Vector Databases 101 - An introduction to the world of Vector Databases
GRM 2013: Sorghum product catalogue and project status -- Projects ongoing, completed, and to be continued post-2014 -- J-F Rami
1. Product catalogue
= tangible products currently available
• Currently 6 products listed in the catalogue!
• Reviewed information for all of them
• Added 16 more products
– Germplasm
– Sorghum Reference Set (GCP Phase 1)
– BC lines containing stay-green introgressions from Australian project
– RMP populations with segregation for AltSB and PSTOL1
– Genotyping datasets
– 200k GBS dataset from 188 diverse lines and varieties from WA
– SSR datasets on Reference and composite set (GCP Phase 1)
– Kaspar SNP fingerprinting dataset
– Phenotyping datasets
– Dataset on low-P phenotyping
– Aluminium tolerance diversity data
– Phenotyping data of the GCP reference set
• Commited to provide a summary information for each of it
2. Product catalogue
General issues
• Genetic stocks conservation and distribution
– Not part of Genbank mandate
– Need to get record of Reference Set recipients
• Conservation of breeding products in breeding
programs is an issue
– Conservation infrastructure (fridges, cold room)
– Backup in regional genbanks?
3. Ongoing projects
Code Title Status
1 G3008.05 Discovery and development of alleles contributing to sorghum drought
tolerance
NCE 30th Sep 2014
2 G4008.48 Improve sorghum productivity in semi-arid environments of Mali through
integrated MARS
NCE 15th Oct 2014
3 G4012.01/G70
09.04
Development and evaluation of drought-adapted sorghum germplasm for
Africa and Australia (G4012.01: Phase II)
Phase I: Complete
Phase II in progress
4 G7010.05.01 Enhancing sorghum grain yield and quality for the Sudano-Sahelian zone of
West Africa using the backcross nested association mapping (BCNAM)
approach
NCE 15th Oct 2014
5 G701003.03 Establishing a molecular breeding program based on the aluminum
tolerance genes, AltSB, and the P efficiency QTL, Pup-1, for increasing
sorghum production in sub-Saharan Africa
March 2014, NCE in progress
6 Improving phosphorus efficiency in sorghum by the identification and
validation of sorghum homologs for Pup1, a major QTL underlying
phosphorus uptake in rice (SorghumPup1)
March 2014, NCE in progress
4. Project Status/completion
• Scientific activities completed for all projects by
end of 2014
• Limit for NCE?
• Breeding activities to be continued (variety
development)
• MARS project
• BCNAM project
• PSTOL1/AltSB molecular breeding project
➙End of 2017
➙Sources of funding: CRP, Syngenta Foundation, …
5. Project Status/completion
• BCNAM project
– Redefine germplasm product as BC1F4 bulks
• Need seed increase (5000 families - 15plant rows)
– Revisite Genotyping strategy (GBS)
• Need new leaf sampling and DNA isolation
• GBS facility: Cornell, …?
– Need for deep re-sequencing of parents (40k)
– CB: 2 PhD students starting end of 2013
• Stay-Green Australian project
– Genotyping of 4 RIL populations: to be handled by GSS