TLI 2012: MAGIC in chickpeas - Challenges and opportunities

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TLI 2012: MAGIC in chickpeas - Challenges and opportunities

  1. 1. MAGIC in chickpea: Challenges and opportunities Mahendar Thudi Pooran M Gaur Rajeev Varshney
  2. 2. Comparison between biparental linkage analysis, association mapping and MAGIC Rakshit et al. 2012
  3. 3. Intelligent design of crossing schemes
  4. 4. For MAGIC populationsEight well performing elite chickpea linesParental line RemarksICC 4958 Drought tolerant genotype found promising in Ethiopia, Kenya and India; drought tolerant parent of two mapping populationsICCV 10 Widely adapted drought tolerant cultivar found promising in India and KenyaJAKI 9218 Farmer-preferred cultivar in central and southern IndiaJG 11 Farmer-preferred cultivar in southern India and also performing well in KenyaJG 130 Farmer-preferred cultivars from central IndiaJG 16 Farmer-preferred cultivar in northern and central IndiaICCV 97105 Farmer-preferred elite line identified in Kenya and TanzaniaICCV 00108 Farmer-preferred elite line identified in Tanzania
  5. 5. Current status of MAGIC populations8 parents: A) ICC 4958, B) JAKI 9218, C) JG 130, D) ICCV 00108, E) ICCV 97105, F) ICCV 10, G) JG 11, H) JG 16 28 2-ways Oct 09 – Feb 10 Field 14 4-ways Jun 10- Sep 10 Green house 7 8-ways Oct 10-Feb 11 Field F1s raised and selfed in green house Mar 11- Jun 11 F2s raised and selfed in green house Jun 11- Sep 11 SSD method 1200 F3 progenies raised in field Oct 11- Feb 12 SSD method 1200 F4 progenies raised in field Feb 12- May 12 SSD methodSNP genotyping 1200 F5 progenies raised in field Jun 12- Sep 12 SSD method 1200 F6 progenies raised in field Oct 12- Feb 13
  6. 6. Challenges and opportunities Opportunities The MAGIC lines developed posses genetic variation Can be used as training populations for genomic selection The discovery of new forms of allelic variability The larger number of accumulated recombination events increase the mapping accuracy of the detected QTL compared to an F2 cross Development of breeding lines and varieties adapted to different environments in Asia and Sub-Saharan Africa Any generation can be saved and utilized to develop RILs suitable for both coarse and fine mapping
  7. 7. ChallengesHandling of many number of crossesLarge scale phenotyping – resources may not be availableto breedersConfirmation of hybridity in 4-way and 8 way crossesData analysis
  8. 8. Identified the genomic regions - responsible for the glabrous anderecta binary traitsQTL analysisEmpirical Bayes mixed effects- MAGIC population StructureHierarchical Bayesian, method ignores population structure
  9. 9. THANKS !

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