Natural History Collections: Harvesting & Barcoding Workshop

NHCHB 2020 Workshop Presentations

Day 1-1 – Welcome & Harvesting Strategies and Logistics

Day 1-2 – Sample Harvesting in Natural History Collections

Day 1-3 – Specimen Digitization

Day 1-4 – Pre-lab Processing

Day 2-1 – Protocols for Natural History Collection Barcoding

Day 2-2 – Data Analysis and Archiving

Day 2-3 – New Developments and Future Directions

Day 2-4 – Workflow Overview and Open Discussion

 

Files to Accompany Workshop Presentations

Workflow Diagram

Glossary

Taxon-Specific Protocols Table

Reference List

 

Other Files Provided

CCDB and BOLD Templates

Museum Templates

  • Specimen Removal Labels (XLS): Create label place holders for specimen removal from a museum collection. *Need to change the institution on loan to and the plate numbers accordingly.
  • DNA Barcode Labels (XLS): Labels to add to specimens that are tissue sampled on site to mark that they have been sampled for sequencing. *Need to update the sample ID accordingly.
  • Museum Data Entry (XLS): Spreadsheet to enter data while at the museum. The information will also be used by the museum for the loan invoice.

Documentation

Shipping

Other Presentations

Publications

    • Borisenko, A. V., J. E. Sones, and P. D. N. Hebert. 2009. The front-end logistics of DNA barcoding: challenges and prospects. Molecular Ecology Resources 9:27-34.
      http://onlinelibrary.wiley.com/doi/10.1111/j.1755-0998.2009.02629.x/abstract
    • Hausmann, A., S. E. Miller, J. D. Holloway, J. R. deWaard, D. Pollock, S. W. J. Prosser and P. D.N. Hebert. 2016. Calibrating the taxonomy of a megadiverse insect family: 3000 DNA barcodes from geometrid type specimens (Lepidoptera, Geometridae). Genome, 2016, 59(9): 671-684.
      https://doi.org/10.1139/gen-2015-0197
    • Hebert, P. D. N., J. R. deWaard, E. V. Zakharov, S. W. J. Prosser, J. E. Sones, J. T. A. McKeown, B. Mantle, and J. La Salle. 2013. A DNA ‘Barcode Blitz’: Rapid Digitization and Sequencing of a Natural History Collection. Plos One 8:14.
      http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0068535
    • Hebert, P. D. N., T. W. A. Braukmann, S. W. J. Prosser, S. Ratnasingham, J. R. deWaard, N. V. Ivanova, D. H. Janzen, W. Hallwachs, S. Naik, J. E. Sones and E. V. Zakharov. 2017. A Sequel to Sanger: Amplicon Sequencing That Scales. BMC Genomics 2018 19:219.
      https://doi.org/10.1186/s12864-018-4611-3
    • Hollingsworth, P. M., D. Li, M. van der Bank and A. D. Twyford. 2016. Telling plant species apart with DNA: from barcodes to genome. Phil. Trans. R. Soc. B 371:20150338.
      http://dx.doi.org/10.1098/rstb.2015.0338
    • Kuzmina, M. L., T. W. A. Braukmann, A. J. Fazekas, S. W. Graham, S. L. Dewaard, A. Rodrigues, B. A. Bennett, T. A. Dickinson, J. M. Saarela, P. M. Catling, S. G. Newmaster, D. M. Percy, E. Fenneman, A. Lauron-Moreau, B. Ford, L. Gillespie, R. Subramanyam, J. Whitton, L. Jennings, D. Metsger, C. P. Warne, A. Brown, E. Sears, J. R. Dewaard, E. V. Zakharov and P. D. N.  Hebert. 2017. Using Herbarium-Derived DNAs to Assemble a Large-Scale DNA Barcode Library for the Vascular Plants of Canada. Applications in Plant Sciences, 5(12):1700079.
      https://doi.org/10.3732/apps.1700079
    • Porco, D., R. Rougerie, L. Deharveng, and P. Hebert. 2010. Coupling non-destructive DNA extraction and voucher retrieval for small soft-bodied Arthropods in a high-throughput context: the example of Collembola. Molecular Ecology Resources 10:942-945.
      >http://onlinelibrary.wiley.com/wol1/doi/10.1111/j.1755-0998.2010.2839.x/abstract
    • Prosser, S. W. J., J. R. deWaard, S. E. Miller, and P. D. N. Hebert. 2016. DNA barcodes from century-old type specimens using next-generation sequencing. Molecular Ecology Resources 16:487-497.
      http://onlinelibrary.wiley.com/wol1/doi/10.1111/1755-0998.12474/abstract

Lab Resources

http://ccdb.ca/resources/

BOLD Resources

http://boldsystems.org/index.php/Resources