Natural Variation in Arabidopsis
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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

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


Talk outline

Talk Outline

  • Survey of light response in Arabidopsis accessions

  • QTL mapping of light response in Ler/Cvi RILs

  • Association mapping of LIGHT QTL


Light affects the entire plant life cycle

Light Affects the Entire Plant Life Cycle

de-etiolation

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hypocotyl


Talk outline

My only collection


Talk outline

PHYB


Linkage disequilibrium mapping

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?


Talk outline

Tian et. al. 2002 RPS5 LD < 10kb


Talk outline

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


Talk outline

LD mapping at LIGHT1

SNP108

SNP108

Test statistic

Chromosome 1 (7.1Mb – 7.5Mb)

Chromosome 1 (6.5Mb – 8Mb)

Red light


Ld mapping at light2 phyb

LD mapping at LIGHT2 (PHYB)

Test statistic

PHYB

Chromosome 2 (8Mb – 8.25Mb)


Talk outline

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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