dr. dario lijtmaer - data sharing/collaboration and publication using bold

Data Sharing/Collaboration and Publication using BOLD

Darío LijtmaerMuseo Argentino de Ciencias Naturales “Bernardino Rivadavia”

Informatics Pre-Conference WorkshopNovember 28, 2011

Common challenges in (collaborative) barcoding projects

1- Collaborators have different areas of expertise and roles in the project.

Field work

Taxonomy and voucher preparation

Molecular laboratory

Data analysis

Common challenges in (collaborative) barcoding projects

1- Collaborators have different areas of expertise and roles in the project.

2- Collaborators are often thousands of miles apart and interacting is not as easy as when two researchers work in the same institution.

Localities of collection - ABBI

iBOL participating nations Distribution of CBOL institutions

Common challenges in (collaborative) barcoding projects

1- Collaborators have different areas of expertise and roles in the project.

2- Collaborators are often thousands of miles apart and interacting is not as easy as when two researchers work in the same institution.

The use of BOLD as a workbench to share data and interact can help overcoming these challenges.

MACN - Argentina CCDB - Canada

Objective: to barcode the birds of the southern cone of South America

Barcoding the Birds of southern South America

UMSA - Bolivia

Field work in Argentina

and Bolivia

Tissue samples and vouchers at MACN UMSA and other

Institutions

Barcodes obtained at CCDB

Students trained at

CCDB

Analysis performed together

Extraction and amplification

done at MACN

Barcoding the Birds of southern South America

Collaboration and data sharing using BOLD: project users

Collaboration and data sharing using BOLD: project users

Collaboration and data sharing using BOLD: project users

Collaboration and data sharing using BOLD: project users

Collaboration and data sharing using BOLD: project users

Collaboration and data sharing using BOLD: project users

Collaboration and data sharing using BOLD: project users

- Users need to have a BOLD account for me to be able to give them access to the project.

Collaboration and data sharing using BOLD: project users

- Users need to have a BOLD account for me to be able to give them access to the project.

- There are different degrees of access for the users.

Collaboration and data sharing using BOLD: project users

Collaboration and data sharing using BOLD

Collaboration and data sharing using BOLD

Collaboration and data sharing using BOLD

Collaboration and data sharing using BOLD

Collaboration and data sharing using BOLD

Collaboration and data sharing using BOLD

All unexpected results are checked for possible contamination or misidentifications using BOLD

Possible contamination

C. pyrrophia

P. torquata

S. similis

S. coerulescens

Possible misidentification

Publication using BOLD: sending barcode sequences to GenBank

Publication using BOLD: sending barcode sequences to GenBank

Publication using BOLD: sending barcode sequences to GenBank

Publication using BOLD: sending barcode sequences to GenBank

GenBank update channel: in BOLD v3.0 (beta) the curation of specimen and sequence records is coordinated with GenBank. Changes and updates made in BOLD are automatically sent to the GenBank staff so that the info is also modified in GenBank.

Publication using BOLD: bibliography submission

Publication using BOLD: bibliography submission

Publication using BOLD: bibliography submission

Making your project public

Making your project public

Making your project public

Data Sharing/Collaboration and Publication using BOLD

Thank you very much!

Darío LijtmaerMuseo Argentino de Ciencias Naturales “Bernardino Rivadavia”

Informatics Pre-Conference WorkshopNovember 28, 2011