1. Boyce Thompson Institute
MusaBase Update
Lukas Mueller
Guillaume Bauchet
Nicolas Morales
Boyce Thompson Institute
Ithaca, NY

2. What is Musabase? Global Banana Breeding Database
Track information in breeding programs
Management of Accessions, Pedigrees, Trials, Phenotypic information, Images, and Genotypic Information
A site for the breeding community

3. Why MusaBase? Modern breeding methods are data-centric
Data management a priority
Database at center of breeding process
Data sharing
All data are freely available (with license)
Digital Ecosystem - data never leaves electronic format

4. Database current pipeline and tools
+CIPcross
Musabase
MUSABASE

5. Data Capture
Fieldbook App on Android Tables (WP1-2)
OpenODK (WP4)

6. Musabase trainings
-> On site trainings for each main research station: WP1 ( UG, TZ) and WP2 ( UG, last week)
-> Data managers: Veronica Frank and Ringo Sifuel (Arusha), Violet Akesh (Sendusu)
IITA Arusha (WP1)
IITA/NARO Uganda (WP1)
IITA Uganda (WP2)
MUSABASE

7. Musabase data: update Accessions: Current trials data:
WP :
-Drought tolerance Arusha
-16HeterosisSendusu
-Trial_GS_Mbarara
WP4 2016:
-Mbeya
Banana Trait Ontology
-270 traits
MUSABASE

8. New Features
MusaBase uses the same software as Cassavabase - Synergies in database development
Cassavabase has been developed for several years
Many new features have been added in the past year

9. Trial Design Trial Design: Support for nurseries
Physical Design upload and online editing
Plant-level phenotyping
Each plant on a plot is a separate entity in the database that can be associated with phenotypic scores. Plot-level scores are calculated from plant scores

10. Crossing Manager Improved Crossing Manager Now supports multicross
polycross
reciprocal crosses

11. Trial Comparison
Trial Comparison

12. Barcoding
Support for barcodes in field book and database- direct phenotyping
Support for 2-D barcodes
Improved barcode printing
Soon: interface for portable barcode printers

13. Barcode example

14. Database-direct Phenotyping
Use Musabase website directly in the field from tablet
new interfaces emulate field book interface
requires tablet with cellular data, cellular data plan, and cellular signal at field
tablet: read plot barcodes, automatically open phenotyping page on Musabase

15. Database-direct phenotyping

16. Trait Ontology update About 270 terms in ontologies
WP1 and WP2 use different ontology than WP4
At last annual meeting: Session led by Guillaume to reconcile the two trait ontologies (IITA and Bioversity), continued efforts throughout the year
Difficult to reconcile
Example
finger diameter, measured in cm or in mm?

17. New trait ontology proposal
All terms are in a common trait ontology
Two different sets of variable lists1 are generated
IITA variables
Bioversity variables
1 variables are traits with method and scale

18. Post-Composing Terms
Post-composing of terms allows terms from different ontologies to be combined
For example
Ontology 1: Describes different cycles
Ontology 2: Describes different traits
Combined Ontology: Describes cycles and traits

19. Crossing Data Capture
Different systems are being developed by different programs in the RTB.
Would be preferable to standardize on one system

20. Crossing Management System Parents Identification
CIPCROSS tool
CIPCROSS is an application to collect information on crosses, will be used by Yam breeding program
Crossing Management System
Parents Identification
45 days
Leaves Samples
(PSTVd & PVT)
Cross-Breeding
(Hybridization)

21. Android Fieldbook App
NextGen Cassava has adapted the Fieldbook phenotyping app for crossing data collection

22. Musabase trainings
-> On site trainings for each main research station: WP1 ( UG, TZ) and WP2 ( UG, last week)
-> Data managers: Veronica Frank and Ringo Sifuel (Arusha), Violet Akesh (Sendusu)
IITA Arusha (WP1)
IITA/NARO Uganda (WP1)
IITA Uganda (WP2)
MUSABASE

23. Musabase perspectives
Short term (1 month):
-> Release of the final Ontology version (PostComposing)
-> Welcome Margaret (IITA Nairobi)
-> Need for germplasm name harmonization
Mid term (2-6 months):
-> Increase effort on data upload (WP2-WP4)
-> integration of CIPcross and SmartODK
-> Inclusion of new project partners (India, Malaysia)
-> data managers to get more in depth training?
-> banana breeding legacy data: shall we “digitize” it?
MUSABASE

24. Musabase contacts -> User accounts http://musabase.org/
-> Mailing list
-> Tutorials
MUSABASE

25. AKNOWLEDGEMENTS Guillaume Bauchet Bryan Ellerbrock Naama Menda Nick
Morales
Lukas
Mueller
Alex
Ogbonna
Isaak
Tecle
Titima
Tantikanjana