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Sloan Foundation Workshop to Resolve Microorganism Taxonomic and Culture Collection Problems Arising from the New Barcoding Initiatives PowerPoint PPT Presentation


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Sloan Foundation Workshop to Resolve Microorganism Taxonomic and Culture Collection Problems Arising from the New Barcoding Initiatives. Robert A. Andersen CCMP Bigelow Laboratory for Ocean Sciences Frithjof K ü pper CCAP Dunstaffnage Marine Laboratory, SAMS. Introductory Remarks.

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Sloan Foundation Workshop to Resolve Microorganism Taxonomic and Culture Collection Problems Arising from the New Barcoding Initiatives

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Sloan Foundation Workshop to ResolveMicroorganism Taxonomic and Culture Collection Problems Arising from the New Barcoding Initiatives

Robert A. Andersen

CCMP

Bigelow Laboratory for Ocean Sciences

Frithjof Küpper

CCAP

Dunstaffnage Marine Laboratory, SAMS


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Introductory Remarks

Do we envision DNA sequences playing a role in species identifications?

Do we see a need to establish a link between classical species descriptions and DNA sequences?


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AmphidiniumOriginal Description

  • Claparède, É. and Lachmann, J. 1859. Études sur les Infusoires et les Rhizopodes. Inst. Natl. Genevois 6(1): 410-411

  • Type locality: Bergen Fjord, Norway


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  • CCAP Strains

  • CCAP 1102/4 Amphidinium sp., Kirby Creek, Hamford Water, Essex, England

  • CCAP 1102/5 Amphidinium sp., Scarborough, Yorkshire, England

  • CCMP Strains

  • CCMP119Amphidinium operculatum, Knight Key, Florida USA, 8-10 µm x 14-53 µm

  • CCMP122Amphidinium operculatum, collection site unknown, 5-12 µm x 9-16 µm

  • CCMP123Amphidinium operculatum, Florida Keys, Tea Table Channel, Florida USA, 13-17 µm x 19-30 µm

  • CCMP1344Amphidinium operculatum, Knight Key, Florida USA, 10-12 µm x 18-24 µ

  • CSIRO Strains

  • CS-109 Amphidinium sp., Coral Sea, Australia,

  • CS-259 Amphidinium sp., Kirrimine Beach, Queensland, Australia

  • CS-383 Amphidinium sp., Bicheno, Tasmania, Australia

  • CS-787/01 Amphidinium sp., Rock pool Wedge Bay, Tasmania, Australia

  • CS-787/02 Amphidinium sp., Rock pool Wedge Bay, Tasmania, Australia

  • MBIC Strains

  • MBIC10794 Amphidiniumsp., Sesoko, Okinawa, Japan

  • MBIC11135 Amphidiniumsp., Kin Bay, Okinawa, Japan

  • NEPCC Strains

  • NEPCC670 Amphidinium operculatum, Japan, 31°22'N 113°55'W (Note: originally from CCMP124; this strain is now identified as Amphidinium carterae from Gulf of California, Mexico by CCMP]

  • NEPCC799 Amphidinium operculatum, Knight Key, Florida USA

  • NIES Strains

  • NIES1368 Amphidinium operculatum, Suzu / Ishikawa, Japan

  • PLY Strains

  • PLY587 Amphidinium operculatum

  • PLY450 Amphidinium sp.

  • PLY440 Amphidinium sp.


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  • No type or authentic culture, and none is from the type locality.

  • For the sake of argument, let us assume that the barcode sequences are different among the strains. Which strain (and barcode) will be chosen to represent the name Amphidinium operculatum?

    • a. Do we choose the one closest to the type locality?

    • b. Do we choose the one with the most publications?

    • c. Do we choose the first one that was barcoded?

    • d. Do we allow the barcoders to randomly select a strain?

    • e. Do we choose the strain most closely resembling the type description?

    • f. Do we ignore all of these cultures, return to the type locality and search for the organism again?


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Workshop Guidelines??

  • Be visionary

  • Try not to focus on today’s problems

  • Find broad solutions


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Acknowledgements

  • Alfred P. Sloan Foundation - Jesse Ausubel

  • Canadian Barcode of Life Network - Paul Hebert and many others

  • CBoL - David Schindel

  • GenBank - EMBL - Scott Federhen and Guy Cochrane


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