. S. Kemp, W. Alex M. Nimmo-Smith and Duncan A. Purdie: Total Water Column Analysis Shows the Importance of a Single Species in Subsurface Chlorophyll Maximum Thin Layers in Stratified Waters.
Front. Mar. Sci., 14 January 2022

Xu, M.-B.; Zhang, R.-C.; Jiang, F.-J.; Pan, H.-Z.; Li, J.; Yu, K.-F.; Lai, J.-X.: Spatiotemporal Variation in Phytoplankton and Physiochemical Factors during Phaeocystis globosa Red-Tide Blooms in the Northern Beibu Gulf of China.
Water 2022, 14, 1099. w14071099

Ruiz-Villarreal M, Sourisseau M, Anderson P, Cusack C, Neira P, Silke J, Rodriguez F, Ben-Gigirey B, Whyte C, Giraudeau-Potel S, Quemener L, Arthur G and Davidson K (2022): Novel Methodologies for Providing In Situ Data to HAB Early Warning Systems in the European Atlantic Area: The PRIMROSE Experience
Front. Mar. Sci. 9:791329. 2022
doi: 10.3389/fmars.2022.791329


JOAN S. FONT-MUÑOZ, MARC SOURISSEAU, AMANDA COHEN-SÁNCHEZ, IDAN TUVALAND, GOTZON BASTERRETXEA: Pelagic diatoms communicate through synchronized beacon natural fluorescence signaling.
DOI: 10.1126/sciadv.abj5230

LéonSerre-Fredj, Franck Jacqueline, Maxime Navon, Guillaume Izabel, Léo Chasselin, Orianne Jolly, Michel Repecaud, Pascal Claquin: Coupling high frequency monitoring and bioassay experiments to investigate a harmful algal bloom in the Bay of Seine (French-English Channel)
Marine Pollution Bulletin, 2021, 168, 112387

Jonathan V. Trueblood, Alessia Nicosia, Anja Engel, Birthe Zäncker, Matteo Rinaldi, Evelyn Freney, Melilotus Thyssen, Ingrid Obernosterer, Julie Dinasquet, Franco Belosi, Antonio Tovar-Sánchez, Araceli Rodriguez-Romero, Gianni Santachiara, Cécile Guieu, and Karine Sellegri: A two-component parameterization of marine ice-nucleating particles based on seawater biology and sea spray aerosol measurements in the Mediterranean Sea.
Atmos. Chem. Phys., 21, 4659–4676, 2021

Marta Vannon, Véronique Créach, Sophie Lozach, Jon Barry, Dave Sheahan: Chlorination in power station cooling water systems: Effect on biomass, abundance and physiology of natural phytoplankton communities.
Aquatic Toxicology, Volume 239, October 2021, 105954

Alfred Wüest, Damien Bouffard, Jean Guillard, Bastiaan W. Ibelings, Sébastien Lavanchy, Marie-Elodie Perga, Natacha PascheL: LéXPLORE: A floating laboratory on Lake Geneva offering unique lake research opportunities.
DOI: 10.1002/wat2.1544

Evelyn Freney, Karine Sellegri, Alessia Nicosia, Jonathan Trueblood, Matteo Rinaldi, Leah R. Williams, André S. H. Prévôt, Melilotus Thyssen, Gérald Grégori, Nils Haëntjens, Julie Dinasquet, Ingrid Obernosterer, France Van Wambeke, Anja Engel, Birthe Zäncker, Karine Desboeufs, Eija Asmi, Hilkka Timonen, and Cécile Guieu: Mediterranean nascent sea spray organic aerosol and relationships with seawater biogeochemistry.
Atmos. Chem. Phys., 21, 10625–10641, 2021

Epinoux, Alexandre: In-situ, High-Frequency Assessment of Phytoplankton Functional Groups and Their Ecology in Diverse Marine Areas.
PhD thesis The Open University (2021).
Gregory T. Romer and Marina Ortega: Water Scarcity in China: Left out to Dry ?
EIAS – Policy Brief, 08 /2021

Léo Berline, Andrea M. Doglioli, Anne Petrenko, Stéphanie Barrillon, Boris Espinasse, Frederic A.C. Le Moigne, François Simon-Bot, Melilotus Thyssen, François Carlotti: Long distance particle transport to the central Ionian Sea.
Biogeosciences, 18, 6377–6392, 2021

Karine Sellegri, Alessia Nicosia, Evelyn Freney, Julia Uitz, Melilotus Thyssen, Gérald Grégori, Anja Engel, Birthe Zäncker, Nils Haëntjens, Sébastien Mas, David Picard, Alexia Saint-Macary, Maija Peltola, Clémence Rose, Jonathan Trueblood, Dominique Lefevre, Barbara D’Anna, Karine Desboeufs, Nicholas Meskhidze, Cécile Guieu, and Cliff S. Law: Surface ocean microbiota determine cloud precursors.
Sci. Rep. 11, 281  (2021),


A. ALTENBURGER, H. E. BLOSSOM, L. GARCIA-CUETOS, H., H. JAKOBSEN, J. CARSTENSEN, N. LUNDHOLM, P. J. HANSEN, Ø. MOESTRUPAND, L. HARAGUCHI: Dimorphism in cryptophytes—The case of Teleaulax amphioxeia/Plagioselmis prolonga and its ecological implications.   SCIENCE ADVANCES  11 Sep 2020, Vol 6, Issue 37
DOI: 10.1126/sciadv.abb1611

Kathrin Schrinner, Lukas Veiter, Stefan Schmideder, Philipp Doppler, Marcel Schrader, Nadine Münch, Kristin Althof, Arno Kwade, Heiko Briesen, Christoph Herwig, Rainer Krull: Morphological and physiological characterization of filamentous Lentzea aerocolonigenes: Comparison of biopellets by microscopy and flow cytometry.
PlosONE, 15(6): e0234125 (2020)

A. T. Greer,  J.C. Lehrter, B. M. Binder, A. R. Nayak, R. Barua, A. E. Rice, J.H. Cohen, M. N. McFarland, A. Hagemeyer, N. D. Stockley, K. M. Boswell, I. Shulman, S. deRada, B.Penta. High-Resolution Sampling of a Broad Marine Life Size Spectrum Reveals Differing Size- and Composition-Based Associations With Physical Oceanographic Structure, Frontiers in Marine Sciences, 7, 2020, 542701

A. Louchart, F. Lizon, A. Lefebvre, M. Didrya, F. G.Schmitt, L. F. Artigas. Phytoplankton distribution from Western to Central English Channel, revealed by automated flow cytometry during the summer-fall transition. Continental Shelf Research, Vol 195, 104056

P. Doppler, L. Veiter, O. Spadiut, C. Herwig, V. Rajamanickam. A Chemometric Tool to Monitor and Predict Cell Viability in Filamentous Fungi Bioprocesses Using UV Chromatogram Fingerprints. Processes 2020, 8(4), 461

Charlotte Anne Vees, Lukas Veiter, Fritz Sax, Christoph Herwig, Stefan Pflügl: A robust flow cytometry-based biomass monitoring tool enables rapid at-line characterization of S. cerevisiae physiology during continuous bioprocessing of spent sulfite liquor. Anal Bioanal Chem. 2020 Apr; 412(9): 2137-2149.
doi: 10.1007/s00216-020-02423-z. Epub 2020 Feb 7.

L. Veiter, J. Kager,  C. Herwig. Optimal process design space to ensure maximum viability and productivity in Penicillium chrysogenum pellets during fed-batch cultivations through morphological and physiological control. Microbial Cell Factories vol. 19, 33

P. G. Thomson, D. M. F. Frampton, L. A. Clementson, C. B. Pattiaratchi. Picophytoplankton: harbingers of change in our costal oceans.    in: Richardson A.J, Eriksen R, Moltmann T, Hodgson-Johnston I, Wallis J.R. (Eds): State and Trends of Australia’s Ocean Report , Integrated Marine Observing System, Hobart.
chapter. 2.6
doi: 10.26198/5e16a9dd49e7e

Y. Zhao, C. Poulin, D. McKee, L. Hua, J. Agagliate, P. Yang, Z. Xiaodong. A closure study of ocean inherent optical properties using flow cytometry measurements Journal of Quantitative Spectroscopy and Radiative Transfer, Vol 241, 106730


Eva Ortega-Retuerta, Ignacio P.Mazuecos, Isabel Reche, Josep M.Gasol, Xosé A. Álvarez-Salgado, Marta Álvarez, María F. Montero, Javier Arístegui: Transparent exopolymer particle (TEP) distribution and in situ prokaryotic generation across the deep Mediterranean Sea and nearby North East Atlantic Ocean
Progress in Oceanography,  173, 180-191

H. M. Aardema, M. Rijkeboer, A. Lefebvre, A. Veen, and J. C. Kromkamp. High-resolution underway measurements of phytoplankton photosynthesis and abundance as an innovative addition to water quality monitoring programs.
Ocean Science 15(5):1267-1285, 2019

Fabien Lombard, Emmanuel Boss, et al. Globally Consistent Quantitative Observations of Planktonic Ecosystems, Front. Mar. Sci. 25 April 2019 

L. Veiter & C. Herwig: The filamentous fungus Penicillium chrysogenum analysed via flow cytometry—a fast and statistically sound insight into morphology and viability, Applied Microbiology and Biotechnology, 2019, 103, 6725–6735

G. Pereira, L. Andrade, R. Espíndola, N. Ebecken: Ecological networks simulation by fuzzy ecotoxicological rules, Ecological Modelling 409, 108733
DOI: 10.1016/j.ecolmodel.2019.108733

G. M. Fragoso, A. J. Poulton, N. J. Pratt, G. Johnsen, D. A. Purdie. Trait‐based analysis of subpolar North Atlantic phytoplankton and plastidic ciliate communities using automated flow cytometer, Limnology and Oceanography, 2019, 64(4), 1763-1778

M. A. Stravs, F. Pomati, J. Hollender.  Biodiversity Drives Micropollutant Biotransformation in Freshwater Phytoplankton Assemblages, Environ. Sci. Technol. 2019, 53, 8, 4265-4273;


J. Jang, N. B. Hendriksen, H. H. Jakobsen, U. Gosewinkel. Application of Cytosense flow cytometer for the analysis of airborne bacteria collected by a high volume impingement sample  
Journal of Microbiological Methods, 2018, 154, 63-72

R. Leroux, G. Gregori, K. Leblanc, F. Carlotti, M. Thyssen, M. Dugenne, M. Pujo-Pay, P. Conan, M.-P. Jouandet, N. Bhairy, L. Berline. Combining laser diffraction, flow cytometry and optical microscopy to characterize a nanophytoplankton bloom in the Northwestern Mediterranean. 
Progress in Oceanography, Vol 163,248-259

Jacopo Agagliate, Rüdiger Röttgers, Kerstin Heymann, David McKeeEstimation of Suspended Matter, Organic Carbon, and Chlorophyll-a Concentrations from Particle Size and Refractive Index Distributions. Applied Sciences 8, 12, 2018; doi:10.3390/app8122676

A. Pekarsky, L. Veiter, V. Rajamanickam, C. Herwig, C. Grünwald-Gruber, F. Altmann, O. SpadiutProduction of a recombinant peroxidase in different glyco‑engineered Pichia pastoris strains: a morphological and physiological comparison, Microbial Cell Factories 17:183 

L. Peperzak et al. Comparing flow cytometry and microscopy in the quantification of vital aquatic organisms in ballast water, Journal of Marine Engineering & Technology
doi: 10.1080/20464177.2018.1525806

L. Haraguchi , H.H. Jakobsen, N. Lundholm, J. Carstense, Phytoplankton Community Dynamic: A Driver for Ciliate Trophic Strategies.
Front. Mar. Sci. 5:272.
doi: 10.3389/fmars.2018.00272

P. Marrec, G. Grégori, A. M. Doglioli, M. Dugenne, A. D. Penna, N. Bhairy, T. Cariou, S. Hélias Nunige, S. Lahbib, G. Rougier, T. Wagener, M. Thyssen: Coupling physics and biogeochemistry thanks to high-resolution observations of the phytoplankton community structure in the northwestern Mediterranean Sea, Biogeosciences, 15, 1579-1606, 2018

J. Taucher, J. Arístegui, L. T. Bach, W. Guan, M. F. Montero, A. Nauendorf, E. P. Achterberg, U. RiebesellResponse of Subtropical Phytoplankton Communities to Ocean Acidification Under Oligotrophic Conditions and During Nutrient Fertilization, Front. Mar. Sci. 2018, 5, 330
doi: 10.3389/fmars.2018.00330

S. Fontana,  M. K. Thomas, M. Reyes,  F. Pomati. Resource supply drives even spacing of individuals along multiple trait axes in light-limited phytoplankton populations, bioRxiv 2018

M.K. Thomas, S. Fontana, M. Reyes, F. Pomati, Quantifying cell densities and biovolumes of phytoplankton communities and functional groups using scanning flow cytometry, machine learning and unsupervised clustering, PLoS ONE 2018, 13(5)

M.K. Thomas, S. Fontana, M. Reyes, M. Kehoe, F. Pomati, The predictability of a lake phytoplankton community, over time-scales of hours to years, Ecology Letters, 2018, 21(5),  619-628

K. Leblanc, B. Quéguiner, F. Diaz, V. Cornet, M. Michel-Rodriguez, X. Durrieu de Madron, C. Bowler, S. Malviya, M. Thyssen, G. Grégori, M. Rembauville, O. Grosso, J. Poulain, C. de Vargas, M. Pujo-Pay, P. Conan. :   Nanoplanktonic diatoms are globally overlooked but play a role in spring blooms and carbon export, Nature Communications, 2018, 9, 953

J. Agagliate, R. Röttgers, M. S. Twardowski, D. McKee:   Evaluation of a flow cytometry method to determine size and real refractive index distributions in natural marine particle populations, Appl. Optics 57, 1705-1716, 2018

J. Agagliate, I. Lefering, D. McKee, Forward modeling of inherent optical properties from flow cytometry estimates of particle size and refractive index, Appl. Optics 57, 1777-1788, 2018

L. T. Bach, K. T. Lohbeck, T. B. H. Reusch, U. Riebesell, Rapid evolution of highly variable competitive abilities in a key phytoplankton species. Nature Ecology & Evolution, 2018, 2, 611–613


S. Fontana, M. K. Thomas, M. Moldoveanu, P. Spaak, F. Pomati, Individual-level trait diversity predicts phytoplankton community properties better than species richness or evenness, The ISME Journal 2017, 12(2), 1-11

T. Silovic, G. Grégori, M. Dugenne, M. Thyssen, F. Calendreau, T. Cossart, H. Kools, G. Dubelaar, M. Denis:   A new automated flow cytometer for high frequency in situ characterisation of heterotrophic microorganisms and their dynamics in aquatic ecosystems, IMEKO International Conference on Metrology for The Sea, Naples, Italy, October 11-13, 2017

D. Ehgartner, C. Herwig, J. Fricke, Morphological analysis of the filamentous fungus Penicillium chrysogenum using flow cytometry—the fast alternative to microscopic image analysis,   Appl. Microbiol. Biotechnol. 101,  7675-7688

G.C. Pereira, A.R. Figueiredo, N.F.F. Ebecken, Using in situ flow cytometry images of ciliates and dinoflagellates for aquatic system monitoring, Braz. J. Biol. 2017, 78(2)

L. Haraguchi, H. H. Jakobsen, N. Lundholm, J. Carstensen, Monitoring natural phytoplankton communities: a comparison between traditional methods and pulse-shape recording flow cytometry, Aquat. Microb. Ecol. 80,  77-92

Evolution of the scattering properties of phytoplankton cells from flow cytometry measurements, PLoS ONE 12(7): e018118

E. Breton, U. Christaki, S. Bonato, M. Didry, L.F. Artigas, Functional trait variation and nitrogen use efficiency in temperate coastal phytoplankton, Mar. Ecol. Prog. Ser. 563, 35-49

H. Tan, T. Oishi, A. Tanaka, R. Doerffer, Y. Tan, Chlorophyll-a specific volume scattering function of phytoplankton, Optics EXPRESS 25 (2017) A564-A573

F. Pomati, J. Jokela, S. Castiglioni, M. K. Thomas, L. Nizzetto, Water-borne pharmaceuticals reduce phenotypic diversity and response capacity of natural phytoplankton communitiesPLoS ONE 2017, 12(3): e0174207

J. Taucher, M. Haunost, T. Boxhammer, L. T. Bach, M. Algueró-Muñiz, U. Riebesell Influence of ocean acidification on plankton community structure during a winter-to-summer succession: An imaging approach indicates that copepods can benefit from elevated CO2 via indirect food web effects, PLoS ONE 2017, 12(2): e0169737


SiMoCo: the viability of a prototype platform for a coastal monitoring system: a case study

At-line determining spore germination of Penicillium chrysogenum bioprocesses in complex media

D. Ehgartner, C. Herwig, L. Neutsch, At-line determination of spore inoculum quality in Penicillium chrysogenum bioprocesses

Spatio-temporal patterns in phytoplankton assemblages in inshore-offshore gradients using flow cytometry: A case study in the eastern English Channel


Determination of backscattering cross section of individual particles from cytometric measurements: a new methodology, Opt. Express. 23, 31510-31533

N.F.F. Ebecken, G.C. Pereira, Ecological Networks : From Structural Analysis to SynchronizationIndividual-level trait diversity concepts and indices to comprehensively describe community change in multidimensional trait spaceHigh-resolution analysis of a North Sea phytoplankton community structure based on in situ flow cytometry observations and potential implication for remote sensing

M.N. McFarland, J. Rines, J. Sullivan, P. Donaghay, Impact of phytoplankton size and physiology on particulate optical properties determined with scanning flow cytometry,

S.A. Coelho-Souza, F. V. Araujo, J.C. Cury, H.E. Jesus, G.C. Pereira, J.R.D. Guimaraes, R.S. Peixoto, A.M.R. Davila, A.S. Rosado, Bacterial and archaeal communities variability associated with upwelling and anthropogenic pressures in the protection area of Arraial do Cabo (Cabo Frio region – RJ)

S. Bonato, U. Christaki, A. Lefebvre, F. Lizon, M. Thyssen, L.F. Artigas, High spatial variability of phytoplankton assessed by flow cytometry, in a dynamic productive coastal area, in spring: The eastern English Channel

M. Dugenne, M. Thyssen, N. Garcia, N. Mayot, G. Bernard, Monitoring of a Potential Harmful Algal Species in the Berre Lagoon by Automated In Situ Flow Cytometry, In Marine Productivity: Perturbations and Resilience of Socio-ecosystems,

A. Golabgir, D. Ehgartner, L. Neutsch, A.E. Posch, P. Sagmeister, C. Herwig, Imaging Flow Cytometry and High-Throughput Microscopy for Automated Macroscopic Morphological Analysis of Filamentous Fungi, In Genetic Transformations Systems in Fumgi, Volume 2, Springer International Publishing, 


Phytoplankton community structure in the North Sea: coupling between remote sensing and automated in situ analysis at the single cell level

Progressive decoupling between phytoplankton growth and microzooplankton grazing during an iron-induced phytoplankton bloom in the Southern Ocean (EIFEX)

Consequence of a sudden wind event on the dynamics of a coastal phytoplankton community: An insight into specific population growth rates using a single cell high frequency approach

Onset of the spring bloom in the northwestern Mediterranean Sea: influence of environmental pulse events on the in situ hourly-scale dynamics of the phytoplankton community structure, Front. Microbiol. 5, 387

S. Fontana, J. Jokela, F. Pomati, Opportunities and challenges in deriving phytoplankton diversity measures from individual trait-based data obtained by scanning flow-cytometry

E.D. Cooper, B. Bentlage, T.R. Gibbons, T.R. Bachvaroff, C.F. Delwiche, Metatranscriptome profiling of a harmful algal bloom

Structural Analysis and Static Simulation of Coastal Planktonic Networks

M. Denis, Recent advances in assessing the Dynamics of phytoplankton assemblages by high frequency analysis at the single cell level,

The challenge of clustering flow cytometry data from phytoplankton in lakes, In Nonlinear Dynamics of Electronic Systems, Springer International Publishing, 379-389

M.N. Mcfarland, Impact of Phytoplankton Community Structure and Function on Marine Particulate Optical Properties, Open Access Dissertation (2014)

K.R. Owen, Flow Cytometric Investigation of the Size Spectrum of North Sea Phytoplankton Communities, Open Access Dissertation (2014)


Andrea Gerecht, Ylenia Carotenuto, Adrianna Ianora, Giovanna Romano, Angelo Fontana, Giuliana d’Ippolito, Hans H. Jakobsen, Jens C. Nejstgaard Oxylipin production during a mesocosm bloom of Skeletonema marinoi Journal of Experimental Marine Biology and Ecology 446,  159-165

Francesco Pomati, Luca Nizzetto Assessing triclosan-induced ecological and trans-generational effects in natural phytoplankton communities: a trait-based field method  Ecotoxicology (doi 10.1007/s10646-013-1068-7)

Francesco Pomati, Nathan J. B. Kraft, Thomas Posch, Bettina Eugster, Jukka Jokela, Bas W. Ibelings Individual Cell Based Traits Obtained by Scanning Flow-Cytometry Show Selection by Biotic and Abiotic Environmental Factors during a Phytoplankton Spring Bloom PLoS One 8(8) e71677


Q. Zhou, W. Chen, H. Zhang et al. A Flow Cytometer Based Protocol for Quantitative Analysis of Bloom-forming Cyanobacteria (Microcystis) in Lake Sediments 

Grazer-induced chain length plasticity reduces grazing risk in a marine diatom 

MERIS observations of phytoplankton blooms in a stratified eutrophic lake. Remote Sensing of Environment, 126, 232-239

J. S. Erickson, N. Hashemi, J. M. Sullivan, A. D. Weidemann, F. S. Ligler. . Analytical Chemistry, 84 (2), 839-850

H. Oua, N. Gaoa, C. Weib, Y. Dengc, J. Qiaoa Immediate and long-term impacts of potassium permanganate on photosynthetic activity, survival and microcystin-LR release risk of Microcystis aeruginosa.

H. Ou, N. Gao, Y.Deng, J. Qiao, H. Wan Immediate and long-term impacts of UV-C irradiation on photosynthetic capacity, survival and microcystin-LR release risk of Microcystis aeruginosa. Water Research, 46 ( 4), 1241-1250


Extensive cross-disciplinary analysis of biological and chemical control of Calanus finmarchicus reproduction during an aldehyde forming diatom bloom in mesocosms

Malkassian A, Nerini D, van Dijk MA, Thyssen M, Mante C, Gregori G.
Functional Analysis And Classification Of Phytoplankton Based On Data From An Automated Flow Cytometer Cytometry A. 79(4):263-75

G.C. Pereira, N.F.F. Ebecken Combining In Situ Flow Cytometry And Artificial Neural Networks For Aquatic Systems Monitoring Expert Systems with Applications

Thyssen M, Beker B, Ediger D, Yilmaz D, Garcia N, Denis M Phytoplankton Distribution During Two Contrasted Summers In A Mediterranean Harbour: Combining Automated Submersible Flow Cytometry With Conventional TechniquesEnviron Monit Assess 173(1-4), 1-16

Microbial Diversity Of A Brazilian Coastal Region Influenced By An Upwelling System And Anthropogenic Activity PLoS One 6(1): e16553

Thyssen, M., Ferreyra, G., Moreau, S., Schloss S., Denis, M., Demers, S. The combined Effects Of Ultraviolet Radiations B And Temperature Increase On Phytoplankton Dynamics And Cell Cycle Using Pulse Shape Recording Flow Cytometry.  Journal of Experimental Marine Biology and Ecology 406, 95-107

Thyssen M., Denis M., Temporal And Spatial High-Frequency Monitoring Of Phytoplankton By Automated Flow Cytometry And Pulse-Shape AnalysisSpringer Verlag. Global Change: Mankind-Marine Environment Interactions293-298 (5), doi: 10.1007/978-90-481-8630-3_53.

Francesco Pomati, Jukka Jokela, Marco Simona, Mauro Veronesi, and B. W. Ibelings An Automated Platform for Phytoplankton Ecology and Aquatic Ecosystem Monitoring 


B. W. Hansen, H. H. Jakobsen, A. Andersen, R. Almeda, T. M. Pedersen, A. M. Christensen and B. Nilsson Swimming Behavior And Prey Retention Of The Polychaete Larvae polydora Ciliata (Johnston)  Journal of Experimental Biology 213, 3237-3246 

Mark A. van Dijk, Gerald Gregori, Hans L. Hoogveld, Machteld Rijkeboer, Michel Denis, Anthony Malkassian, Herman J. Gons Optimizing The Setup Of A Flow Cytometric Cell Sorter For Efficient Quantitative Sorting Of Long Filamentous Cyanobacteria 

Susanne Wilken, Suzanne Wiezer, Jef Huisman, Ellen Van Donk. Microcystins Do Not Provide Anti-Herbivore Defence Against Mixotrophic Flagellates Aquat Microb Ecol 59: 207-216

G. C. Pereira, A. R. de Figuiredo, P. M. Jabor, and N. F. F. Ebecken Assessing The Ecological Status Of Plankton In Anjos Bay: A Flow Cytometry Approach 

Ibelings, B. W., Pomati, F. ., Matthews, B. Regime Shifts In Plankton Community Assembly: Long Term Data From Lake Zurich, Switzerland. At the 2010 ASLO/NABS Summer Meeting, Santa Fe.

Abstracts 26&27, Symposium The Role of Littoral Processes in Lake Ecology, Hegne (Lake Constance), Germany


Alexandra Barofsky, Paolo Simonelli, Charles Vidoudez, Christofer Troedsson, Jens C Nejstgaard, Hans H Jakobsen and Georg Pohnert Growth Phase Of The Diatom Skeletonema Marinoi Influences The Metabolic Profile Of The Cells And The Selective Feeding Of The Copepod Calanus Spp. J Plankton Res 32(3):263-272

Growth Patterns Of Chlamydomonas Reinhardtii And Microcystis Aeruginosa Analysed With The Pas Iii And The Cytosense 17th Annual DGfZ meeting, Leipzig

Almeda, R., Pedersen, M. T., Jakobsen, H. H. and Hansen, B. W. Feeding And Growth Kinetics By The Planktotrophic Larvae Of The Spionid Polychaete Polydora Ciliata (Johnston)J. Exp. Mar. Biol. Ecol. 382, 61-68.

Ann Atzberger: Flow Cytometry, The Sky Is The Limit European Pharmaceutical Review Digital 2009, 2, 16-23

Francesco Pomati Closer Monitoring Of Lake Water EAWAG Annual Report 2009, 16-17, EAWAG, Kastanienbaum, Switzerland

Dissimilarity-Based Classification of Multidimensional Signals by Conjoint Elastic Matching: Application to Phytoplanktonic Species Recognition In: Palmer-Brown D., Draganova C., Pimenidis E., Mouratidis H. (eds) Engineering Applications of Neural Networks. EANN 2009. Communications in Computer and Information Science, vol 43. Springer, Berlin, Heidelberg

Thyssen M., Garcia N. and Denis M. Sub-Meso Scale Phytoplankton Distribution In The North East Atlantic Surface Waters Determined With An Automated Flow Cytometer.
Biogeoscience. 6: 569-583.

J. Dyble, M. Evans, D. Hyndman, E. Litchman, M. Phanikumar, O. Sarnelle, R. Stevenson, Complex Interactions among Land, Water, and Harmful Algal Blooms 

Percy L. Donaghay, Jan Rines and James Sullivan In situ Quantification of the Impact of Episodic Enhanced Turbulent Events on Large Phytoplankton ONR Grant N000140910492

Pereira, G.C.I; Granato, A.II; Figueiredo, A.R.I; Ebecken N.F.F.I: Virioplankton Abundance in Trophic Gradients of an Upwelling Field Brazilian Journal of Microbiology (2009) 40: 857-865

Ellen Van Donk, Slawek Cerbin, Susanne Wilken, Nico R. Helmsing, Robert Ptacnik, Antonie M. Verschoor The Effect Of A Mixotrophic Chrysophyte On Toxic And Colony-Forming Cyanobacteria 


Thyssen M., Mathieu D., Garcia N. and Denis M. Short-Term Variation Of The Phytoplankton Assemblage In The Bay Of Marseille (france) Monitored By In Situ Flow CytometryJournal of Plankton Research, 30: 1027 – 1040.

The Emergence Of Automated High Frequency Flow Cytometry : Revealing Temporal And Spatial Phytoplankton Variability. Journal of Plankton Research, 30 : 333-343; doi :10.1093/plankt/fbn005.

Thyssen, M., Garcia, N. and Denis, M. Sub meso scale phytoplankton distribution in the north east Atlantic surface waters determined with an automated flow cytometer 


Phil F. Culverhouse Human And Machine Factors In Algae Monitoring Performance Ecological Informatics 2 (4),  361-366

Dubelaar G. B. J., Casotti R., Tarran G. A., Biegala I. C. Phytoplankton And Their Analysis By Flow Cytometry. In: Dolezel J., Greilhuber J., Suda J. (eds.) Flow Cytometry with Plant Cells. Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim. 2007.

John Paul, Chris Scholin, Ger van den Engh, Mary Jane Perry. In situ InstrumentationOceanography 20, 2: 70-78


Misaki Takabayashi, Kevin Lew, Amber Johnson, Al Marchi, Richard Dugdale, and Frances P. Wilkerson The Effect Of Nutrient Availability And Temperature On Chain Length Of The Diatom Skeletonema costatum. Journal of Plankton Research 28, 9, 831-840.

Mike Zubkov, Ross Holland Microbial Abundance And Dynamics Cruise Report No. 60, Rrs Discovery Cruises 285/286, CROZet circulation, iron fertilization and EXport production experiment (CROZEX), Ch. 10, Principal Scientists R T Pollard & R Sanders, Southampton Oceanography Centre, UK

Burkill, P.H. Rrs Discovery Cruise 306, 23 Jun-06 Jul 2006. Pelagic Biogeochemistry Of The PAP Site Southampton, UK, National Oceanography Centre Southampton, 92pp. (National Oceanography Centre Southampton Cruise Report, 9).


Rutten TPA, Sandee A, Hofman ART Phytoplankton Monitoring By High Performance Flow Cytometry: A Successful Approach? Cytometry Part A 64A: 16-26


Franciscus Colijn, Meike Dibbern 

L. M. Dionisio Pires, R. R. Jonker, E. Van Donk And H. J . Laanbroek,  Selective Grazing By Adults And Larvae Of The Zebra Mussel (dreissena Polymorpha): Application Of Flow Cytometry To Natural Seston 

Dubelaar GBJ, Geerders PJF,  Innovative Technologies To Monitor Plankton Dynamics – Scanning Flow Cytometry: A New Dimension In Real-Time, In-Situ Water Quality Monitoring. Sea Technology  45 :15-21

Dubelaar GB, Geerders PJ, Jonker RR High Frequency Monitoring Reveals Phytoplankton Dynamics. J Environ Monit;  Dec;6(12):946-52

Oscar Schofield, Scott Glenn, Mark Moline, Clayton Jones, Doug Webb, Gwyn Griffiths Dawn In The Age of Ocean Robots, Alliance For Coastal Technologies AUV Workshop Mobile Sensor Platforms, Maine 2004


Do Experts Make Mistakes? A Comparison Of Human And Machine Identification Of Dinoflagellates Mar Ecol-Prog Ser 247: 17-25 

Carol Robinson, AMT13 Cruise ReportPlymouth Marine Laboratory, UK

M.F. Wilkins, L. Boddy, G.B.J. Dubelaar, Identification Of Marine Microalgae By Neural Network Analysis Of Simple Descriptors Of Flow Cytometric Pulse Shapes. In: Recknagel F. (eds) Ecological Informatics. Springer, Berlin, Heidelberg, pp 431-443

Alex Cunningham, David McKee, Susanne Craig, Glen Tarran, Claire Widdicombe Fine-Scale Variability In Phytoplankton Community Structure And Inherent Optical Properties Measured From An Autonomous Underwater Vehicle. 


Glen Tarran, Peter Burkill, Alex Cunningham, George Dubelaar and Peter Gerritzen, CytoSub: An In Situ Flow Cytometer For Analysing Phytoplankton With The Autosub Auv. Proceedings Int. Workshop Autonomous Measurements of Biogeochemical Parameters in the Ocean, Honolulu, Oahu, Hawaii (Feb. 20-22,2001)


Alex Cunningham, George Dubelaar and Peter Gerritzen, Submersible Flow Cytometer For Marine Particle Analysis: Design And Initial Trials. Proceedings Ocean Optics Conference in Monaco in October 2000.

Dubelaar G.B.J. and P.L. Gerritzen CytoBuoyA Step Forwards Towards Using Flow Cytometry In Operational Oceanography. Scientia Marina, 64 (2): 255-265

Dubelaar G.B.J. and R.R. Jonker Flow Cytometry As A Tool For The Study Of Phytoplankton. Scientia Marina, 64 (2): 135-156

Veldhuis MJW, Kraay GW. Application Of Flow Cytometry In Marine Phytoplankton Research: Current Applications And Future Perspectives Scientia Marina 64 (2): 121-134 

Jonker R., Groben R., Tarran G., Medlin L.K., Wilkins M., Garcia L., Zabala L. & Boddy L., Automated Identification And Characterization Of Microbial Populations Using Flow Cytometry: The Aims Project. Scientia Marina, 64: 225-234

1999 – 1989

Dubelaar G.B.J., Gerritzen P.L., Beeker A.E.R., Jonker R.R. and Tangen K. Design And First Results Of The Cytobuoy: An Autonomous Flow Cytometer With Wireless Datatransfer For In Situ Analysis Of Marine And Fresh Waters. Cytometry 37:247-254(1999)

Dubelaar G.B.J., K. Tangen, P.L. Gerritzen, A.E.R. Beeker and R.R. Jonker Cytobuoy: In Situ Optical Scanning Of Individual Particles With A Buoy Mounted Flow Cytometer. Third European Marine Science and Technology Conference, Lisbon, 23-27 May 1998, Project Synopses (K.-G. Barthel et al.: Eds.), Volume IV: Advanced Systems, Pages: 1500-1511, EUR 18220 EN, ISBN 92-828-2896-4 (1999)

 Visser PM, Ketelaars HAM, van Breemen LWCA, et al., Diurnal Buoyancy Changes Of Microcystis In An Artificially Mixed Storage Reservoir Hydrobiologia 331 (1-3): 131-141 (1996)

Vrieling EG, Vriezekolk G, Gieskes WWC, Veenhuis M,  Harder W.  Immuno-Flow Cytometric Identification And Enumeration Of The Ichthyotoxic Dinoflagellate Gyrodinium Aureolum Hulburt In Artificially Mixed Algal Populations J Plankton Res 18 (8): 1503-1512 (1996)

Wilkins MF, Boddy L, Morris CW, Jonker R. A Comparison Of Some Neural And Non-Neural Methods For Identification Of Phytoplankton From Flow Cytometry Data ComputAppl Biosci 12 (1): 9-18 (1996)

A European Optical Plankton Analysis System: Flow Cytometer Based Technology For Automated Phytoplankton Identification And Quantification In M. Weydert, E. Lipiatou, R. Goni, C. Frangakis, M. Bohle-Carbonell, and K. G. Barthel (ed.), Marine science and Technologies 2nd MAST days and EUROMAR market. Project reports, 1995, Volume II, 945-956, CEC, Brussels, Belgium.

Jonker R.R., Meulmans J.T.M., Dubelaar G.B.J. and Ringelberg J., Flow Cytometry: A Powerful Tool In Analysis Of Biomass Distributions In Phytoplankton. Water Science and Technology, 32,4, 177-182, (1995)

Dubelaar G.B.J. and Van der Reijden C.S., Size Distributions Of Microcystis Aeruginosa Colonies: A Flow Cytometric ApproachWater Science and Technology, 32, 4, 171-176, (1995)

J.F. Keij, A..C. Groenewegen, G.B.J. Dubelaar and J.W.M. Visser. High-Speed Photodamage Cell Selection Using A Frequency Doubled Argon Ion Laser. Cytometry 19,3, 209-216 (1995) 

G.B.J. Dubelaar, RR Jonker, JTM Meulemans and JJF van Veen. Phytoplankton Analysis By (EurOPA) Flow Cytometry; Current And Future Applications In Environmental ControlProceedings Oceans 94 OSATES, Vol.I, pp.683-689 (1994)

Hofstraat JW, Van Zeijl WJM, De Vreeze MEJ, et al., Phytoplankton Monitoring By Flow-Cytometry J Plankton Res 16 (9): 1197-1224 (1994)

Hofstraat JW, Van Zeijl WJM, Peeters JCH, et al., Flow-Cytometry – Fast And Quantitative Characterization Of Particles In Suspension Anal Chim Acta 290 (1-2): 135 145 (1994)

Balfoort HW, Berman T, Maestrini SY,Wenzel A, Zohary T. Flow-Cytometry – Instrumentation And Application In Phytoplankton Research Hydrobiologia 238: 89-97 (1992)

Balfoort HW, Snoek J, Smits JRM, Breedveld LW,  Hofstraat JW, Ringelberg J. Automatic Identification Of Algae – Neural Network Analysis Of Flow Cytometric Data J Plankton Res 14 (4): 575-589 (1992)

Smits JRM, Breedveld LW, Derksen MWJ, et al. Pattern-Classification With Artificial Neural Networks – Classification Of Algae, Based Upon Flow Cytometer Data Anal Chim Acta 258 (1): 11-25  (1992)

G.B.J. Dubelaar, HW Balfoort en JW Hofstraat Automated Identification And Counting Of PhytoplanktonWater Science and Technology, 24 (10),285-286 (1991)

Hofstraat JW, Vreeze MEJ, Zeijl van WJM, Peperzak L, Peeters JCH, Balfoort HW. Flow Cytometric Discrimination Of Phytoplankton Size Classes By Fluorescence Emission And Excitation Properties J. of Fluorescence 1, p249-265 (1991)

Hofstraat J.W., W.J.M. van Zeijl, J.C.H. Peeters, L. Peperzak and G.B.J. Dubelaar Flow Cytometry And Other Optical Methods For Characterization And Quantification Of Phytoplankton In Seawater In: H.O. Nielsen (Ed), Environment and Pollution Measurements Sensors and Systems, S.P.I..E. Proceedings 1269, pp. 116-133, Int.Soc.Opt.Eng, Bellingham, WA (1990)

G.B.J. Dubelaar, HW Balfoort en JW Hofstraat  Flowcytometrie: Snelle Optische Analyse Van Fytoplankton In Watermonsters. H2O (23)18,472-475 (1990)

Peeters J.C.H.., G.B.J. Dubelaar, J. Ringelberg and J.W.M. Visser The Optical Plankton Analyser (O.P.A.): A Flow Cytometer For Plankton Analysis, I: Design Considerations. Cytometry 10: 522-528 (1989)

Dubelaar G.B.J., A..C. Groenewegen, W. Stokdijk, G.J. van den Engh and J.W.M. Visser. The Optical Plankton Analyser (O.P.A.): A Flow Cytometer For Plankton Analysis, II: SpecificationsCytometry 10: 529-539 (1989)