Integrating BOLD services into your personal online webservices

1. Campaigns on BOLD
Dirk Steinke & Robert Hanner

2. What are Campaigns?
Over the past six years, a number of researchers with shared interests
have started campaigns to collate and share information on the
collection and registration of DNA barcodes from specific families and
regions of life. While these campaigns are not part of the formal iBOL
structure, most of them work closely with the relevant iBOL Working
Group(s) and with Barcode of Life Database Systems (BOLD) towards
the ultimate goal of a barcode reference library of all life on Earth.
iBOL website

3. Taxonomic Campaigns
• usually global in scope
• progress tracking by taxonomy,
and often region

4. National or Regional Campaigns
• national in scope (iBOL nodes)
• progress tracking by taxonomy,
perhaps individual research groups

5. Topical or Biota Campaigns
• variable in scope (e.g. iBOL WGs)
• progress tracking at least by taxonomy

6. Recent request
To do this efficiently, we really need a webpage with a virtual
checklist, similar to the All Leps page (http://www.lepbarcoding.org/). This
would really give the project thrust and reduce the number of animals sacrificed
by supplying a forum to:
1) organize our species lists and track progress
2) advertise others to assist with collections
3) tackle problems with existing data on Genbank and BOLD (e.g., MCOI vs
FCOI, misidentifications, contaminated sequences, etc.)
4) encourage others with COI data to supply metadata and photograph vouchers via
BOLD
5) create a virtual online DNA and photo guide for one of the most imperiled
groups in the world, the freshwater pearly mussels!
Is this something you could help with? I'm able to write all the text, supply
and manage the checklist and establishing myself as the point of contact for
anyone interested in participating. Several pages appear to be using a similar
template that would fit well with our project.

7. BOLD’s hierarchy
Campaign
Container Container
Project Project Project Project
Project Project Project Project
Project Project Project Project
• needs to be requested with BOLD
• project type “Folder project” – contains projects
• project type “Data project” – contains data records

8. BOLD’s hierarchy

9. BOLD’s hierarchy
Project list in BOLD 2.5 and 3.0
• total number of specimens and sequences of all projects in a container
• total number of unique species in a container
• summary of all markers
• project tags

10. Tags

11. The new user console
Searching by
tags
Data upload
across projects
Recent activities
Your data by in your projects
campaigns

12. External connectivity
• search for taxa and country/province
(inclusive and exclusive)
• eSearch returns a text or xml file
• filter against a checklist
(progress count)
• request download of records
based on search results
• display data retrieved through
eFetch on website or reports

13. Webservices
General Progress breakdown
Progress by region

14. Webservices

15. What is needed?
Checklist(s)
• compulsory for members
• curated and updated on a regular basis
• standards for interim taxonomy
• provided to BOLD for data submission validation
Best practice
• vantage point – Barcode Data Standard (CBOL)
• data standards for optimal tracking, reporting, and communication
• common organisational structure on BOLD
• confidence measurements for taxonomy
Web Site
• community platform
• checklists, wishlists…
• Web Site Package provided by BOLD

16. Thank you!