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