Hopcroft Russell R.

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Hopcroft
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Russell R.
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  • Dataset
    RNA-Seq sample information and accessions numbers for the copepods Neocalanus flemingeri (Prince William Sound, Gulf of Alaska)(2015-2017) and Labidocera madurae (Kane‘ohe Bay, Oahu, Hawaii)(2017)
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2020-09-17) Hartline, Daniel K ; Lenz, Petra ; Hopcroft, Russell R. ; Roncalli, Vittoria ; Cieslak, Matthew C.
    This dataset includes accession information for RNA-seq data for the copepods Neocalanus flemingeri and Labidocera madurae used to generate de novo reference transcriptomes and for gene expression analysis. N. flemingeri adult females (CVI) were collected in Prince Williams Sound (Gulf of Alaska) during the fall (September 2015 and 2017) oceanographic cruises of the Seward line long-term observation program (ltop)(http://www.sfos.uaf.edu/sewardline/) and Northern Gulf of Alaska Long-Term Ecological Research Program (NGA LTER). For each sample collection date and preservation dates are listed. Labidocera madurae adult females (CVI) and mixed copepodid stages (CIII-CV) were collected in Kane‘ohe Bay, Oahu (Hawaii) in August 2015. For a complete list of measurements, refer to the full dataset description in the supplemental file 'Dataset_description.pdf'. The most current version of this dataset is available at: https://www.bco-dmo.org/dataset/821289
  • Dataset
    Neocalanus copepod egg production is described from the Northern Gulf of Alaska for Fall 2015, 2016, 2017
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2021-11-08) Hopcroft, Russell R. ; Lenz, Petra
    Neocalanus copepod egg production is described from the Northern Gulf of Alaska for Fall 2015, 2016,2017. For a complete list of measurements, refer to the full dataset description in the supplemental file 'Dataset_description.pdf'. The most current version of this dataset is available at: https://www.bco-dmo.org/dataset/852869
  • Article
    Toward a global reference database of COI barcodes for marine zooplankton
    (Springer, 2021-05-04) Bucklin, Ann ; Peijnenburg, Katja T. C. A. ; Kosobokova, Ksenia N. ; O'Brien, Todd D. ; Blanco-Bercial, Leocadio ; Cornils, Astrid ; Falkenhaug, Tone ; Hopcroft, Russell R. ; Hosia, Aino ; Laakmann, Silke ; Li, Chaolun ; Martell, Luis ; Questel, Jennifer M. ; Wall-Palmer, Deborah ; Wang, Minxiao ; Wiebe, Peter ; Weydmann-Zwolicka, Agata
    Characterization of species diversity of zooplankton is key to understanding, assessing, and predicting the function and future of pelagic ecosystems throughout the global ocean. The marine zooplankton assemblage, including only metazoans, is highly diverse and taxonomically complex, with an estimated ~28,000 species of 41 major taxonomic groups. This review provides a comprehensive summary of DNA sequences for the barcode region of mitochondrial cytochrome oxidase I (COI) for identified specimens. The foundation of this summary is the MetaZooGene Barcode Atlas and Database (MZGdb), a new open-access data and metadata portal that is linked to NCBI GenBank and BOLD data repositories. The MZGdb provides enhanced quality control and tools for assembling COI reference sequence databases that are specific to selected taxonomic groups and/or ocean regions, with associated metadata (e.g., collection georeferencing, verification of species identification, molecular protocols), and tools for statistical analysis, mapping, and visualization. To date, over 150,000 COI sequences for ~ 5600 described species of marine metazoan plankton (including holo- and meroplankton) are available via the MZGdb portal. This review uses the MZGdb as a resource for summaries of COI barcode data and metadata for important taxonomic groups of marine zooplankton and selected regions, including the North Atlantic, Arctic, North Pacific, and Southern Oceans. The MZGdb is designed to provide a foundation for analysis of species diversity of marine zooplankton based on DNA barcoding and metabarcoding for assessment of marine ecosystems and rapid detection of the impacts of climate change.
  • Article
    The relationship between patterns of benthic fauna and zooplankton in the Chukchi Sea and physical forcing
    (The Oceanography Society, 2015-09) Pisareva, Maria N. ; Pickart, Robert S. ; Iken, Katrin ; Ershova, Elizaveta A. ; Grebmeier, Jacqueline M. ; Cooper, Lee W. ; Bluhm, Bodil A. ; Nobre, Carolina ; Hopcroft, Russell R. ; Hu, Haoguo ; Wang, Jia ; Ashjian, Carin J. ; Kosobokova, Ksenia N. ; Whitledge, Terry E.
    Using data from a number of summer surveys of the Chukchi Sea over the past decade, we investigate aspects in which the benthic fauna, sediment structure, and zooplankton there are related to circulation patterns and shelf hydrographic conditions. A flow speed map is constructed that reveals the major pathways on the shelf. Regions of enhanced flow speed are dictated by lateral constrictions—in particular, Bering Strait and Barrow and Herald Canyons—and by sloping topography near coastlines. For the most part, benthic epifaunal and macrofaunal suspension feeders are found in high flow regimes, while deposit feeders are located in regions of weaker flow. The major exceptions are in Bering Strait, where benthic sampling was underrepresented, and in Herald Canyon where the pattern is inexplicably reversed. Sediment grain size is also largely consistent with variations in flow speed on the shelf. Data from three biophysical surveys of the Chukchi Sea, carried out as part of the Russian-American Long-term Census of the Arctic program, reveal close relationships between the water masses and the zooplankton communities on the shelf. Variations in atmospheric forcing, particularly wind, during the three sampling periods caused significant changes in the lateral and vertical distributions of the summer and winter water masses. These water mass changes, in turn, were reflected in the amounts and species of zooplankton observed throughout the shelf in each survey. Our study highlights the close relationship between physical drivers (wind forcing, water masses, circulation, and sediment type) in the Chukchi Sea and the biological signals in the benthos and the plankton on a variety of time scales.
  • Dataset
    Cruise Event Logs from 15 vessels for 116 U.S. GLOBEC cruises from 1997-2004 in the Northeast Pacific and Gulf of Alaska areas (NEP program)
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2021-06-08) Barth, Jack ; Boldt, Jennifer L. ; Brodeur, Richard D ; Cokelet, Edward D. ; Cowles, Timothy ; Danielson, Seth L. ; Emmett, Robert L ; Farley, Edward V. ; Fleischbein, Jane ; Haldorson, Lewis J ; Hopcroft, Russell R. ; Huyer, Adriana ; Janout, Markus A. ; Kachel, Nancy ; Kondzela, Chris ; Moss, Jamal Hasan ; Musgrave, Dave ; Napp, Jeffrey ; Noskov, Jackie Popp ; Peterson, William T. ; Piccolo, Jack ; Royer, Thomas C. ; Smith, Robert ; Stockwell, Dean A. ; Strom, Suzanne ; Thornton, Sarah ; Tynan, Cynthia ; Weingartner, Thomas J. ; Coyle, Kenneth O ; Keister, Julie E. ; Sherr, Evelyn
    Cruise Event Logs from 15 vessels for 116 U.S. GLOBEC cruises from 1997-2004 in the Northeast Pacific and Gulf of Alaska areas For a complete list of measurements, refer to the full dataset description in the supplemental file 'Dataset_description.pdf'. The most current version of this dataset is available at: https://www.bco-dmo.org/dataset/2341
  • Dataset
    Cruise Event Logs from 15 vessels for 116 U.S. GLOBEC cruises from 1997-2004 in the Northeast Pacific and Gulf of Alaska areas (NEP program)
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2019-02-22) Barth, Jack ; Boldt, Jennifer L ; Brodeur, Richard D ; Cokelet, Edward D. ; Cowles, Timothy ; Danielson, Seth L. ; Emmett, Robert L ; Farley, Edward V. ; Fleischbein, Jane ; Haldorson, Lewis J ; Hopcroft, Russell R. ; Huyer, Adriana ; Janout, Markus A. ; Kachel, Nancy ; Kondzela, Chris ; Moss, Jamal Hasan ; Musgrave, Dave ; Napp, Jeffrey ; Noskov, Jackie Popp ; Peterson, William T. ; Piccolo, Jack ; Royer, Thomas C. ; Smith, Robert ; Stockwell, Dean A. ; Strom, Suzanne ; Thornton, Sarah ; Tynan, Cynthia ; Weingartner, Thomas J. ; Coyle, Kenneth O ; Keister, Julie E. ; Sherr, Evelyn
    Cruise Event Logs from 15 vessels for 116 U.S. GLOBEC cruises from 1997-2004 in the Northeast Pacific and Gulf of Alaska areas For a complete list of measurements, refer to the full dataset description in the supplemental file 'Dataset_description.pdf'. The most current version of this dataset is available at: https://www.bco-dmo.org/dataset/2341