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Talk Outline

Natural Variation in Arabidopsis Light Response: Linkage Disequilibrium Mapping Justin Borevitz Salk Institute http://naturalvariation.org. Talk Outline. Survey of light response in Arabidopsis accessions QTL mapping of light response in Ler/Cvi RILs Association mapping of LIGHT QTL.

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Talk Outline

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  1. Natural Variation in ArabidopsisLight Response:Linkage Disequilibrium MappingJustin BorevitzSalk Institutehttp://naturalvariation.org

  2. Talk Outline • Survey of light response in Arabidopsis accessions • QTL mapping of light response in Ler/Cvi RILs • Association mapping of LIGHT QTL

  3. Light Affects the Entire Plant Life Cycle de-etiolation } hypocotyl

  4. My only collection

  5. PHYB

  6. Linkage Disequilibrium Mapping • What is the extent of LD in Arabidopsis? locus and genome wide • Can this be used to fine map QTL? • Genome wide association scans?

  7. Tian et. al. 2002 RPS5 LD < 10kb

  8. LD mapping at LIGHT1 LD mapping at LIGHT1 SNP108 SNP108 Test statistic Chromosome 1 (7.1Mb – 7.5Mb) Chromosome 1 (6.5Mb – 8Mb) White light

  9. LD mapping at LIGHT1 SNP108 SNP108 Test statistic Chromosome 1 (7.1Mb – 7.5Mb) Chromosome 1 (6.5Mb – 8Mb) Red light

  10. LD mapping at LIGHT2 (PHYB) Test statistic PHYB Chromosome 2 (8Mb – 8.25Mb)

  11. NaturalVariation.org • Salk • Joanne Chory • Detlef Weigel • Joseph Ecker • UC Davis • Julin Maloof • UC San Diego • Charles Berry • USC • Magnus Nordborg • Stanford • Tina Noyes • Sujatha Krishnakumar • Peter Oefner • Salk • Joanne Chory • Detlef Weigel • Joseph Ecker • UC Davis • Julin Maloof • UC San Diego • Charles Berry • USC • Magnus Nordborg • Stanford • Tina Noyes • Sujatha Krishnakumar • Peter Oefner

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