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OVERVIEW

Short course on DNA barcoding methods November 29, 2011. OVERVIEW. Overview of this training session. 9:00 – 10:00. Module I: Introduction to Barcoding and its pipeline -Brief introduction to barcoding and the current goals, iBOL working groups and campaigns (Darío Lijtmaer)

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OVERVIEW

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  1. Short course on DNA barcoding methods November 29, 2011 OVERVIEW

  2. Overview of this training session • 9:00 – 10:00. Module I: Introduction to Barcoding and its pipeline • -Brief introduction to barcoding and the current goals, iBOL working groups and campaigns (Darío Lijtmaer) • -The barcoding pipeline (Amy Driskell) • -Barcode Data Standard compliance (David Schindel)

  3. Overview of this training session • 10:00 – 12:30. Module II: Acquisition and Handling of specimens and tissue samples • - Pros and cons of collecting specimens for barcoding vs. sampling existing collections (Sally Adamowicz) • Field Collection (Sally Adamowicz) • Museum Harvesting (Jeremy deWaard) • Front-end processing (Michelle Van der Bank)

  4. Overview of this training session • 14:00 – 15:30. Module III: Brief description of laboratory methods and information management for small, medium and large-scale facilities • DNA Extraction (Darío Lijtmaer) • PCR Amplification (Darío Lijtmaer) • -Information management and data quality (Amy Driskell)

  5. Overview of this training session • 16:00 – 17:30. Module IV: Taxon-specific aspects of the barcoding pipeline • -Short talks about taxon-specific key elements • -Plants (Dave Erickson) • - Algae (Gary Saunders) • - Fungi (Benjamin Stielow) • - Marine invertebrates (Dirk Steinke) • - Terrestrial invertebrates (Julie Stahlhut) • - Vertebrates (Bob Ward) • - Round table for Q&A and discussions about taxon-specific aspects of the pipeline

  6. Short course on DNA barcoding methods November 29, 2011 Brief introduction to barcoding and the current goals, iBOL working groups and campaigns Darío Lijtmaer MuseoArgentino de CienciasNaturales “Bernardino Rivadavia”

  7. Problems with traditional, morphology-based identification There are 10 -100 millionspecies in ourplanet Species are variable Genetic-basedidentification (DNA barcodes) can helpovercomingtheseproblems There are crypticspecies Sometimeswe can onlyaccessfragments

  8. The ideal genetic marker • Universal application • Good recoverability • Efficiency (smallest read necessary) • Easy to align • Easy to analyze The Mitochondrial Genome Small ribosomal RNA D-Loop Cytb ND6 COI ND2 L-strand COII H-strand COIII

  9. Organization of the project: CBOL • CBOL wasestablished in 2004. Goals: • helporganizingtheproject. • connectthemembers of the barcoding community. • establish barcoding as a standardprocedureeforspeciesidentification. NMNH, Washington Distribution of CBOL institutions

  10. Organization of the project: iBOL iBOL wasofficiallylaunched in 2009. Maingoal: to generate 5 million barcodes from 500,000 species by 2014. Central nodes Regional nodes National nodes

  11. iBOL organization iBOL organization Theme 1:DNA Barcode Library WG1.1 Vertebrates WG1.2 Land Plants WG1.3 Fungi WG1.4 Human Pathogens and Zoonoses WG1.5 Agricultural and Forestry Pests WG1.6 Pollinators WG1.7 Freshwater Bio-Surveillance WG1.8 Marine Bio-Surveillance WG1.9 Terrestrial Bio-Surveillance WG1.10 Polar Life

  12. iBOL organization iBOL organization Theme 2: Methodologies WG2.1 Barcoding Biotas WG2.2 Museum Life WG2.3 Methodological Innovation WG2.4 Paleobarcoding

  13. WG2.3 Methodological Innovation

  14. WG2.4 Paleobarcoding: Surveying the Past

  15. iBOL organization Theme 3: Informatics WG3.1 Core Functionality WG3.2 Mirrors

  16. iBOL organization Theme 4: Technologies WG4.1 Environmental Barcoding WG4.2 Handheld Barcoder

  17. WG4.1 Environmental Barcoding:Species identifications from ‘slurries’

  18. Agrawal et al 2007. A Pocket-Sized Convective PCR Thermocycler.

  19. iBOL organization Theme 5: Administration WG5.1 Project management WG5.2 Communications

  20. iBOL organization Theme 6: GE3LS Genomics and its Ethical, Environmental, Economic, Legal and Social aspects

  21. iBOL organization iBOL organization Theme 1:DNA Barcode Library WG1.1 Vertebrates WG1.2 Land Plants WG1.3 Fungi WG1.4 Human Pathogens and Zoonoses WG1.5 Agricultural and Forestry Pests WG1.6 Pollinators WG1.7 Freshwater Bio-Surveillance WG1.8 Marine Bio-Surveillance WG1.9 Terrestrial Bio-Surveillance WG1.10 Polar Life

  22. iBOL organization iBOL organization Theme 1:DNA Barcode Library WG1.1 Vertebrates WG1.2 Land Plants WG1.3 Fungi WG1.4 Human Pathogens and Zoonoses WG1.5 Agricultural and Forestry Pests WG1.6 Pollinators WG1.7 Freshwater Bio-Surveillance WG1.8 Marine Bio-Surveillance WG1.9 Terrestrial Bio-Surveillance WG1.10 Polar Life

  23. iBOL organization iBOL organization Theme 1:DNA Barcode Library WG1.1 Vertebrates WG1.2 Land Plants WG1.3 Fungi WG1.4 Human Pathogens and Zoonoses WG1.5 Agricultural and Forestry Pests WG1.6 Pollinators WG1.7 Freshwater Bio-Surveillance WG1.8 Marine Bio-Surveillance WG1.9 Terrestrial Bio-Surveillance WG1.10 Polar Life

  24. iBOL organization iBOL organization Theme 1:DNA Barcode Library WG1.1 Vertebrates WG1.2 Land Plants WG1.3 Fungi WG1.4 Human Pathogens and Zoonoses WG1.5 Agricultural and Forestry Pests WG1.6 Pollinators WG1.7 Freshwater Bio-Surveillance WG1.8 Marine Bio-Surveillance WG1.9 Terrestrial Bio-Surveillance WG1.10 Polar Life

  25. iBOL organization iBOL organization Theme 1:DNA Barcode Library WG1.1 Vertebrates WG1.2 Land Plants WG1.3 Fungi WG1.4 Human Pathogens and Zoonoses WG1.5 Agricultural and Forestry Pests WG1.6 Pollinators WG1.7 Freshwater Bio-Surveillance WG1.8 Marine Bio-Surveillance WG1.9 Terrestrial Bio-Surveillance WG1.10 Polar Life

  26. iBOL organization iBOL organization Theme 1:DNA Barcode Library WG1.1 Vertebrates WG1.2 Land Plants WG1.3 Fungi WG1.4 Human Pathogens and Zoonoses WG1.5 Agricultural and Forestry Pests WG1.6 Pollinators WG1.7 Freshwater Bio-Surveillance WG1.8 Marine Bio-Surveillance WG1.9 Terrestrial Bio-Surveillance WG1.10 Polar Life

  27. iBOL organization iBOL organization Theme 1:DNA Barcode Library WG1.1 Vertebrates WG1.2 Land Plants WG1.3 Fungi WG1.4 Human Pathogens and Zoonoses WG1.5 Agricultural and Forestry Pests WG1.6 Pollinators WG1.7 Freshwater Bio-Surveillance WG1.8 Marine Bio-Surveillance WG1.9 Terrestrial Bio-Surveillance WG1.10 Polar Life

  28. Why are we here today? Specimen Collection data Sample Photographs Extract Amplify Sequence

  29. Thank you! Questions?

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