Publications by SCOR WG157 MetaZooGene Members  

Acknowledgement symbols:  SCOR and NSF (**), SCOR (*); ECS authors (++)

Click on year to right to jump to that year:  2024 : 2023 : 2022 : 2021 : 2020 : 2019

++**Batta-Lona, P.G., K. Gardner, J.M. Questel, S.R. Thorrold, J.K. Llopiz, P.H. Wiebe, and A. Bucklin (2024) Salps in the NW Atlantic Slope Water: Metabarcoding and compound-specific stable isotope analysis of diet diversity and trophic interactions. Marine Biol. 171:233. https://link.springer.com/article/10.1007/s00227-024-04535-x 

++**Bucklin, A., P.G. Batta-Lona, J.M. Questel, H. McMonagle, M. Wojcicki, J.K. Llopiz, S. Glancy, P.E. Caiger, R. Francolini, A. Govindarajan, S.R. Thorrold, M. Jech, and P.H. Wiebe (2024) Metabarcoding and morphological analysis of diets of mesopelagic fishes in the NW Atlantic Slope Water. Front. Mar. Sci. 11:1411996. https://doi.org/10.3389/fmars.2024.1411996

++Di Capua, I., Luise, F., Zampicinini, G., et al. (2024) Integrative approach to monitoring metazoan diversity and distribution in two Mediterranean coastal sites through morphology and organismal eDNA. Science Reports. https://doi.org/10.1038/s41598-024-69520-2

++Govender, A., Willows-Munro, S., Singh, S.P., Groeneveld, J.C. (2024) Net type, tow duration and day/night sampling effects on the composition of marine zooplankton derived from metabarcoding. Metabarcoding and Metagenomics. https://doi.org/10.3897/mbmg.8.119614  

++**O’Brien, T.D., Blanco-Bercial, L., Questel, J.M., Batta-Lona, P.G., Bucklin, A. (2024) MetaZooGene Atlas and Database: Reference Sequences for Marine Ecosystems. In: DNA Barcoding. Methods in Molecular Biology. https://doi.org/10.1007/978-1-0716-3581-0_28 

++Beckmann, L.M., Soto-Angel, J.J., Hosia, A., Martell, L. (2023) Odd family reunion: DNA barcoding reveals unexpected relationship between three hydrozoan species. PeerJ 11:e15118 https://doi.org/10.7717/peerj.15118

++**Bucklin, A., Questel, J.M., Batta-Lona, P.G. et al. (2023) Population genetic diversity and structure of the euphausiids Thysanoessa inermis and T. raschii in the Arctic Ocean: inferences from COI barcodes. Mar. Biodivers. 53: 70. https://doi.org/10.1007/s12526-023-01371-y

++Choo, L.Q., Spagliardi, G., Malinsky, M., Choquet, M., Goetze, E., Hoarau, G., Peijnenburg, K.T.C.A. (2023) Genome-wide phylogeography reveals cryptic speciation in the circumglobal planktonic calcifier Limacina bulimoides. Molec. Ecol. 32: 3200–3219. https://doi.org/10.1111/mec.16931 

Gonzalez C.E., Blanco-Bercial, L., Escribano, R., Fernandez-Urruzola, I., Rivera, R. and Ulloa, O. (2023) Revealing zooplankton diversity in the midnight zone. Front. Mar. Sci. 10:1252535. https://doi.org/10.3389/fmars.2023.1252535

++Hirai, J., Katakura, S., Nagai, S. (2023) Comparisons of genetic population structures of copepods Pseudocalanus spp. in the Okhotsk Sea: the first record of P. acuspes in coastal waters off Japan. Mar. Biodivers. 53: 12. https://doi.org/10.1007/s12526-022-01323-y

Huys, R., Savchenko, A.S., Kosobokova K.N. (2023) Discovery of a new species and host record of Holophryxus Richardson, 1905 (Isopoda: Dajidae) from the central Arctic: a model of enhanced descriptive standards for epicaridean isopods, Zool. J. Linnean Soc. 198: 592–649. https://doi.org/10.1093/zoolinnean/zlac105

Matthews S.A., Blanco-Bercial L. (2023). Divergent patterns of zooplankton connectivity in the epipelagic and mesopelagic zones of the eastern North Pacific. Ecology and Evolution, 13:  e10664. https://doi.org/10.1002/ece3.10664

++Sildever, S., Nishi, N., Tazawa, S., Kasai, H., Hirai, J., Shiomoto, A., Kikuchi, T., Katakura, S., Nagai, S. (2023) Eight years of weekly eDNA monitoring in the North-Western Pacific. eDNA 5: 1202–1215. https://doi.org/10.1002/edn3.452

++Suter, L., Wotherspoon, S., Kawaguchi, S., King, R., MacDonald, A. J., Nester, G.M., Polanowski, A.M., Raymond, B., Deagle, B.E. (2023) Environmental DNA of Antarctic krill (Euphausia superba): Measuring DNA fragmentation adds a temporal aspect to quantitative surveys. eDNA 5: 945–959. https://doi.org/10.1002/edn3.394

++Watanabe T, Hirai J, et al. (2023) Improving taxonomic classification of marine zooplankton by molecular approach: registration of taxonomically verified 18S and 28S rRNA gene sequences. PeerJ 11:e15427. https://doi.org/10.7717/peerj.15427 

**Bucklin, A., P.G. Batta-Lona, J.M. Questel, P.H. Wiebe, D.E. Richardson, N.J. Copley and T.D. O’Brien (2022) COI metabarcoding of zooplankton species diversity for time-series monitoring of the NW Atlantic continental shelf. Front. Mar. Sci. 9:867893. https://doi.org/10.3389/fmars.2022.867893  (Acknowledges SCOR WG157 & NSF)

Choo L.Q., Bal T.M.P., Goetze E., Peijnenburg K.T.C.A. (2021) Oceanic dispersal barriers in a holoplanktonic gastropod, Journal of Evolutionary Biology, 34: 224–240, https://doi.org/10.1111/jeb.13735

*DiCapua, I., R. D’Angiolo, R. Piredda, C. Minucci, F. Boero, M. Uttieri, and Y. Carotenuto (2022) From phenotypes to genotypes and back: Toward an integrated evaluation of biodiversity in calanoid copepods. Front. Mar. Sci. 9:833089. https://doi.org/10.3389/fmars.2022.833089

Hirai J., Chen F., Itoh H., Tadokoro K., Lemay M.A., Hunt B.P.V., Tsuda A. (2022) Molecular and morphological analyses to improve taxonomic classification of Metridia lucens/pacifica in the North Pacific, Journal of Plankton Research 44: 454–463, https://doi.org/10.1093/plankt/fbac020

*Huggett, J. A., Groeneveld, J. C., Singh, S. P., Willows-Munro, S., Govender, A., Cedras, R., et al. (2022). Metabarcoding of zooplankton to derive indicators of pelagic ecosystem status. S. Afr. J. Sci. 118. doi: 10.17159/sajs.2022/12977.

Takahashi K., Itoh H., Hirai J., Tadokoro K., Nishiuchi K. (2022) A new species of genus Sapphirina (Copepoda, Cyclopoida) from the Kuroshio Extension region in the western North Pacific Ocean, Plankton and Benthos Research 17: 358-368, https://doi.org/10.3800/pbr.17.358

Ueda H., Itoh H., Hirai J., Hidaka K. (2022) Paracalanus orientalis n. sp. (Copepoda, Calanoida), formerly referred to as P. parvus in Japanese coastal waters.  Plankton and Benthos Research 17: 221-230. https://doi.org/10.3800/pbr.17.221

Yebra L., García-Gómez C., Valcárcel-Pérez N., Hernández de Rojas A., Blanco-Bercial L., Castro M.C., Gómez-Jakobsen F., Mercado J.M. (2022) Assessment of short-term spatio-temporal variability in the structure of mesozooplankton communities integrating microscopy and multigene high-throughput sequencing. Estuarine, Coastal and Shelf Science 276: 108038. https://doi.org/10.1016/j.ecss.2022.108038 

**Bucklin, A., Peijnenburg, K.T.C.A., Kosobokova, K., and Machida, R.J. (2021) New insights into biodiversity, biogeography, ecology, and evolution of marine zooplankton based on molecular approaches. ICES Journal of Marine Sciences, https://doi.org/10.1093/icesjms/fsab198

**Bucklin, A., Peijnenburg, K.T.C.A., Kosobokova, K.N., O’Brien, T.D., Blanco-Bercial, L., Cornils, A., Falkenhaug, T., Hopcroft, R.R., Hosia, A., Laakmann, S., Li, C., Martell, L., Questel, J.M., Wall-Palmer, D., Wang, M., Wiebe, P.H., and Weydmann-Zwolicka, A. (2021) Toward a global reference database of COI barcodes for marine zooplankton. Marine Biology, 168, 1–26. https://doi.org/10.1007/s00227-021-03887-y

**Bucklin, A., Questel, J. M., Blanco-Bercial, L., Frenzel, A., Smolenack, S., and Wiebe, P.H. (2021) Population connectivity of the euphausiid, Stylocheiron elongatum, in the Gulf Stream (NW Atlantic Ocean) in relation to COI barcode diversity of Stylocheiron species. ICES Journal of Marine Science, https://doi.org/10.1093/icesjms/fsab158

*Di Capua, I., Piredda, R., Mazzocchi, M.G., and Zingone, A. (2021) Metazoan diversity and seasonality through eDNA metabarcoding at a Mediterranean long-term ecological research site. ICES Journal of Marine Science, https://doi.org/10.1093/icesjms/fsab059

Hirai J, Yamazaki K, Hidaka K, Nagai S, Shimizu Y, Ichikawa T (2021) Characterization of diversity and community structure of small planktonic copepods in the Kuroshio region off Japan using a metabarcoding approach. Mar Ecol Prog Ser 657:25-41. https://doi.org/10.3354/meps13539

Hirai J., Hidaka K., Nagai S., Shimizu Y. (2021) DNA/RNA metabarcoding and morphological analysis of epipelagic copepod communities in the Izu Ridge off the southern coast of Japan, ICES Journal of Marine Science, 78: 3444–3456, https://doi.org/10.1093/icesjms/fsab064

Kobari, T., Tokumo Y., Sato I., Kume G., Hirai J. (2021) Metabarcoding analysis of trophic sources and linkages in the plankton community of the Kuroshio and neighboring waters. Sci Rep 11: 23265. https://doi.org/10.1038/s41598-021-02083-8

Kume, G., Kobari, T., Hirai, J., Kuroda J., Takeda T., Ichinomiya M., Komorita T., Aita-Noguchi M., Hyodo F. (2021) Diet niche segregation of co-occurring larval stages of mesopelagic and commercially important fishes in the Osumi Strait assessed through morphological, DNA metabarcoding, and stable isotope analyses. Mar Biol 168: 6 https://doi.org/10.1007/s00227-020-03810-x

**Machida, R.J., Kurihara, H., Nakajima, R., Sakamaki, T., Lin, Y.-Y., and Furusawa, K. (2021) Comparative analysis of zooplankton diversities and compositions estimated from complement DNA and genomic DNA amplicons, metatranscriptomics, and morphological identifications. ICES Journal of Marine Science, https://doi.org/10.1093/icesjms/fsab084

Maas A.E., Gossner H., Smith M.J., Blanco-Bercial L. (2021) Use of optical imaging datasets to assess biogeochemical contributions of the mesozooplankton, Journal of Plankton Research 43: 475–491, https://doi.org/10.1093/plankt/fbab037

Machida R.J., Kurihara H., Nakajima R., Sakamaki T., Lin Y.-Y., Furusawa K. (2021) Comparative analysis of zooplankton diversities and compositions estimated from complement DNA and genomic DNA amplicons, metatranscriptomics, and morphological identifications, ICES Journal of Marine Science 78: 3428–3443, https://doi.org/10.1093/icesjms/fsab084

*Matthews, S.A., Goetze, E., and Ohman, M.D. (2021) Recommendations for interpreting zooplankton metabarcoding and integrating molecular methods with morphological analyses. ICES Journal of Marine Science, https://doi.org/10.1093/icesjms/fsab107

**Parry, H.E., Atkinson, A., Somerfield, P.J., and Lindeque, P.K. (2021) A metabarcoding comparison of taxonomic richness and composition between the water column and the benthic boundary layer. ICES Journal of Marine Science, https://doi.org/10.1093/icesjms/fsaa228

Questel, J.M., Hopcroft, R.R., DeHart, H.M., Smoot C.A., Kosobokova K.N., Bucklin A. (2021) Metabarcoding of zooplankton diversity within the Chukchi Borderland, Arctic Ocean: improved resolution from multi-gene markers and region-specific DNA databases. Mar. Biodivers. 51: 4  https://doi.org/10.1007/s12526-020-01136-x

Singh, S., Groeneveld J.C., Huggett J. Naidoo D., Cedras R. Willows-Munro S., (2021) ‘Metabarcoding of marine zooplankton in South Africa’, African Journal of Marine Science, 43: 147–159. doi: 10.2989/1814232X.2021.1919759

Wall-Palmer D., Mekkes L., Ramos-Silva P., Dämmer L.K., Goetze E., Bakker K., Duijm E., Peijnenburg K.T.C.A. (2021) The impacts of past, present and future ocean chemistry on predatory planktonic snails. R. Soc. Open Sci.8202265. http://doi.org/10.1098/rsos.202265

Zhou F., Hirai J., Hamasaki K., Horii S., Tsuda A. (2021) Feeding Ecology of Three Euphausiid Species in the North Pacific Ocean Inferred From 18S V9 Metabarcoding and Stable Isotope Analysis. Frontiers in Marine Science 8. https://www.frontiersin.org/journals/marine-science/articles/10.3389/fmars.2021.756067 

Blanco-Bercial L. (2020) Metabarcoding Analyses and Seasonality of the Zooplankton Community at BATS. Frontiers in Marine Science 7. https://www.frontiersin.org/journals/marine-science/articles/10.3389/fmars.2020.00173

Choo, L.Q., Bal, T.M.P., Choquet, Smolina, I., Ramos-Silva, M.P., Marlétaz F., Kopp M., Hoarau G., Peijnenburg K.T.C.A. (2020) Novel genomic resources for shelled pteropods: a draft genome and target capture probes for Limacina bulimoides, tested for cross-species relevance. BMC Genomics 21, 11. https://doi.org/10.1186/s12864-019-6372-z

Crouch, K.E., L. Blanco-Bercial, D.E. Richardson, N.J. Copley, P.H. Wiebe, and A. Bucklin (2020) Species-specific patterns of distribution and abundance of the cryptic copepods Pseudocalanus moultoni and P. newmani on Georges Bank (NW Atlantic Ocean) 1995-2012. Cont. Shelf Research 208: 104242.  https://authors.elsevier.com/a/1bk2T-JmAmJ%7EP

DeHart, H.M., L. Blanco-Bercial, M. Passacantando, J.M. Questel, and A. Bucklin (2020) Pathways of pelagic connectivity: Eukrohnia hamata (Chaetognatha) in Arctic Ocean. Frontiers in Marine Science. https://doi.org/10.3389/fmars.2020.00396

Hirai, J. (2020) Insights into reproductive isolation within the pelagic copepod Pleuromamma abdominalis with high genetic diversity using genome-wide SNP data. Mar Biol 167, 1. https://doi.org/10.1007/s00227-019-3618-x

Hirai J, Tachibana A, Tsuda A (2020) Large-scale metabarcoding analysis of epipelagic and mesopelagic copepods in the Pacific. PLoS ONE 15(5): e0233189. https://doi.org/10.1371/journal.pone.0233189

Kodama T., Hirai J., Tawa A., Ishihara T., Ohshimo S. (2020) Feeding habits of the Pacific Bluefin tuna (Thunnus orientalis) larvae in two nursery grounds based on morphological and metagenomic analyses. Deep Sea Research Part II: Topical Studies in Oceanography, 175: 104745. https://doi.org/10.1016/j.dsr2.2020.104745

Kolbasova G., Kosobokova K., Neretina T. (2020) Bathy- and mesopelagic annelida from the Arctic Ocean: Description of new, redescription of known and notes on some “cosmopolitan” species. Deep Sea Research Part I: 165: 103327, https://doi.org/10.1016/j.dsr.2020.103327

Laakmann S., Blanco-Bercial L., Cornils A. (2020) The crossover from microscopy to genes in marine diversity: from species to assemblages in marine pelagic copepodsPhil. Trans. R. Soc. B37520190446  http://doi.org/10.1098/rstb.2019.0446 

Choquet M., Smolina I., Dhanasiri A.K.S., Blanco-Bercial L., Kopp M., Jueterbock A., Sundaram A.Y.M., Hoarau G. (2019) Towards population genomics in non-model species with large genomes: a case study of the marine zooplankton Calanus finmarchicus R. Soc. Open Sci.6180608  http://doi.org/10.1098/rsos.180608