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Table 4 Results of the QTL mapping procedure for each phenology trait

From: Genetic architecture of spring and autumn phenology in Salix

QTL LG Markera P (cM)b SI (cM)c LOD αd PEVe
Bud burst in indoor conditions (BBI)
BBI.Ib Ib I_21om_sa (L29gr.164f) 150.9 9.5 7.86 0.001 gw 3.5
BBI.II.1 II♂-2 II_30_sa_pIII 16.9 23.5 4.54 0.005 cw 7.5
BBI.II.2 II♂-2 II_33_sa 42.1 17.5 4.22 0.007 cw excl
BBI.II.3 II♂-2 II_35_sa (L12b.203f) 80.6 12 6.20 0.006 gw 7.1
BBI.VII VII Ro4b 64.4 48.5 3.04 0.032 cw excl
BBI.IX IX IX_1_sa 56.6 10 3.60 0.010 cw 3.2
BBI.X.1 X X-4 83.7 41 3.55 0.015 cw excl
BBI.X.2 X X-21_sa (L3gr.227f) 140.2 19.2 3.36 0.023 cw 2.8
BBI.A A XVI-13_sa 17.0 35 3.95 0.001 cw 6.2
BBI total sum of explained variance 30.3
Bud burst in field conditions year 2009 (BBF09)
BBF09.Ib Ib XVI_12_om_sa_pI 99.5 13 6.65 0.001 gw 10.3
BBF09.II II♂-2 II_24_sa 59.9 74.5 2.78 0.038 cw 2.0
BBF09.IV IV IV_20_sa (L2gr.226f) 71.1 87.9 3.00 0.028 cw excl
BBF09.VI VI-1 VI_15_sa (L13y.371) 48.6 22.5 5.24 0.011 gw 3.7
BBF09.VII VII VII-3b 43.6 70.5 2.78 0.043 cw excl
BBF09.X X X_19_sa 116.7 32.5 4.19 0.003 cw 1.4
BBF09.XIV XIV♂ XIV_18_sa_pIII 85.9 17 5.89 0.003 gw 4.4
BBF09.XVIII XVIII XVIII_6_sa 14.6 18.5 3.25 0.018 cw 4.5
BBF09.A A XVI_13_sa 34.9 18.5 2.77 0.001 cw excl
BBF09.B B SB945 27.7 42.3 2.28 0.049 cw 1.3
BBF09 total sum of explained variance 27.6
Bud burst in field conditions year 2010 (BBF10)
BBF10.Ia Ia SB331 170.3 36.3 4.60 0.005 cw 1.9
BBF10.Ib.1 Ib I_51om_sa 107.2 28 3.78 0.022 cw excl
BBF10.Ib.2 Ib I-32_sa 215.5 71.5 3.63 0.026 cw 4.2
BBF10.II II♂-2 R_41_sa_pI 20.9 17 13.32 0.001 gw 14.1
BBF10.VI.1 VI-1 VI-3d 8.3 15.5 7.96 0.005 gw 7.3
BBF10.VI.2 VI-1 SB496 61.8 13 4.04 0.005 cw excl
BBF10.VII VII Ph18 52.2 28.5 4.78 0.002 cw 1.0
BBF10.VIII.1 VIII-2 VIII_3_sa 32.7 29.3 4.75 0.001 cw 5.6
BBF10.VIII.2 VIII-3 VIII_20_sa_pI 41.4 33 6.72 0.025 gw 3.4
BBF10.IX.1 IX IX_5_sa 36.9 47.5 3.79 0.008 cw 2.1
BBF10.IX.2 IX R_60_sa_pI 78.2 23.9 3.73 0.011 cw 3.5
BBF10.X X Ph2 45.9 25 4.92 0.002 cw 3.2
BBF10.XIV XIV♂ XIV-4_sa 82.3 19 3.38 0.019 cw excl
BBF10.XVII XVII II_37_sa_pI 123.8 23.5 3.19 0.041 cw excl
BBF10.XVIII XVIII XVIII_6_sa 14.6 28 4.34 0.002 cw 3.0
BBF10.A A XVI-13_sa 35.0 22 3.05 0.001 cw 3.9
BBF10 total sum of explained variance 53.2
Growth Cessation in indoor conditions (GCI)
GCI.Ib Ib XVII_8om_sa 182.8 34 3.93 0.015 cw 5.4
GCI.II II♂-2 II_35_sa 84.8 14 4.70 0.006 cw 4.6
GCI.V V♂ V-5_sa 52.8 24 5.22 0.028 gw 11.5
GCI total sum of explained variance 21.5
Growth cessation in field conditions year 2008 (GCF08)
GCF08.Ia Ia R_29_sa 42.0 37.5 3.38 0.043 cw 2.3
GCF08.Ib Ib XVI_18_sa 80.1 12.5 7.28 0.001 cw 6.1
GCF08.II II♂-2 II_35_sa 84.8 8 10.54 0.002 gw 16.7
GCF08.III III III_8om_sa 24.8 36 2.91 0.045 cw 1.7
GCF08.V V♂ V-5_sa 52.8 16 5.93 0.001 cw 5.5
GCF08.X X X-4 90.4 5.5 16.31 0.001 gw 2.3
GCF08.XIV XIV♂ XIV-4_sa 82.3 14 4.42 0.005 cw 2.8
GCF08.XVIII XVIII XVII_9om_sa_pI 43.9 47 2.83 0.043 cw 3.5
GCF08 total sum of explained variance 40.9
Growth cessation in field conditions year 2009 (GCF09)
GCF09.Ib Ib XVI_18_sa 80.2 14.5 4.75 0.004 cw 4.9
GCF09.II.1 II♂-1 II-Ib_pI 11.0 26 4.02 0.001 cw 7.0
GCF09.II.2 II♂-2 II_33_sa 43.1 17 4.82 0.004 cw 2.4
GCF09.II.3 II♂-2 II_35_sa 84.8 13 6.15 0.001 cw 6.2
GCF09.III III III-4_sa 23.8 29 2.95 0.047 cw 3.2
GCF09.V V♂ V_5_sa 52.8 55 3.15 0.032 cw 1.2
GCF09.IX IX IX_8_sa 75.2 22.9 3.82 0.007 cw 4.2
GCF09.X X X-4 91.4 5.5 8.55 0.002 gw 10.7
GCF09.XIV XIV♂ XIV-4_sa 82.3 7.5 5.50 0.001 cw 1.4
GCF09.XVIII XVIII XVIII_8_sa 39.7 51.5 2.88 0.042 cw 2.1
GCF09.Ib × GCF09.XVIII       5.8
GCF total sum of explained variance 49.1
Leaf senescence in field conditions year 2009 (LSF09)
LSF09.Ib Ib SB265 219.5 23 4.34 0.007 cw 1.6
LSF09.II II♂-2 II_35_sa 84.8 4 32.11 0.001 gw 34.2
LSF09.III III III-14_sa 87.1 36 3.57 0.018 cw excl
LSF09.IV IV Ro11 21.6 38 3.0 0.030 cw excl
LSF09.VI.1 VI-1 VI-3d 4.3 10.5 3.32 0.023 cw 1.2
LSF09.VI.2 VI-2 Sa_con27_PopI 8.4 10.5 8.11 0.001 gw 3.7
LSF09.VII VII VII_1_sa 1.0 6 6.18 0.001 gw 4.3
LSF09.VIII.1 VIII-2 VIII_3_sa 27.7 23 3.30 0.005 cw 1.6
LSF09.VIII.2 VIII-3 VIII_5_sa 4.0 15.5 7.55 0.001 gw 5.6
LSF09.X X X-4 88.4 6.5 20.49 0.001 gw 2.2
LSF09.XI XI R_52_sa 4.5 91 3.14 0.021 cw 1.1
LSF09.XIV XIV ♀ XIV-12_sa 30.0 34.7 2.47 0.030 cw 1.0
LSF09 total sum of explained variance 56.5
Leaf senescence in field conditions year 2010 (LSF 2010)
LSF10.II II♂-2 II-12_sa 89.6 5.5 16.89 0.001gw 19.3
LSF10.III III III-18_sa 118.6 15.5 6.35 0.003 gw 6.0
LSF10.IV IV Ph30 95.3 30.9 2.88 0.034 cw 2.3
LSF10.V V♂ V_10_sa 59.4 28.5 3.64 0.005 cw 5.0
LSF10.VI VI-1 VI-3d 4.3 12.5 2.94 0.049 cw 1.8
LSF10.VII VII VII_1_sa 1.0 26 2.73 0.047 cw 1.4
LSF10.VIII VIII-3 VIII_5_sa 4.0 45.5 2.91 0.002 cw 1.8
LSF10.X X X-4 88.4 8.5 10.49 0.001 gw 1.8
LSF10.XII XII XII-4d 63.7 45.5 3.22 0.016 cw 1.2
LSF10.XIV.1 XIV♀ XIV-9_sa 22.8 20 6.73 0.001 gw 3.2
LSF10.XIV.2 XIV♂ XIV-14_sa 135.8 45.3 4.60 0.030 gw excl
LSF10.B B VI_22_sa 12.0 41.5 4.51 0.037 gw excl
LSF10 total sum of explained variance 43.8
  1. aThe closest SNP marker to the QTL peak position, also used in multiple QTL mapping, and in mixed model and variance components analyses. When the closest marker to peak position was not a SNP, the AFLP marker is reported in brackets. bQTL position on the S1 linkage map [35]. cHeuristic support interval determined as a 1.5-unit drop off on either side of the local LOD score peak. dProbability for the null hypothesis of no QTL obtained after 5,000 permutations. ePercentage of variance explained by the QTL or by the QTL × QTL interaction estimated by variance components analysis. gw Genome-wide, significant QTL. cw Chromosome-wide, suggestive QTL. excl QTL excluded from the complete model following a backward selection procedure at a test level of 0.05 (see Methods for details).