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

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
Museo Argentino de Ciencias Naturales “Bernardino Rivadavia”

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 problems
Sometimes we can only access fragments

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. Organization of the project: CBOL
CBOL 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. Organization of the project: iBOL
iBOL 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. 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

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

19. WG2.3 Methodological Innovation

20. WG2.4 Paleobarcoding: Surveying the Past

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

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

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

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

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

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

28. 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

29. 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

30. 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

31. 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

32. 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

33. 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

34. 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

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

36. Thank you!
Questions?