DOI: 10.5281/zenodo.17601020
title: SYKE-plankton_IFCB_2025

description: The dataset available here is an updated version of SYKE-plankton_IFCB_2022 (DOI:https://doi.org/XXXX/b2share.959d9bdf9b4247299498ad8d351ce0fb). It contains approximately 71 000 images belonging to 152 different classes, consisting mainly of phytoplankton. The images can be used to e.g. train a classifier to identify phytoplankton images. If used in scientific applications, please aknowledge the authors/ creators of the dataset accordingly.The images were collected with an Imaging FlowCytobot (IFCB, McLane Research Laboratories, Inc., U.S., Olson and Sosik, 2007) from different locations in the Baltic Sea between 20016 and 2024. The data were collected from a continuous deployment at the Utö Atmospheric and Marine Research Station (59°46.84’ N, 21°22.13’ E; Laakso et al., 2018; Kraft et al., 2021) operated by Finnish Environment Institute and Finnish Meteorological Institute (n=470). Also, water samples were collected using the Alg@line ferrybox systems of M/S Finnmaid and Silja Serenade (Ruokanen et al., 2003; Kaitala et al., 2014) and manually ran in the laboratory (n=43), and from a continuous deployment from M/S Finnmaid (n=56). The images were manually annotated by expert taxonomists. The class list and labeled image set is a continuous work in progress, thus there may be a need for revision in future. More detailed explanation and example images of 50 different classes can be found from the publication Kraft et al. 2022.The work utilized SYKE and FMI marine research infrastructure as a part of the national FINMARI RI consortium. The work was partly funded by Tiina and Antti Herlin Foundation (personal grant for KK), Academy of Finland project FASTVISION-plus (grant no. 339355), JERICO-S3 project, funded by the European Commission’s H2020 Framework Programme under grant agreement No. 871153, and OBAMA-NEXT funded by the European Union under the Horizon Europe program under grant agreement No. 101081642.

Class list 

Akinete

Amphidinium-Katodinium

Amphidinium-Katodinium2

Amphidinium_crassum

Amphidinium_sphenoides

Amylax_triacantha

Aphanizomenon_flosaquae

Aphanothece_paralleliformis

Apocalathium_malmogiense

Beads

Biecheleria_baltica

Binuclearia_lauterbornii

Bubble

Bubble2

Bubble3

Cerataulina_pelagica

Chaetoceros_spp_chain

Chaetoceros_spp_chain2

Chaetoceros_spp_single

Chlorococcales

Chlorococcales2

Chlorococcales3

Chlorococcales4

Chroococcales

Chroococcus_spp

Ciliata_Askenasia_spp

Ciliata_Balanionidae

Ciliata_Choreotrichida_spp

Ciliata_Euplotida_spp

Ciliata_Halteria_spp

Ciliata_Strombidium_cf_conicum

Ciliata_Strombidium_spp

Ciliata_Tintinnina

Ciliata_Urotricha_spp

Ciliata_cf_Holophrya_spp

Ciliata_cf_larvae

Ciliata_sp

Ciliata_sp2

Ciliata_spp

Ciliata_spp2

Copepod_nauplii

Coscinodiscus_granii

Cryptomonadales

Cyclotella_choctawhatcheeana

Cylindrotheca_closterium

Cymbomonas_tetramitiformis

Cyst_like

Dactyliosolen_fragilissimus

Detritus1

Detritus2

Detritus3

Detritus4

Diatoma_tenuis

Dinobryon_spp

Dinophyceae_obscure

Dinophyceae_pairs

Dinophyceae_sp

Dinophyceae_spp

Dinophysis_spp

Dolichospermum-Anabaenopsis

Dolichospermum-Anabaenopsis_coiled

Ebria_tripartita

Empty_cell_part

Entomoneis

Euglenophyceae

Euglenophyceae2

Eutreptiella_sp

Fecal_pellet

Gonyaulax_verior

Guinardia_delicatula

Gymnodiniales

Gymnodinium-Gyrodinium

Gymnodinium_corollarium

Gymnodinium_sp

Gymnodinium_sp10

Gymnodinium_sp11

Gymnodinium_sp12

Gymnodinium_sp13

Gymnodinium_sp14

Gymnodinium_sp2

Gymnodinium_sp3

Gymnodinium_sp4

Gymnodinium_sp5

Gymnodinium_sp6

Gymnodinium_sp7

Gymnodinium_sp8

Gymnodinium_sp9

Gyrodinium_spirale

Helicostomella_subulata

Heterocapsa_arctica_subsp_frigida

Heterocapsa_rotundata

Heterocapsa_triquetra

Heterocyte

Katablepharis_remigera

Katodinium_glaucum

Licmophora_spp

Melosira_arctica

Melosira_arctica2

Merismopedia_sp

Mesodinium_major

Mesodinium_rubrum

Mesodinium_rubrum2

Mesodinium_spp

Mesodinium_spp2

Mesodinium_spp3

Monoraphidium_contortum

Navicula_spp_chain

Nitzschia_frigida

Nitzschia_paleacea

Nodularia_spumigena

Nodularia_spumigena_coiled

Octactis_speculum

Oocystis_sp

Oscillatoriales

Pauliella_taeniata

Pauliella_taeniata2

Pauliella_taeniata3

Pauliella_taeniata4

Pauliella_taeniata5

Pauliella_taeniata6

Pennales_sp

Pennales_sp2

Peridiniella_catenata_chain

Peridiniella_catenata_single

Peridiniella_catenata_single2

Plagioselmis_prolonga

Pollen

Prorocentrum_cordatum

Protoperidinium_bipes

Pseudopedinella-Apedinella

Pyramimonas_spp

Rotifera

Scenedesmus_spp

Skeletonema_marinoi

Snowella-Woronichinia

Snowella-Woronichinia

Teleaulax_amphioxeia

Teleaulax_spp

Thalassionema_nitzschioides

Thalassiosira_levanderi

Thalassiosira_spp_chain

Thalassiosira_spp_single

Tintinnid_lorica

Unknown

Unknown2

Unknown3

Unknown4

Unknown5

Unknown6

Uroglenopsis_sp

Vorticella

cf_Micracanthodinium_claytonii