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. 2011 Dec 12;158(2):570–589. doi: 10.1104/pp.111.186676

Table IV. Colocations at the major QTL loci.

QTLa Trait HIF Confirmationb Marker LOD cM/Mb Interval Effect Colocalization with Other Seed Studies
cM
1-1 NaCl.NS.Gmax F21M12 13.1 9.7/3.21 5–13 >Bay-0 Cloned QTL for salt and ABA sensitivity during germination and seedling growth in Ler × Sha, RAS1 (Ren et al., 2010)
NaCl.NS.AUC 14.1 6–13 >Bay-0
NaCl.WS.Gmax 098/198 4.6 4–14 >Bay-0
ABA.NS.Gmax 098 4.7 5–22 >Bay-0
ABA.NS.AUC 098 6.6 4–14 >Bay-0
Heat.NS.AR.Gmax 098 10.1 6–18 >Bay-0 QTL for germination after heat shock in Ler × Sha (Clerkx et al., 2004)
Heat.NS.AR.AUC 098 14.4 6–18 >Bay-0
1-2 NaCl.WS.Gmax T27K12 7.9 49.1/15.93 42–54.7 >Bay-0 QTL for germination on salt in Ler × Sha (Galpaz and Reymond, 2010)
NaCl.WS.U8416 3.6 38–62 >Bay-0
NaCl.WS.AUC 9.2 41–57 >Bay-0
ABA.WS.Gmax 4.9 44–54.7 >Bay-0
3-1 Stratification.AR.AUC ATHCHIB2 3.4 6.6/3.96 0–19 >Bay-0 QTL for germination on ABA and salt in Ler × Sha (Clerkx et al., 2004)
NaCl.NS.Gmax 6.0 2–16 >Bay-0
NaCl.NS.t50 4.4 0–8 >Bay-0 QTL for germination on polyethylene glycol in Bay-0 × Sha, OSMOTIC SENSITIVITY RESPONSE2 (Vallejo et al., 2010)
NaCl.NS.AUC 9.7 1–7.9 >Bay-0
NaCl.WS.Gmax 424 5.9 1–16 >Bay-0
NaCl.WS.t50 004 7.9 0–14 >Bay-0
NaCl.WS.U8416 004 4.0 0–19 >Bay-0
NaCl.WS.t10 424 4.9 0–17 >Bay-0
NaCl.WS.AUC 424 9.6 1–14 >Bay-0
Mannitol.NS.AUC 3.6 0–16 >Bay-0
ABA.NS.Gmax 424/004 10.7 1–7.9 >Bay-0
ABA.WS.Gmax 105/424/004 10.8 2–7.9 >Bay-0
ABA.WS.AUC 424/105 6.5 0–7.9 >Bay-0
Cold.NS.Fresh.Gmax 3.4 0–19 >Sha
Heat.NS.AR.Gmax 424 7.6 3.2–7.9 >Bay-0
Heat.NS.AR.AUC 6.9 3.2–19 >Bay-0
Heat.WS.AR.Gmax 4.7 0–17 >Bay-0
Heat.WS.AR.U8416 424 3.4 4–17 >Bay-0
Heat.WS.AR.AUC 5.0 1–13 >Bay-0
3-2 Stratification.Fresh.Gmax 192/404 MSAT332 11.3 39.5/11.21 36–50 >Sha Dormancy QTL; delay of germination, DOG6 (Bentsink et al., 2010)
Stratification.Fresh.AUC 004/192/404 12.9 37–50 >Sha
Stratification.AR.Gmax 004/192 8.0 35–52 >Sha
Stratification.AR.t50 404 6.7 33–48 >Sha
Stratification.AR.U8416 8.1 35–48 >Sha QTL for dormancy and germination on salt in Ler × Sha (Clerkx et al., 2004)
Stratification.AR.AUC 404 7.8 36–48 >Sha
AfterRipening.Gmax 004/192/404 9.0 35–48 >Sha
AfterRipening.AUC 404 10.0 36–48 >Sha
NaCl.WS.t50 004 3.8 33–52 >Bay-0 QTL for cold-dark germination in Bay-0 × Sha, COLD-TOLERANT DARK GERMINATION-3 (CDG-3;Meng et al., 2008)
Mannitol.NS.Gmax 192/404 6.7 36–52 >Sha
ABA.NS.AUC 8.4 32–46 >Bay-0
Cold.NS.Fresh.AUC 8.0 36–52 >Bay-0
Heat.NS.Fresh.U8416 4.8 33–48 >Bay-0
4-1 Stratification.Fresh.Gmax 329/415 MSAT435 14.6 24.2/7.55 16–26 >Sha Dormancy QTL; delay of germination, DOG18 (Bentsink et al., 2010)
Stratification.Fresh.t50 111 8.4 17–32 >Sha
Stratification.Fresh.U8416 9.9 17–32 >Sha
Stratification.Fresh.AUC 329/415 28.8 17–26 >Sha
Stratification.AR.t50 4.0 19–33 >Sha
Stratification.AR.t10 011 5.7 20–37 >Sha
AfterRipening.Gmax 329/011/415/111 20.4 16–26 >Sha
AfterRipening.t50 9.9 16–28 >Sha
AfterRipening.U8416 8.8 17–31 >Sha
AfterRipening.AUC 011/415/111 35.8 16–25 >Sha
ABA.WS.Gmax 011 5.4 12–34 >Bay-0
ABA.WS.AUC 011 4.0 16–37 >Bay-0
Cold.NS.Fresh.Gmax 7.4 12–30 >Bay-0
Cold.NS.Fresh.AUC 4.7 12–27 >Bay-0
Heat.NS.Fresh.Gmax 3.6 12–31 >Sha
Heat.WS.AR.Gmax 011/415 8.1 17–37 >Bay-0
Heat.WS.AR.AUC 011/415 9.2 17–34 >Bay-0
5-1 Stratification.AR.t50 MSAT514 4.0 26.6/7.50 21–37 >Bay-0
NaCl.NS.t50 8.8 19–29 >Bay-0
NaCl.NS.t10 214 11.3 21–30 >Bay-0
NaCl.WS.t50 361 9.9 20–30 >Bay-0
NaCl.WS.U8416 3.5 17.7–30 >Bay-0
NaCl.WS.t10 5.4 18–30 >Bay-0
CD.NS.AR.Gmax 4.7 20–39 >Bay-0
5-2 Stratification.Fresh.Gmax 152 MSAT59 4.6 57.8/17.25 48–68 >Sha Dormancy QTL; delay of germination, DOG1 (Bentsink et al., 2010)
Stratification.Fresh.AUC 152 6.0 48–67 >Sha
AfterRipening.AR.Gmax 152 7.7 51–67 >Sha
AfterRipening.AR.AUC 152 11.7 50–62 >Sha
NaCl.NS.t50 4.3 52–70 >Sha QTL for cold-dark germination in Bay-0 × Sha, CDG-6 (Meng et al., 2008)
Cold.NS.Fresh.U8416 1.3 47–61 >Bay-0
Heat.NS.AR.AUC 152 5.1 46–62 >Sha
Heat.WS.AR.AUC 4.8 53–70 >Sha
5-3 NaCl.NS.Gmax MSAT520037 10.1 67.4/20.04 61–72 >Sha QTL for germination on salt in Bay-0 × Sha, SALT SENSITIVITY RESPONSE2 (Vallejo et al., 2010)
NaCl.NS.t10 6.4 62–79 >Sha
NaCl.NS.AUC 11.6 58–71.6 >Sha
NaCl.WS.Gmax 410/152 18.0 63–71.6 >Sha
NaCl.WS.t50 410/152/103 19.6 64–72 >Sha QTL for germination on salt in Sha × Columbia (Galpaz and Reymond, 2010)
NaCl.WS.U8416 5.4 59–74 >Sha
NaCl.WS.t10 18.4 65–74 >Sha
NaCl.WS.AUC 23.2 64–73 >Sha
Mannitol.NS.Gmax 152 13.2 63–74 >Sha
Mannitol.NS.AUC 152 10.4 60–74 >Sha
Mannitol.WS.t50 152 4.0 63–77 >Sha
Mannitol.WS.AUC 152 3.5 62.3–79 >Sha
Heat.NS.Fresh.Gmax 4.8 55–73 >Sha
Heat.WS.AR.t50 152 8.0 63–74 >Sha
5-4 Stratification.Fresh.Gmax 152 MSAT519 3.9 85/25.92 80–91.2 >Sha Cloned mucilage-affecting locus, MUM2 (Macquet et al., 2007)
Stratification.Fresh.t50 10.4 79.1–91 >Sha
Stratification.Fresh.t10 16.3 79.1–88 >Sha
Stratification.Fresh.AUC 152 7.3 80–91.2 >Sha
AfterRipening.t50 14.8 79.1–90 >Sha
AfterRipening.t10 19.3 79.1–88 >Sha
AfterRipening.AUC 152 4.7 80–91.2 >Sha
Mannitol.NS.t50 9.6 80–91 >Sha
Mannitol.NS.U8416 5.1 80–91.2 >Sha
Mannitol.NS.t10 6.2 79.1–91 >Sha
ABA.NS.Gmax 103 9.9 79–89 >Bay-0
ABA.NS.t50 103 22.8 80–89 >Bay-0
ABA.NS.t10 9.7 80–90 >Bay-0
ABA.NS.AUC 103 12.0 73–91 >Bay-0
ABA.WS.Gmax 410/152/103 8.2 81–90 >Bay-0
ABA.WS.t50 103 19.5 79.1–88 >Bay-0
ABA.WS.U8416 103 11.9 76–88 >Bay-0
ABA.WS.AUC 410/152/103 22.3 80–88 >Bay-0
Heat.NS.AR.Gmax 152 11.0 80–90 >Sha
Heat.NS.AR.AUC 152 9.1 82–91 >Sha
Heat.WS.AR.U8416 103 13.3 80–91.2 >Sha
Size.imbibed.seed.Area 103 72.3 79.1–89 >Sha
a

As marked in Figure 6.

b

Lines indicated in Figure 7A (t test P < 0.1).