ICGN International Coffee Genome Network

1
ICGNInternational Coffee Genome Network

• Founding meeting
• Paris 4 5 April 2005

2
Mission

• ICGN is committed to advancing genomic research
  through international partnerships for
  sustainable coffee
• production

3
ICGN Goals

• Facilitate information and resource sharing
  within the scientific community
• Provide to breeders molecular tools and relevant
  knowledge
• Access and share knowledge on genetics and the
  molecular basis of important traits
• Use and conserve genetic resources
• Ensure benefits to growers and consumers
• Ensure the sustainability of the coffee
  production chain (social, economical,
  environmental)

4
Network membership criteria

• Research scientist on coffee and / or genomics
• Representatives of
• Companies
• Networks (RECA, PROMECAFE, CORNET,)
• Institutes

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Tasks of 1st Steering Committee

• To propose medium and long term strategies
• To adopt and coordinate common set of specific
  activities
• To raise funds and to support research proposals
• To approve new memberships
• To promote the training of scientists
• To advise on IPR and legal issues
• The first steering committee will prepare the
  terms of reference

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1st Steering Committee

• Composition
• Working group representative 6 (3 P 3C)
• Coordinator 1
• IPGRI 1
• Private company 1
• Grower representation 1
• Consumer representation 1
• Total 11
• Mandate duration Until next ASIC meeting
  (Sept. 2006)
• P producer country, C consumer country

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Secretariat

• Assists the steering committee
• Facilitates communication between network members
• Coordinates information exchange
• (mailing list, web pages, workshops, meetings)
• The offer of IPGRIs representative to host the
  secretariat has been positively received but
  remains to be endorsed.

8
Network coordinator

• The mandate of the network coordinator will be
  defined by the 1st steering committee
• André Charrier was confirmed as coordinator until
  the next ASIC meeting

9
Working groups

• WG1 - Markers and genetic diversity
• WG2 Markers and genetic mapping
• WG3 BAC libraries, physical maps
• WG4 ESTs and transcriptional profiling
• WG5 Tools for functional analysis
• WG6 - Bio-informatics
• BACBacterial Artificial Chromosome,
  ESTExpressed Sequence Tag

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WG1- Markers and genetic diversityCoordinators
L. Johnson (CATIE), C. Agwanda (CORNET)

• Objectives
• Define a common set of markers
• Identify a common set of germplasm for ring test
• Develop allele bins
• Set up a central database

11
WG2 Markers and genetic mappingCoordinators
R. Ming (Univ. Hawaï), T. Leroy (CIRAD)

• Objectives
• Identify and/or develop segregating populations
  (diversity maximization, population size,
  possibility of using micro-propagation for
  distribution)
• Select a common set of markers (accessible on the
  web), adopt common markers and chromosome
  nomenclature
• Develop two common references maps. Integrate all
  genetic maps/density genetic map
• ESTs, SNP and relationship with physical mapping
• SNP (Single Nucleotide Polymorphism)

12
WG3 - BAC Libraries physical mapsCoordinators
Ph. Lashermes (IRD), J. Carlos Herrera
(Cenicafé)

• Objectives
• Access to the available Canephora and Arabica -
  BAC libraries
• Define a common reference BAC library
  corresponding to one of the parent involved in
  the reference segregating population high
  density map (see above)
• Initiate the construction of a physical map based
  on BAC fingerprinting
• Sequence BAC ends
• Integrate the physical map with the reference
  genetic maps
• Long-term goals
• Construct BAC libraries with relative species
• Sequence the complete coffee genome
• Sequence homologous regions in different wild
  species

13
WG4 - EST transcriptional profilingCoordinators
A. Andrade (EMBRAPA), G. Graziosi (univ.
Trieste)

• Objectives
• Identify available ESTs
• Pool the data and develop a framework for
  analyzing EST sequence information
• Reduce duplication and increase EST coverage
• Develop an EST UNIGENE set
• Develop microarrays using UNIGENE for expression
  studies
• Provide EST resource for genetic and physical
  mapping
• Initiate comparative genomics (within and outside
  the genus e.g. SOL)
• Identify key genes involved in different traits

14
WG5 Tools for functional analysisCoordinators
H. Etienne (CIRAD), HL. Sreenath (India)

• Objectives
• Develop tools for gene function validation
• Genetic transformation
• Mutagenesis
• Share the technology between ICGN members

15
WG6 - Bio-informaticsCoordinators to be
identified. Rajkumar (Unido), B. Courtois
(Cirad), Da Silva (Embrapa), L. Mueller (Cornell)

• Objectives
• Establish bio-informatics needs
• Encourage submissions to public repositories
• Identify informatics solution for global coffee
  data system
• Initiate a web-based community forum
• Integrate databases (including morpho-agronomical
  traits)

Institutes considered for database management
Cornell Univ. (USA), Cirad (France), Embrapa
(Brazil), Trieste Univ. (Italy)
16
WG coordinators
From producer country From consumer country
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Upcoming announcements

• Internal communication
• Diffusion of documents
• External communication
• Announce the launching of ICGN on Websites
  (ASIC, ICGN)
• Inform international organizations ICO and
  others
• By the secretariat supervised by the Network
  coordinator

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Next ICGN meetings

• Trieste meeting (to be confirmed by September
  2005)
• Objective to follow up on WG activities
• Date and place Early 2006 in Trieste (Italy)
• Organizer G. Grasiozi and UNIDO (ICS)
• XXI ASIC meeting
• Objective to follow up on WG activities and
  network development
• Date and place September 2006 in Montpellier
  (France)