FruitBreedomics 1st Annual meeting 20120208 WP1 Overview of state of progress

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FruitBreedomics 1st Annual meeting 20120208 WP1 Overview of state of progress

  1. 1. WP1State of progress
  2. 2. State of progress of the ongoing tasksTask 1.1: Breeding strategiesAim: identify the 10-15 traits, that are most important to the stakeholders, assign them weights to allow index selection, define ideotypes for the pilot studies and define the breeding strategies to apply in the pilot studies.Status:– Two questionnaires have been prepared and sent to apple and peach breeders– The results of the apple survey (presented yesterday) allowed to identify the most important traits and to get a better knowledge of the apple breeding programs– The peach survey is still ongoing, so far 12 replies out of the 37 invitations
  3. 3. State of progress of the ongoing tasksTask 1.2: Development and mapping of SNP markers tightly associated to selected traits/lociAim: identify 5 resp. 10 SNPs for major genes and QTLs with large effects mapped before the beginning of the projectStatus:Apple: SNPs identified for apple scab res. genes Vbj and Rvi2 SNP in development for: Vb, and scab QTLs of Durello di Forli, Fiesta, Discovery and fire blight resistance loci of Evereste and M. robusta 5Peach:Segregating populations have been SNP genotyped with9k RoseBreed chip. Analysis of the data is concluded, datasent to the partners, mapping of SNP and identification ofSNPs associated to the traits is started.
  4. 4. State of progress of the ongoing tasksTask 1.3: Pilot studiesAim: test of the breeding strategies defined in T1.1Status: Breeding companies have chosen (or are in the process of choosing) the large fruiting population(s) they will progressively select according the breeding strategy defined in T1.1 Breeding institutes have performed new crosses according the ideotypes they defined in T1.1. These populations have combinations of traits for which SNPs will be developed (T1.2, T3.2, T3.3 and T4.4) E.g. EVD: ACW 13652 (Rvi6, Pl2) x ACW 11567 (Rvi2, Rvi4); 2793 seeds (req. 2500)Task 1.4: Genotyping pipelineAim: Optimization, description and test in the pilot studies of all the steps necessary toperform MAB and genotyping of the plant material of the pilot studiesStatus:No activities so far in T1.4, but FEM in T6.4 is testing different low cost DNA extractionmethods.This afternoon: short presentation of few technologies that could be used for thegenotyping with SNP markers of the populations of the pilot studies (Michela Troggio)
  5. 5. State of progress of the ongoing tasksTask 1.5: Specifications list of the breeder-interface to query the database to foster apple and peach breedingAim: prepare the list of specifications of the breeder-interface in order to allow breeders to retrieve the information from the database necessary to select the best parents and to interpret MAB results.Status: First discussions with the stakeholders at the kick-off meeting in Angers andyesterday during the “Stakeholder Platform day”.This afternoon: Short presentation of the RoseBreed breeder interface (Alessandra Stella) followed bythe start of the internal discussion on the breeder interface
  6. 6. Milestones and Deliverables status• D1.1 (M12) Description of ideotypes and breeding schemes For apple: survey concluded and most important traits identified For peach: both tasks not yet concluded To do for both species: weighting of the traits, description of ideotypes and selection scheme to select the ideotypes in the pilot studies• ML1.1 (M12, report) Ideotypes and relative breeding scheme including MAB described. See above• ML1.2 (M12, report) Evaluation of applicability of GWS to apple and peach. – GWS for apple has been studied (Kumar et al. 2011) extrapolation from apple study for peach possible
  7. 7. Expected delays and problemsDelay of D1.1 the delay has been estimated to 3 months.However, the delay has no consequences on the time-table of theproject (selection of pilot studies material will start at earliest in2013) New deadline of the D1.1 postponed to M15 (end of June 2012)
  8. 8. Tasks to be done during the AnnualMeeting• Task 1.1: All the partners involved in the task know what they have to deliver and in which form in order to rapidly complete the deliverable D1.1• Task 1.2: Exchange of experiences on SNP identification• Task 1.3: If not yet done, select progenies for pilot studies• Task 1.4: Start to think which SNP genotyping technology could be considered for the pilot studies• Task 1.5: Active participation to the definition of the requirements of the breeder interface

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