Molecular Breeding Molecular Breeding Platform Platform Relationshi Relationshi p with ICIS p with ICIS Graham McLaren ICIS Developers’ Workshop March 2nd 2010, Perth, Australia
Dec 30, 2015
Molecular Breeding PlatformMolecular Breeding PlatformRelationship Relationship with ICISwith ICIS
Graham McLarenICIS Developers’ WorkshopMarch 2nd 2010,Perth, Australia
VisionVision
A one-stop-shop where breeders A one-stop-shop where breeders can access: can access: high-throughput services, high-throughput services, tools for breeding logistics, tools for breeding logistics, an intuitive analysis pipeline, an intuitive analysis pipeline, decision support tools and decision support tools and support to use these facilitiessupport to use these facilities
in order to deploy molecular in order to deploy molecular breeding technology for breeding technology for sustainability and development.sustainability and development.
The MBP PartnershipThe MBP PartnershipUSERS TOOLS AND SERVICES PARTNERS
Genetic Resource SupportService
Breeding Logistics &Data Management
Marker & TraitServices
AnalysisPipeline
DecisionSupport Tools
Training &Capacity Development
Accumulated Crop Informationfor Predictive Breeding
CGIAR Pre-Breeding& Breeding Projects
CGIAR Breeding Networks
NARES Breeding Projects
Small & Medium Sized Enterprises
CGIAR Lead Crop Centers: · Set breeding standards and procedures
· Help train external users
· Curate and Host Public Crop Information
· Promote use and access to the Platform
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Use Case Projects:· Specify requirements
· Test tools and services
· Ensure Relevance
· Promote use of and access to the Platform
Use CasesUse Cases
Beans, CIAT,M Blair Beans, CIAT,M Blair (Tropical Legumes I project, (Tropical Legumes I project,
BMGF) BMGF) Chickpeas, ICRISAT, Pooran GaurChickpeas, ICRISAT, Pooran Gaur
(Tropical Legumes I & II (Tropical Legumes I & II projects, BMGF) projects, BMGF)
Cowpeas, UC-R, Jeff EhlersCowpeas, UC-R, Jeff Ehlers (Tropical Legumes I project, (Tropical Legumes I project,
BMGF) BMGF) Maize (DT Maize), CIMMYT , Gary Maize (DT Maize), CIMMYT , Gary
Atlin Atlin (Drought Tolerant Maize for (Drought Tolerant Maize for
Africa, BMGF) Africa, BMGF) Maize, CIMMYT , Vivek Maize, CIMMYT , Vivek
BindiganavileBindiganavile (Drought Tolerant Maize for (Drought Tolerant Maize for
Asia, GCP) Asia, GCP) Rice, IRRI, David MACKILLRice, IRRI, David MACKILL
(STRASA Project, BMGF) (STRASA Project, BMGF) Rice, CAAS-IRRI, Zhikang Li Rice, CAAS-IRRI, Zhikang Li
(Green Super Rice, BMGF) (Green Super Rice, BMGF)
Sorghum, CIRAD, Jean-Francois Sorghum, CIRAD, Jean-Francois Rami Rami (GCP project) (GCP project)
Wheat, PBI, University of Sidney Wheat, PBI, University of Sidney Richard TrethowanRichard Trethowan (ACIAR project) (ACIAR project)
Wheat, USDA/CIMMYT, Hans BraunWheat, USDA/CIMMYT, Hans Braun (Rust, BMGF) (Rust, BMGF)
Rice, AfricaRice,Marie Noële Rice, AfricaRice,Marie Noële N'djiondjopN'djiondjop (GCP Challenge Initiative) (GCP Challenge Initiative)
Wheat, IARI, ICAR, New Delhi, Wheat, IARI, ICAR, New Delhi, Vinod PrabhuVinod Prabhu (GCP Challenge Initiative) (GCP Challenge Initiative)
Wheat, Institute of Crop Science, Wheat, Institute of Crop Science, (CAAS), Ruilian Jing(CAAS), Ruilian Jing, , (GCP Challenge Initiative) (GCP Challenge Initiative)
Cassava, NRCRI Umudike, Nigeria, Cassava, NRCRI Umudike, Nigeria, Emmanuel Okogbenin,Emmanuel Okogbenin, (GCP Challenge Initiative)(GCP Challenge Initiative)
Crop Lead CentersCrop Lead Centers
Cassava Cassava CIAT/IITACIAT/IITA
Bean Bean CIAT CIAT Maize Maize CIMMYT CIMMYT Wheat Wheat
CIMMYT CIMMYT Sweet Potato Sweet Potato CIP CIP Potato Potato CIP CIP Barley Barley
ICARDA ICARDA Lentil Lentil ICARDA ICARDA Faba Bean Faba Bean ICARDA ICARDA
Chickpea Chickpea ICRISATICRISAT
Groundnut Groundnut ICRISAT ICRISAT Pigeon pea Pigeon pea ICRISAT ICRISAT Pearl millet Pearl millet ICRISAT ICRISAT Sorghum Sorghum
ICRISATICRISAT Cowpea Cowpea IITA IITA Soybean Soybean IITA IITA Yam Yam IITA IITA Rice Rice IRRI IRRI
User Committee - CompositionUser Committee - Composition
The User Committee will initially The User Committee will initially consist of a representative of crop for consist of a representative of crop for which there are Use Cases:which there are Use Cases:
• Gary Atlin (Chair) MaizeGary Atlin (Chair) Maize• Matthew Blair BeansMatthew Blair Beans• Pooran Gaur ChickpeaPooran Gaur Chickpea• Jeff Ehlers CowpeaJeff Ehlers Cowpea• David Mackill RiceDavid Mackill Rice• J-F Rami SorghumJ-F Rami Sorghum• Richard Trethowan WheatRichard Trethowan Wheat• Emmanuel Okogbenin CasavaEmmanuel Okogbenin Casava• Xavier Delannay MBP RepXavier Delannay MBP Rep
The MBP and ICISThe MBP and ICIS
The MBP would like to:The MBP would like to: be a partner in the ICIS community,be a partner in the ICIS community, deploy ICIS for a wide range of breeding deploy ICIS for a wide range of breeding
objectives (start with use cases),objectives (start with use cases), catalise a wide support network (CLCs)catalise a wide support network (CLCs) support maintenance od existing toolssupport maintenance od existing tools support development of new toolssupport development of new tools
ICIS Investments 1: Support ICIS Investments 1: Support for existing toolsfor existing tools
MBP Objective 2.1: MBP Objective 2.1:
Sample tracking, Sample tracking, pedigree management pedigree management and germplasm lists. and germplasm lists. AAFC+CRILAAFC+CRIL
Phenotyping data Phenotyping data management. CRILmanagement. CRIL
Genotyping data Genotyping data management. ICRISATmanagement. ICRISAT
ICIS Investments 2: Support ICIS Investments 2: Support for new toolsfor new tools
MBP Objective 2.3. MBP Objective 2.3. Informatics network infrastructure. Informatics network infrastructure.
CRIL+ICRISATCRIL+ICRISAT Development of decision support tools. Development of decision support tools.
CRIL+ICRISATCRIL+ICRISAT Development of a Configurable Workflow Development of a Configurable Workflow
System. CRIL+ICRISAT+AAFC System. CRIL+ICRISAT+AAFC
MBP Operating ProcedureMBP Operating Procedure
Deploy bullet-proof releasesDeploy bullet-proof releases Requires enhanced testingRequires enhanced testing Professional release Professional release
managementmanagement Rapid response to bug reportsRapid response to bug reports Prioritization of feature Prioritization of feature
requestsrequests
Support to usersSupport to users MBP Informatics coordinatorMBP Informatics coordinator Network of Crop Lead CentersNetwork of Crop Lead Centers
Deployment of ICIS by the Deployment of ICIS by the MBPMBP
I would like to go cloud-based!I would like to go cloud-based! Server-based for those with connectivityServer-based for those with connectivity
Install ICIS and the Analytical Pipeline on a Install ICIS and the Analytical Pipeline on a central servercentral server
User access via VPN/CitrixUser access via VPN/Citrix Support for multi-crop web accessSupport for multi-crop web access
Local Installation for non-connectedLocal Installation for non-connected Identical installation on local LAN or user PCsIdentical installation on local LAN or user PCs Periodic sync via CDs to the serverPeriodic sync via CDs to the server Requires bullet-proof installersRequires bullet-proof installers Automated uploadersAutomated uploaders