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Association mapping in forage crop grasses

Association mapping in forage crop grasses. Leif Sk øt. Association mapping in Lolium perenne. Potential for high-resolution mapping Evaluation of many alleles Complements linkage mapping Control for population structure. Traits. Water soluble carbohydrates Ruminant productivity

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Association mapping in forage crop grasses

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  1. Association mapping in forage crop grasses Leif Skøt

  2. Association mapping in Lolium perenne • Potential for high-resolution mapping • Evaluation of many alleles • Complements linkage mapping • Control for population structure

  3. Traits • Water soluble carbohydrates • Ruminant productivity • Abiotic stress tolerance (drought, cold) • Flowering time • Plant development • Forage quality traits • Seed production

  4. Alkaline Invertase locus map to QTL for Glucose and Fructose Fructose and Glucose Turner et al. New Phytol. 2005

  5. Invertases: 1. Acid (vacuolar and Cell wall) 2. Alkaline Vacoule Fructan Glucose Fructosyl - -sugar storage -osmoregulation -response to cold stress transferase Acid Invertase Fructose Sucrose Cell Wall Glucose Chloroplast / Sucrose Acid Invertase Amyloplast Sucrose Fructose Starch Glucose Alkaline Invertase -substrates for respiration -biosynthesis of primary and secondary compounds - regulation of gene expression by sugars Fructose Cytosol

  6. Depleted in soluble carbohydrate Plants - low light short photoperiod Excised Leaves 24h Dark Water Sucrose solution Sorbitol solution (osmotic Control) Effect of sucrose accumulation on gene expression W Suc Sor Actin Alk Inv.

  7. Alkaline invertase expression along the developing leaf TLC - Water Soluble Carbohydrates 25 20 Sucrose 15 Ct 10 5 0 25 20 15 Ct 10 5 0 25 20 Ct 15 Photoperiod 10 5 0 25 20 15 Ct 10 5 1 2 3 4 5 0 1 2 3 4 5

  8. SNPs in Alkaline Invertase Locus of Lolium perenne LG 6 D-N M-L 1 kb

  9. LD in candidate genes Alkaline Invertase

  10. LD in Alkaline invertase locus

  11. Population structure 70 AFLP markers

  12. Association analysis Alkaline Invertase and WSC Linear mixed model (WSC) ANOVA

  13. LOD 10 20 30 40 0 0 INV1:2 R2869 6 10 B6102b CDO545 12 OSW 19 LpF2 23 LpF1 25 LpF3 26 C764 27 ACA_CTA_254 C764 28 LpF4 ACA_CTA_321 E38M4710 30 S2539 ACA_CTA_254 ACA_CTA_321 33 E40M5909 ACA_CAC_225 34 RZ144 S2539 ACA_CAC_225 35 38 E39M4910 GSY60.1 41 E37M5601 42 CDO385.1 PSR690 E41M5710 43 RZ952 45 C390 46 LtemCOa 53 LtemCOb 55 E39M5802 56 58 E41M5701 ACA_CAC_246 59 69 ACA_CTA_204 ACP 85 CAT 103 AFLP markers associated with flowering time in Lolium perenne Fructan epistatic QTL

  14. Properties of LpCO gene • Synteny with rice HD1 locus • Homologous to CONSTANS • Complements Arabidopsis co-2 mutant • (Martin et al. 2004, PMB 56: 159) • Upregulated in response to LD • Map to major QTL for flowering time

  15. SNPs in HD1 locus in Lolium perenne LG7 N-I V-M CAA[C/A]A Peroxidase HD1 1 kb

  16. LD in candidate genes HD1

  17. Association analysis HD1 locus and flowering time Linear mixed model (pops random effect)

  18. Association analysis HD1 locus and flowering time ANOVA * P<0.05; ** P<0.01; *** P<0.001

  19. SNP 4443 in HD1 locus N-I V-M CAA[C/A]A Peroxidase HD1 1 kb CAACA Consensus recognition sequence for RAV1/AP2…

  20. Acknowledgements IGER Janet Humphreys Mervyn Humphreys Joe Gallagher Danny Thorogood Ian Armstead Sue Heywood Mark Hirst Ruth Sanderson Lesley Turner University of Birmingham Zewei Luo Mike Kearsey

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