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Dario Lijtmaer - Brief introduction to barcoding and the current goals and campaigns/working groups (iBOL context)

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A brief introduction to barcoding and the current goals and campaigns/working groups (iBOL context)

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Dario Lijtmaer - Brief introduction to barcoding and the current goals and campaigns/working groups (iBOL context)

  1. 1. Short course on DNA barcoding methods November 29, 2011 OVERVIEW
  2. 2. Overview of this training session9:00 – 10:00. Module I: Introduction to Barcoding and its pipeline-Brief introduction to barcoding and the current goals, iBOL workinggroups and campaigns (Darío Lijtmaer)-The barcoding pipeline (Amy Driskell)-Barcode Data Standard compliance (David Schindel)
  3. 3. Overview of this training session10:00 – 12:30. Module II: Acquisition and Handling of specimensand tissue samples- Pros and cons of collecting specimens for barcoding vs. samplingexisting collections (Sally Adamowicz)- Field Collection (Sally Adamowicz)- Museum Harvesting (Jeremy deWaard)- Front-end processing (Michelle Van der Bank)
  4. 4. Overview of this training session14:00 – 15:30. Module III: Brief description of laboratory methodsand information management for small, medium and large-scalefacilities-DNA Extraction (Darío Lijtmaer)-PCR Amplification (Darío Lijtmaer)-Information management and data quality (Amy Driskell)
  5. 5. Overview of this training session16:00 – 17:30. Module IV: Taxon-specific aspects of the barcodingpipeline-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 aspectsof the pipeline
  6. 6. Short course on DNA barcoding methods November 29, 2011Brief introduction to barcoding and the current goals, iBOL working groups and campaigns Darío Lijtmaer Museo Argentino de Ciencias Naturales “Bernardino Rivadavia”
  7. 7. Problems with traditional, morphology-based identification There are 10 -100 million species in our planet Species are variable Genetic-based identification (DNA barcodes) can help There are cryptic species overcoming these problemsSometimes we can only access fragments
  8. 8. The ideal genetic marker  Universal application  Good recoverability  Efficiency (smallest read necessary)  Easy to align  Easy to analyze The Mitochondrial Genome D-Loop Small ribosomal RNA Cytb ND6 COI ND2 L-strand H-strand COII COIII
  9. 9. Organization of the project: CBOLCBOL was established in 2004. Goals:- help organizing the project.- connect the members of the barcoding community.- establish barcoding as a standard proceduree for species identification. NMNH, Washington Distribution of CBOL institutions
  10. 10. Organization of the project: iBOLiBOL was officially launched in 2009.Main goal: to generate 5 million barcodes from 500,000 species by 2014. Central nodes Regional nodes National nodes
  11. 11. 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. 12. iBOL organization Theme 2: Methodologies WG2.1 Barcoding Biotas WG2.2 Museum Life WG2.3 Methodological Innovation WG2.4 Paleobarcoding
  13. 13. WG2.3 Methodological Innovation
  14. 14. WG2.4 Paleobarcoding: Surveying the Past
  15. 15. iBOL organization Theme 3: Informatics WG3.1 Core Functionality WG3.2 Mirrors
  16. 16. iBOL organization Theme 4: Technologies WG4.1 Environmental Barcoding WG4.2 Handheld Barcoder
  17. 17. WG4.1 Environmental Barcoding:Species identifications from ‘slurries’
  18. 18. Agrawal et al 2007. A Pocket-Sized ConvectivePCR Thermocycler.
  19. 19. iBOL organization Theme 5: Administration WG5.1 Project management WG5.2 Communications
  20. 20. iBOL organization Theme 6: GE3LS Genomics and its Ethical, Environmental, Economic, Legal and Social aspects
  21. 21. 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. 22. 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. 23. 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. 24. 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. 25. 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. 26. 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. 27. 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. 28. Why are we here today? Specimen Collection data Sample Photographs Extract Amplify Sequence
  29. 29. Thank you!Questions?

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