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Cassava Needs Project Urgent Other needs Biotic stress Genotyping Decision and support tools Implementing MARS - cassava Management of genotyping data Field data management Decision and support tools CoP Management of genotyping data Pedigree management

Cassava Needs ProjectUrgentOther needs Biotic stressGenotypingDecision and support tools Implementing MARS - cassava Management of genotyping data Field

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Page 1: Cassava Needs ProjectUrgentOther needs Biotic stressGenotypingDecision and support tools Implementing MARS - cassava Management of genotyping data Field

Cassava NeedsProject Urgent Other needs

Biotic stress Genotyping Decision and support tools

Implementing MARS - cassava

Management of genotyping data

• Field data management

•Decision and support tools

CoP Management of genotyping data

•Pedigree management

Page 2: Cassava Needs ProjectUrgentOther needs Biotic stressGenotypingDecision and support tools Implementing MARS - cassava Management of genotyping data Field

Cassava needs

• Best model for analysis to minimize heterogeneity in non-uniform stress differences – correcting for sources of variation

• Tracking most efficient haplotype combinations

Page 3: Cassava Needs ProjectUrgentOther needs Biotic stressGenotypingDecision and support tools Implementing MARS - cassava Management of genotyping data Field

Rice CI need for IBP

• Genotype at least two MARS populations through IBP

• Expand the use of handheld

• Train researchers on SNP data analysis

• Make MARS decision support tools available through training

•Train researchers on analysis and decision support tools

• Make softwares related to analytical and decision support tools

available to project members through training

Page 4: Cassava Needs ProjectUrgentOther needs Biotic stressGenotypingDecision and support tools Implementing MARS - cassava Management of genotyping data Field

Analysis & Decision Support tools

•Cross prediction and selection methodology

•Decision support tools

Logistics and data management

• Pedigree Information Management

• Transition to LIMS, Bar coding

Preparing NARS scientists for using these tools

Pilot MARS data available now

Main MARS phenotypic data in Nov.

Most Urgent Needs for cowpea

ISMAB - ICRISAT/GCP-IBP

Page 5: Cassava Needs ProjectUrgentOther needs Biotic stressGenotypingDecision and support tools Implementing MARS - cassava Management of genotyping data Field

What help do we need from IBP (or anyone else)?1. R-based tools for routine breeding analysis in Fieldbook-IMIS

• We need to make sure that the 5-6 most important breeding analyses are bundled in the fieldbook using R, and run well on small laptops.

• Easy retrospective analysis of long-term trial databases, link to environmental data.

• We need good interfaces and graphics

2. Support for migration from spreadsheets to a breeding informatics system

3. Pipeline for sequence -> called alleles for GBS.

4. Geo-referenced estimation of plot residuals for local error control!!

Page 6: Cassava Needs ProjectUrgentOther needs Biotic stressGenotypingDecision and support tools Implementing MARS - cassava Management of genotyping data Field

Rice STRASA Future needs• • High throughput, automated and cheaper genotyping services

• Enough information and support to apply new breeding methodologies

• Large scale drought screening facilities in wet season

• Enough support to disseminate the newly released varieties

Page 7: Cassava Needs ProjectUrgentOther needs Biotic stressGenotypingDecision and support tools Implementing MARS - cassava Management of genotyping data Field

IBP needs for wheat CI

Genotyping – need cost effective SNP access now for both Indian & Chinese MARS materials

Data management in India using ICIS has begun. Limited in China due to Chinese script and no history of usage.

Page 8: Cassava Needs ProjectUrgentOther needs Biotic stressGenotypingDecision and support tools Implementing MARS - cassava Management of genotyping data Field

Urgent Needs from IBP

Finalisation of integration of FIELDBOOKTraining on R in FIELDBOOKAccess to Marker ServicesAssistance in establishment of DNA extraction

facilitiesProvision of consultancy to enhance uptake of

novel technologies?