The Public Data Portal supports queries based on taxonomy(scientific names only), geography, attribution fields (i.e. collectors and taxonomists), specimen depositories, project or dataset codes, specimen and sequence identifiers (sampleids, museumids, processed, etc). Free text searches are allowed, the system will try to extract meaningful terms from the search. Search terms should be separated by a space, search terms containing more than one word ("United States" or "Mus musculus") should be wrapped in quotes.
Search examples (Searches are case insensitive):
Culicidae: will return all the mosquitoes in the database
Mammalia Aves: will return all the mammals and birds in the database. Using two terms under the same context (taxonomic in this case), returns all records that match either term.
Aves Peru: will return all the birds collected in Peru. Using two terms under a different context (taxonomic and geographic), returns records that only match both terms.
Hawaii -Chordata: will return all non-chordates, or invertebrates, collected in Hawaii. It is often necessary to exclude records based on a search criteria and is accomplished by adding a minus sign immediately in front of the search term.
"Biodiversity Institute of Ontario" Lepidoptera Florida: will return all moths and butterflies in the Biodiversity Institute of Ontario collection that were collected in Florida. Complex queries are possible by combining multiple search terms.
Search Guidelines:
No spaces in terms when using a multiterm seach (correct: "United States" Mammalia)
Negative symbol (-) is an exclusion operator which must be preceded by a space
If the same term appears in multiple contexts (i.e. "Florida" appears in both the geography list and in "University of Florida"). When using a free text search for the state Florida, employ the context clarification '[geo]' (eg Florida[geo]). Other context clarification tags are [tax], [ids], [inst], [researcher].
Rd Ward, Fo Costa, Bh Holmes and D Steinke DNA barcoding shared fish species from the North Atlantic and Australasia: minimal divergence for most taxa but a likely two species for both Zeus faber and Lepidopus caudatus Aquatic Biology 2008-07-17;3:71-78 (PDF)
M. R. McCusker, D. Denti, L. Van Guelpen, E. Kenchington and P. Bentzen Barcoding Atlantic Canada's commonly encountered marine fishes Molecular Ecology Resources 2012-12-17;13(2):177-188 (PDF)
Mabragaña Ezequiel; Díaz de Astarloa Juan Martin; Hanner Robert; Zhang Junbin; González Castro Mariano DNA Barcoding Identifies Argentine Fishes from Marine and Brackish Waters PLoS ONE 2011-12-09;6(12):e28655 (PDF)
Eugene H.-K. Wong, Mahmood S. Shivji and Robert H. Hanner Identifying sharks with DNA barcodes: assessing the utility of a nucleotide diagnostic approach. Molecular Ecology Resources 2009-01-01;9(S1):243-256 (PDF)
Sujeevan Ratnasingham and Paul D. N. Hebert A DNA-Based Registry for All Animal Species: The Barcode Index Number (BIN) System PLoS ONE 2013-07-13;8(7):e66213 (PDF)
THOMAS KNEBELSBERGER, MONICA LANDI, HERMANN NEUMANN,
MATTHIAS KLOPPMANN, ANNE F. SELL, PATRICK D. CAMPBELL, SILKE LAAKMANN,
MICHAEL J. RAUPACH, GARY R. CARVALHO and FILIPE O. COSTA A reliable DNA barcode reference library for the identification of the North European shelf fish fauna Molecular Ecology Resources 2014-03-12;14(5):1060-1071 (PDF)
Dirk Steinke, Tyler S. Zemlak, James A. Boutillier and Paul D. N. Hebert DNA barcoding of Pacific Canada’s fishes Marine Biology 2009-09-01;156(12):2641-2647 (PDF)
TREE RECONSTRUCTION OF BIN & NEAREST NEIGHBOR:
HAPLOTYPE NETWORK:
Color & Label Scheme:
COLLECTION LOCATION:
Countries:
Australia - [7]
Canada - [16]
New Zealand - [8]
Argentina - [19]
United States - [48]
Chile - [6]
United Kingdom - [4]
Japan - [5]
Uruguay - [1]
South Africa - [5]
Italy - [85]
Croatia - [74]
North Sea - [5]
Sweden - [2]
France - [3]
Pacific Ocean - [2]
Atlantic Ocean - [1]
South Korea - [1]
Unrecoverable - [30]
Georgia - [1]
DATA MANAGERS:
Public Data:
Private Data:
Charles S Walker - [75] Dirk Steinke - [43] Tyler Zemlak - [2] Paul Bentzen - [7] Robert Hanner - [38] Eugene H. K. Wong - [6] Von Zum Hof Juergen - [1] Fausto Tinti - [137] Sharon A. Appleyard - [1] Juan M. Diaz de Astarloa - [5] Thomas Knebelsberger - [5] Ann M Evankow - [1] Student Portal Manager - [1] Abigail Wells - [3] Philip A. Hastings - [1] Matt Lemay - [3]
David E. Richardson - [1] CEBP Project - [1] Robert Hanner - [1] Amy C. Driskell - [4] Nana Devidze - [1] Charles S Walker - [4]
Deutsches Zentrum fuer Marine Biodiversitaetsforschung - [5]
Florida State University - [27]
Hakai Institute - [3]
Ilia State University - [1]
Mined from GenBank, NCBI - [49]
Museum of New Zealand Te Papa Tongarewa - [1]
NOAA, Northeast Fisheries Science Center - [1]
National Institute of Water and Atmospheric Research, Auckland - [1]
National Research Institute of Fisheries Science, Japan - [1]
Ocean Genome Legacy - [1]
Research Collection of Bruce Collette - [2]
Royal British Columbia Museum - [9]
Scripps Institution of Oceanography - [1]
Smithsonian Institution, National Museum of Natural History - [4]
South African Institute for Aquatic Biodiversity - [5]
Universidad Nacional de Mar del Plata - [16]
University of Bologna - [137]
University of Kansas, Biodiversity Research Center - [6]
University of New England - [1]
University of Washington, Fish Collection - [3]
Sequencing Centers:
Canadian Centre for DNA Barcoding - [1] Centre for Biodiversity Genomics - [249] Deutsches Zentrum fuer Marine Biodiversitaetsforschung - [1] Generic Commercial Labs - [1] NOAA, NWFSC, Genetics and Evolution Program - [3] Ocean Genome Legacy - [1] Smithsonian Institution, National Museum of Natural History, Laboratories of Analytical Biology - [4]
Photography:
CBG Photography Group - [3] Deborah Landry - [2] Dirk Steinke/Tyler Zemlak - [9] Kyle Hall - [3] Ocean Genome Legacy - [1] Thomas Knebelsberger - [5]
Collectors:
? - [1] Andersson - [1] B Barker (CSIRO) - [1] B.C. - [9] D. - [1] D. Clarke - [1] D. Stevens - [1] Dekanoidze - [1] Dept. Experimental & Evolutionary Biology - [137] Devidze - [1] Diaz de Astarloa - [10] F/V Dawn T - [1] Fano (PU) - [137] G West (CSIRO) - [1] Gustavo Aedo - [5] Ibanez - [1] Irv Kornfield - [5] Italy - [137] JIM WEST - [2] Jim Boutillier - [9] Jim Ellis - [4] K - [1] K. Graham - [1] Kiknavelidze - [1] L. Harris - [1] Laboratory of Marine Biology & Fisheries - [137] Lei Harris - [1] M Domeier - [1] MA - [2] MADMF - [2] Marine Sci Center - [1] Matthias Kloppmann - [1] Mitsuomi Shimazaki - [3] N. - [1] NEAMAP Trawl Survey - [2] Northeast FISHeries Science Center (NEFSC) - [2] Pacific Biological Station - [9] Peter Chase NOAA - [2] Rob Cooper - [5] Robert Aguilar - [2] S. - [1] SANDY O`NEILL - [2] Thomas Knebelsberger - [4] University of Bologna - [137] VIMS Trawl Survey - [2] WDFW personnel - [5] Washington Dept. Fish and Wildlife - [1] Woodbridge Marine Disc. Centre - [1] Woods Hole - [2] Yasuhiro Ueno - [1]
Specimen Identification:
Allan D. Connell - [5] D. L. Garrett - [2] Dennis Rutherford - [5] Ezequiel Mabragana - [5] Fausto Tinti - [137] Graham E. Gillespie - [4] Juan M. Diaz de Astarloa - [10] Lou Van Guelpen - [1] Nana Devidze - [1] Philip A. Hastings - [1] Robert Aguilar - [4] Shenenjian - [1] Student - [1] Theodore W. Pietsch - [1] Thomas Knebelsberger - [5] William White - [2]