Figure S1. Rust disease responses of parents of the mapping populations, ICSV745 (a), R890562- 1-2...
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Transcript of Figure S1. Rust disease responses of parents of the mapping populations, ICSV745 (a), R890562- 1-2...
Figure S1. Rust disease responses of parents of the mapping populations, ICSV745 (a), R890562-1-2 (b), IS8525 (c), R931945-2-2 (d) and S. bicolor subsp. verticilliflorum (e). The number in each figure indicated the predicated mean values of rust infection score. S. bicolor subsp. verticilliflorum could not be grown in the field due to its weedy nature, hence its disease score was not provided.
Two distinct classes of QTL determine rust resistance in sorghum
Additional File 23.50 8.00
7.75 4.00
0.0 0.2 0.4 0.6 0.8 1.0
-0.4
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0.0
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0.4
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rust loading
En
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en
t lo
ad
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DalBox.R986087-2-4-1
DalBox.R993396
DalBox.R995248
LivPl1.R986087-2-4-1
LivPl1.R993396
LivPl1.R995248
Sitemale Relationships for 2012 aytfemale rust
Da
lBo
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Da
lBo
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-2-4
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Liv
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.R9
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7-2
-4-1
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lBo
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Pl1
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Liv
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.R9
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Cluster Dendrogram
hclust (*, "complete")dist(correls)
He
igh
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Figure S2. Site relationships in AYT trials across 3 male tester genotypes. Second order factor analytic site by male loadings are represented using A: segment plot of the 2 sets of loadings; B: Dendrogram
A
B
Figure S3. Localisation of QTL for rust resistance, day to flower (DTF) and height (HGT) identified in the S2 population. Length of each chromosome (in cM) is indicated by the left-most ruler. QTL are represented by bars (1-LOD interval) and extended lines (2-LOD interval), and colour-coded per trait as indicated. QTL names and significance levels are detailed where * indicates suggestive QTL (LOD≥2); ** indicates significant QTL (LOD≥3); *** indicates highly significant QTL (LOD≥5). Graphs to the right of each LG represent the LOD value, colour-coded per trait as previously.
QR
ustR_S
2_2.1*
0 1 2
SBI-02
QD
TF
_S2_3.1*
QH
GT
_S2_3.1*
QD
TF
_S2_3.2*
0 1 2 3
SBI-03
QD
TF
_S2_4.1*
0 1 2
SBI-04
QR
ustR_S
2_5.1***
QD
TF
_S2_5.1*
0 1 2 3 4 5
SBI-05Q
RustR
_S2_6.1*
QH
GT
_S2_6.1*
0 1 2 3
SBI-06-I
0102030405060708090100110120130140150160170180190200210220230240
QH
GT
_S2_7.1*
0.0
0.5
1.0
1.5
2.0
SBI-07
QR
ustR_S
2_8.1*
0 1 2 3
QR
ustR_S
2_8.2***
0 1 2 3 4 5 6
SBI-08
QH
GT
_S2_9.1**
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SBI-09
QD
TF
_S2_10.1*
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2.0
SBI-10
rust_LOD
DTF_LOD
HGT_LOD
0102030405060708090100110120130140150160170180190200210220230240
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1.0
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SBI-07
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0 1 2 3 4 5 6
SBI-08
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SBI-10
rust_LOD
DTF_LOD
HGT_LOD
0102030405060708090100110120130140150160170180190200210220230240
QD
TF
_S
4_1
.1*
QH
GT
_S
4_1
.1*
QR
ustR
_S
4_1
.1*
QR
ustR
_S
4_1
.2***
0
2
4
6
SBI-01
QR
ustR
_S
4_2
.1*
QR
ustR
_S
4_2
.2*
QD
TF
_S
4_2
.1*
0.0
0.5
1.0
1.5
2.0
SBI-02
QR
ustR
_S
4_3
.1**
QD
TF
_S
4_3
.1*
0
1
2
3
4
SBI-03
QR
ustR
_S
4_4
.1**
QR
ustR
_S
4_4
.2*
QH
GT
_S
4_4
.1*
0
1
2
3
4
SBI-04
QH
GT
_S
4_5
.1*
0
1
2
3
SBI-05
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QD
TF
_S
4_6
.1***
QH
GT
_S
4_6
.1***
0
2
4
6
8
SBI-06
QH
GT
_S
4_7
.1***
0
2
4
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SBI-07
QR
ustR
_S
4_9
.1*
QH
GT
_S
4_9
.1***
0
2
4
6
8
SBI-09
QD
TF
_S
4_1
0.1***
QR
ustR
_S
4_1
0.1
**
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1
2
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SBI-10
rust_LOD
DTF_LOD
HGT_LOD
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SBI-07
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SBI-09
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SBI-10
rust_LOD
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Figure S4. Localisation of QTL for rust resistance, day to flower (DTF) and height (HGT) identified in the S4 population. Length of each chromosome (in cM) is indicated by the left-most ruler. QTL are represented by bars (1-LOD interval) and extended lines (2-LOD interval), and colour-coded per trait as indicated. QTL names and significance levels are detailed where * indicates suggestive QTL (LOD≥2); ** indicates significant QTL (LOD≥3.4); *** indicates highly significant QTL (LOD≥5). Graphs to the right of each LG represent the LOD value, colour-coded per trait as previously.
QD
TF
_S7_1.1
QD
TF
_S7_1.2
SBI-01
QD
TF
_S7_2.1
SBI-02
QD
TF
_S7_3.1
QD
TF
_S7_3.2
QH
GT
_S7_3.1
SBI-03
QH
GT
_S7_4.1
QR
ustR_S
7_4.1
SBI-04
QR
ustR_S
7_5.1
SBI-05
QD
TF
_S7_6.1
QH
GT
_S7_6.1
QD
TF
_S7_6.2
QH
GT
_S7_6.2
SBI-06
QD
TF
_S7_7.1
SBI-07Q
DT
F_S
7_8.1Q
RustR
_S7_8.1
QD
TF
_S7_8.2
QD
TF
_S7_8.4
QD
TF
_S7_8.3
SBI-08
QD
TF
_S7_9.1
QD
TF
_S7_9.2
QH
GT
_S7_9.1
SBI-09
QD
TF
_S7_10.1
QD
TF
_S7_10.2
QD
TF
_S7_10.3
QD
TF
_S7_10.4
QH
GT
_S7_10.1
QR
ustR_S
7_10.1
SBI-10
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Figure S5. Localisation of QTL for rust resistance, day to flower (DTF) and height (HGT) identified in the S7 population. Length of each chromosome (in cM) is indicated by the left-most ruler. QTL are represented by bars and colour-coded per trait as indicated. A minimum CI of 3cM has been used for visualisation purposes.
Figure S6. QTL for days to flower (DTF) from the current study projected onto the sorghum consensus map and comparison with DTF QTL identified in previous studies.
The length of each chromosome (in cM) is indicated by the left-most ruler. QTL colour-coded as follows: red/unfilled: S2 ; black/solid: S4; red/solid: S7; green brown/solid: AYT; black/unfilled: Brown et al. 2006; black/hashed: Chantereau et al. 2001; red/hashed: Alam 2013; dark green/unfilled: Crasta et al. 1999; dark green/hashed: Felderhoff et al. 2012; dark green/hashed: Feltus et al. 2006; dark blue/unfilled: Hart et al. 2001; dark blue/hashed: Kim 2003; dark blue/solid: Kebede et al. 2001; pink/unfilled: Lin et al. 1995; pink/hashed: Parh 2005; pink/solid: Upadhyaya et al. 2013; green/unfilled: Zou et al. 2012; green/hashed: Ritter et al. 2008; green/solid: Mace, Hunt & Jordan 2013; brown/unfilled: Srinivas et al. 2009; brown/hashed: Takai et al. 2012; brown/solid: Upadhyaya et al 2012; blue/hashed: Shiringani et al. 2010; blue/hashed: Mannai et al. 2011. Additionally, the map locations of the 4 targeted major effect genes of maturity and stem height are included in italics; the degree of confidence of the location is indicated by the suffix; *** equates to greater than a 10
cM location range (Mace and Jordan 2010).
Ma3***
QD
TF
_NA
M_1_10
QD
TF
_S7_1.1
QD
TF
L14_1Q
DT
FL17_1
QD
TF
L1_1Q
DT
FL4_1
QD
TF
L6_1Q
DT
F_S
7_1.2
QD
TF
_S4_1.1
QD
TF
_NA
M_1_112
QF
l_HR
S09_S
2_1_1
QD
TF
L10_1Q
DT
FL11_1
QD
TF
L18_1
QP
PS
1_1Q
DT
FL16_1
QD
TF
_NA
M_1_182
QP
PS
2_1Q
DT
FL15_1
QD
TF
_AY
T_1.1
QD
TF
L2_1Q
DT
FL7_1
QD
TF
L13_1Q
DT
FL8_1
QD
TF
_NA
M_1_53
QD
TF
L12_1
QD
TF
_NA
M_1_66
QD
TF
L9_1
QD
TF
L5_1
QD
TF
L3_1
SBI-01
Ma5***
QD
TF
_NA
M_2_23
QD
TF
L4_2Q
DV
S1_2
QD
TF
_S7_2.1
QD
VS
2_2
QD
TF
_NA
M_2_123
QD
VS
3_2
QD
TF
_AY
T_2.1
QD
TF
_AY
T_2.2
QD
TF
L8_2Q
DT
FL9_2
QD
TF
L7_2
QF
l_HR
S09_S
2_2_1Q
DT
F_N
AM
_2_147
QD
TF
L2_2Q
DT
FL10_2
QD
TF
L3_2Q
DT
F_S
4_2.1
QD
TF
L5_2
QD
TF
L6_2
QD
TF
L11_2
SBI-02
QD
TF
_NA
M_3_21
QD
TF
L4_3
QD
TF
_NA
M_3_34
QD
TF
_NA
M_3_133
QD
TF
_NA
M_3_47
QD
TF
_S2_3.2
QD
TF
L1_3Q
DT
F_N
AM
_3_57Q
DT
F_S
4_3.1
QD
TF
L2_3Q
DT
F_N
AM
_3_68Q
DT
F_S
7_3.2
QD
TF
_S2_3.1
QD
TF
L3_3Q
DT
FL5_3
QD
TF
_S7_3.1
QD
TF
L6_3Q
DT
F_A
YT
_3.1
SBI-03
QD
TF
L6_4Q
DT
FL9_4
QD
TF
L5_4
QD
TF
L7_4Q
DT
F_N
AM
_4_87
QD
TF
L8_4Q
DT
F_N
AM
_4_98
QD
TF
_NA
M_4_15
QD
TF
L2_4Q
DT
FL4_4
QD
TF
_NA
M_4_43
QD
TF
_AY
T_4.1
QD
TF
_NA
M_4_58
QD
TF
_NA
M_4_74
QD
TF
_S2_4.1
QD
TF
L3_4
QD
TF
L1_4
SBI-04
0
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80
100
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140
160
180
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220
QF
l_HR
S10_S
2_5_1
QF
l_HR
S09_S
2_5_1
QD
TF
_NA
M_5_10
QD
TF
_NA
M_5_67
QD
TF
_NA
M_5_27
QD
TF
L2_5
QD
TF
_NA
M_5_4
QD
TF
L1_5
QD
TF
_S2_5.1
SBI-05
Ma1***
QF
l_HR
S10_S
4_6_1Q
DT
FL8_6
QD
TF
_S7_6.2
QD
TF
_NA
M_6_10
QD
TF
L5_6Q
DT
FL14_6
QD
TF
L11_6Q
DT
FL10_6
QD
TF
L7_6
QF
l_HR
S10_S
4_6_2Q
DT
FL6_6
QD
TF
L4_6
QD
TF
L9_6
QD
TF
L3_6
QD
TF
L1_6
QF
l_HR
S09_S
4_6_1
QF
l_HR
S09_S
4_6_2
QF
l_HR
S09_S
4_6_3
QD
TF
_NA
M_6_23
QD
TF
_NA
M_6_83
QD
TF
_NA
M_6_32
QD
TF
_NA
M_6_43
QD
TF
_S4_6.1
QD
TF
L12_6Q
DT
FL16_6
QD
TF
_S7_6.1
QD
TF
L15_6Q
DT
FL13_6
QD
TF
L2_6
QD
TF
L8_6
QD
TF
L9_6
SBI-06
QD
TF
_NA
M_7_5
QD
TF
_NA
M_7_73
QF
l_HR
S09_S
5_7_1
QD
TF
_NA
M_7_59
QD
TF
_S7_7.1
QD
TF
L3_7
QD
TF
L1_7
QD
TF
L2_7
QD
TF
L4_7
SBI-07
QD
TF
_NA
M_8_30
QD
TF
_NA
M_8_115
QD
TF
_S7_8.1
QD
TF
_NA
M_8_66
QD
TF
_S7_8.3
QD
TF
L5_8
QD
TF
_S7_8.2
QD
TF
_S7_8.4
QD
TF
_AY
T_8.1
QD
TF
L4_8
QF
l_HR
S10_S
5_8_1
QD
TF
L3_8
QD
TF
L1_8
QD
TF
L2_8
SBI-08
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QD
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L2_9Q
DT
FL4_9
QD
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L1_9Q
DT
F_S
7_9.2Q
DT
FL6_9
QD
TF
_NA
M_9_25
QD
TF
L7_9
QD
TF
_S7_9.1
QD
TF
_NA
M_9_75
QD
TF
_AY
T_9.1
QD
TF
L8_9
QD
TF
_AY
T_9.2
QD
TF
L5_9
QD
TF
_AY
T_9.3
QD
TF
_NA
M_9_136
SBI-09
Ma4***
QD
VS
1_10Q
DT
FL5_10
QD
VS
2_10Q
DT
FL6_10
QP
PS
1_10Q
DT
F_S
7_10.4
QP
PS
2_10Q
DT
FL11_10
QP
PS
3_10
QD
TF
_AY
T_10.1
QD
TF
L3_10
QD
TF
L7_10
QF
l_HR
S10_S
5_10_1
QF
l_DB
10_S5_10_1
QF
l_HR
S10_S
5_10_2
QF
l_HR
S09_S
5_10_1
QF
l_HR
S09_S
4_10_1
QF
l_HR
S09_S
5_10_2
QD
TF
_NA
M_10_44
QD
TF
_NA
M_10_61
QD
TF
L1_10
QD
TF
L4_10
QD
TF
L2_10
QD
TF
_S2_10.1
QD
TF
_S4_10.1
QD
TF
_S7_10.1
QD
TF
_S7_10.2
QD
TF
_S7_10.3
QD
TF
L9_10
QD
TF
L8_10
QD
TF
L10_10
SBI-10
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60
80
100
120
140
160
180
200
220
Figure S7. QTL for height (HGT) from the current study projected onto the sorghum consensus map and comparison with HGT QTL identified in previous studies.
The left-most rule indicates the length of each chromosome in cM. QTL colour-coded as follows: red/unfilled: S2 ; black/solid: S4; red/solid: S7; green brown/solid: AYT; black/unfilled: Brown et al. 2006; black/hashed: Murray et al. 2008a; red/hashed: Alam 2013; dark green/unfilled: Pereira et al. 1995; dark green/hashed: Felderhoff et al. 2012; dark green/solid: Feltus et al. 2006; dark blue/unfilled: Hart et al. 2001; dark blue/hashed: Pereira and Lee 1995; dark blue/solid: Kebede et al. 2001; pink/unfilled: Lin et al. 1995; pink/hashed: Parh 2005; pink/solid: Upadhyaya et al 2013; green/unfilled: Zou et al. 2012; green/hashed: Ritter et al. 2008; green/solid: Klein et al. 2001; brown/unfilled: Srinivas et al. 2009; brown/hashed: Takai et al. 2012; brown/solid: Upadhyaya et al 2012; blue/unfilled: Brown et al. 2008; blue/hashed: Shiringani et al. 2010; blue/solid: Rami et al. 1998; green brown/unfilled: Guan et al. 2011.Additionally, the map locations of the 3 targeted major effect genes of maturity and stem height are included in italics; the degree of confidence of the location is indicated by the suffix; no asterisk equates to a precise location and * equates to less than a 5 cM location range. (Mace and Jordan 2010).
QP
AN
LG1_8
QH
GT
1_8
SBI-08
Dw1*
QH
GT
1_9Q
PF
gLfHG
T1_9
QP
AN
LG1_9
QH
GT
6_9
QC
L1_9Q
HG
T2_9
QH
GT
7_9
QH
GT
_AY
T_9.1
QH
GT
8_9
QH
GT
9_9
QH
GT
10_9
QH
GT
11_9
QH
GT
12_9
QH
GT
13_9
QH
GT
14_9
QH
GT
U1_9
QC
L2_9
QH
GT
5_9
QC
L3_9
QH
GT
_HR
S09_S
2_9_1
QH
GT
_HR
S10_S
2_9_1
QH
GT
4_9
QH
GT
_S2_9.1
QH
GT
_S4_9.1
QH
GT
_S7_9.1
QH
GT
3_9
QC
L4_9
QC
L5_9
QC
L6_9
QH
GT
15_9
SBI-09
QH
GT
U1_10
QC
L1_10
QC
L2_10
QH
GT
_HR
S09_S
5_10_1
QH
GT
_HR
S10_S
5_10_1
QH
GT
_HR
S10_S
5_10_2
QP
ED
LG1_10
QH
GT
1_10
QP
AN
LG1_10
QP
AN
LG2_10
QH
GT
_S7_10.1
QH
GT
2_10
QH
GT
3_10Q
HG
T4_10
SBI-10
0
20
40
60
80
100
120
140
160
180
200
220
dw2*
QC
L4_6Q
HG
T1_6
QH
GT
3_6Q
HG
T7_6
QC
W1_6
QH
GT
10_6Q
HG
T4_6
QP
AN
LG6_6
QH
GT
11_6Q
HG
T5_6
QC
L1_6Q
PA
NLG
5_6
QH
GT
U1_6
QP
AN
LG4_6
QH
GT
6_6
QC
L3_6Q
HG
T_S
7_6.2Q
HG
T9_6
QC
L2_6Q
HG
T_S
7_6.1Q
HG
T8_6
QH
GT
_HR
S09_S
4_6_1Q
HG
T14_6
QP
AN
LG2_6
QH
GT
2_6
QH
GT
_S2_6.1
QP
AN
LG3_6
QP
AN
LG7_6
QH
GT
_S4_6.1
QP
AN
LG1_6
QP
AN
LG8_6
QC
L5_6
QC
W2_6
QC
W3_6
QH
GT
13_6
QH
GT
12_6
QH
GT
12_6
SBI-06
dw3
QH
GT
_HR
S10_S
4_7_1Q
FgLfH
GT
1_7Q
CL4_7
QH
GT
_S2_7.1
QH
GT
9_7
QH
GT
1_7Q
CL2_7
QH
GT
13_7
QP
AN
LG1_7
QC
L3_7
QC
L6_7 QP
AN
LG4_7
QP
ED
LG1_7
QC
L1_7Q
HG
T12_7
QH
GT
14_7
QH
GT
_HR
S10_S
4_7_2
QH
GT
7_7
QH
GT
5_7Q
FgLfH
GT
2_7
QH
GT
3_7Q
HG
T10_7
QH
GT
4_7 QP
AN
LG3_7
QH
GT
_S4_7.1
QH
GT
2_7Q
HG
T16_7
QH
GT
6_7
QH
GT
8_7
QP
AN
LG2_7
QC
L5_7
QH
GT
15_7
QC
L7_7
QP
AN
LG5_7
QP
AN
LG6_7
QP
AN
LG7_7
QH
GT
U1_7
SBI-07
0
20
40
60
80
100
120
140
160
180
200
220
QH
GT
1_1Q
HG
T7_1
QC
L3_1Q
CL4_1
QC
L1_1Q
PE
DLG
2_1Q
HG
T5_1
QP
ED
LG1_1
QC
L2_1Q
FgLfH
GT
1_1
QK
FL1_1
QP
AN
LG1_1
QP
AN
LG3_1
QH
GT
8_1Q
HG
T2_1
QH
GT
4_1Q
HG
T6_1
QP
AN
LG4_1
QH
GT
3_1Q
PE
DLG
3_1
QP
AN
LG2_1
QC
W1_1
QH
GT
_S4_1.1
QC
W3_1
QC
W2_1
QP
AN
LG5_1
QP
AN
LG6_1
QP
AN
LG7_1
SBI-01
QP
AN
LG1_2
QH
GT
2_2
QP
AN
LG2_2
QP
AN
LG4_2
QH
GT
1_2
QP
AN
LG3_2
SBI-02
QH
GT
1_3Q
HG
T2_3
QC
L3_3
QC
L1_3Q
HG
T3_3
QH
GT
_HR
S09_S
2_3_1
QC
L2_3Q
HG
T_H
RS
10_S2_3_1
QH
GT
4_3Q
PA
NLG
2_3
QP
ED
LG1_3
QP
AN
LG1_3
QH
GT
_S2_3.1
QH
GT
_S7_3.1
SBI-03
QH
GT
4_4
QH
GT
5_4
QH
GT
_HR
S09_S
5_4_1Q
HG
T1_4
QH
GT
3_4
QH
GT
_HR
S10_S
5_4_1Q
HG
T2_4
QP
ED
LG1_4
QH
GT
_HR
S09_S
2_4_1
QH
GT
_HR
S09_S
4_4_1
QH
GT
_HR
S10_S
4_4_1
QH
GT
_S4_4.1
QH
GT
_S7_4.1
SBI-04
QH
GT
_HR
S09_S
4_5_1
QH
GT
_HR
S09_S
4_5_2
QH
GT
_S4_5.1
QH
GT
1_5
SBI-05
0
20
40
60
80
100
120
140
160
180
200
220
Zm
_L
ub
b_
5.0
1Z
m_
Lu
bb
_1
.08
-10
Zm
_L
ub
b_
1.0
5-0
6Z
m_
Lu
bb
_1
.03
Zm
_K
ern
s_9
.07
Zm
_K
ern
s_1
.08
Zm
_K
ern
s_1
.02
Zm
_B
row
n_
5.0
2Z
m_
Bro
wn
_1
.03
SBI-01
Zm
_L
ub
b_
7.0
1-0
2Z
m_
Ke
rns_
7.0
2Z
m_
Lu
bb
_7
.04
Zm
_K
ern
s_7
.04
SBI-02
Zm
_B
row
n_
3.0
4Z
m_
Ke
rns_
3.0
5
Zm
_L
ub
b_
3.0
4Z
m_
Bro
wn
_3
.06
rp3
Zm
_K
ern
s_8
.01
Zm
_B
row
n_
18
.06
Zm
_B
row
n_
8.0
1
Zm
_K
ern
s_8
.05
SBI-03
Zm
_L
ub
b_
5.0
4-0
5Z
m_
Ke
rns_
5.0
5Z
m_
Bro
wn
_4
.05
SBI-04
rp5
Zm
_K
ern
s_4
.10
rp4
rp1
Zm
_L
ub
b_
4.0
3-0
4
Zm
_B
row
n_
4.0
3
Zm
_L
ub
b_
4.0
8
SBI-05
Zm
_B
row
n_
2.1
0Z
m_
Bro
wn
_2
.05
Zm
_B
row
n_
2.0
4
Zm
_L
ub
b_
2.0
9Z
m_
Lu
bb
_2
.05
-06
Zm
_L
ub
b_
2.0
8
SBI-06
Zm
_L
ub
b_
6.0
4Z
m_
Lu
bb
_4
.08
Zm
_L
ub
b_
6.0
7
rp8
SBI-07
rp5
Zm
_L
ub
b_
10
.05
-06
rp1
Zm
_L
ub
b_
3.0
7
SBI-08Z
m_
Lu
bb
_6
.07
Zm
_L
ub
b_
8.0
2-0
5
rp8
Zm
_K
ern
s_6
.06
SBI-09
Zm
_L
ub
b_
9.0
6-0
7
Zm
_K
ern
s_9
.04
SBI-10
0
5
10
15
20
25
30
35
40
45
50
55
60
65
70
75
80
85
90
95
100
105
110
115
120
125
130
135
140
145
150
155
160
165
170
175
180
185
190
195
200
205
210
215
220
Figure S8. Maize rust resistance QTL projected on to the sorghum genetic linkage consensus map, in comparison to sorghum rust resistance QTL.The location and density of the rust resistance QTL from sorghum are indicated by the heat maps (number of QTL/1cM). The maize rust resistance QTL are indicated as bars to the right of each chromosome (based on the projection of the mid-point of the QTL, with 4cM CI for visualisation purposes) and colour-coded as follows; black: Wisser et al 2008; red: Brown et al 2001; dark green: Kerns et al 1999; dark blue: Lubberstedt et al 1998.
G104 G105G106G36G35
G34
G103G102G33G101
G1G2G3G4G5G6G9G7G79G8G10G11G12G13G14G18G17G16G15G80G81G19G82 G84
Zm
_Brow
n_3.04
Zm
_Lubb_3.04
Zm
_Kerns_3.1
Zm-chr3
G1
G2
G3
G4
G5
G6
G37
G7
G79
G8G38G39G40
G9
G10G11G12G13
G14
G41G15G16
G17G18
G42
G43
G80
G81
G44
G45
G46
G19
G82G83
G84
G20G21G47G48G49G50G85
G86
G87
G51G52
G88
G89G22
G23
G24
G53
G54G55
Rp1-D
G25
G56G90G26G27G28
G57G91G29G58
G59G30G92
G93G60
G61
G94G95
G96
G31G97G62
G63G64G65G98
G99
G32G100G66G67
G68
G69
G70G71
G72
G73
G74
G75
G101G33G76
G102G103
G77G34
G78
G35
G36
G104G105
G106
QR
ustR_A
YT
_8.1
QR
ustR_S
2_8.1
QR
US
TR
1_8
SBI-08
G37
G79G38 G39G40
G41
G42
G43
G80G81G44G45
G46
G83
G82 G84
G47
G48G49G50G85 G86G87
G51G52
G88
G89
G53 G54G55
Rp1-D
G56G90
G57G91G58
G92 G93G92 G93
G59
G61G60
G94 G95G94 G95G96
G97G62
G63
G64
G98G65
G99
G100G66G67
G68 G69
G100G70
G71
G72
G73
G74
G75G101G76
G102
G103
G78
G77
G104 G105G106
rp1
rp5
Zm-chr10
Zm chr 3 SBI-08 Zm chr 10
Figure S9. Syntenic regions around major rust resistance gene Rp1-D between maize and sorghum. Rp1-D gene indicated as red horizontal line. Homologous genes are detailed. Rust QTL are detailed to the right of each chromosome and colour coded as follows: Sorghum QTL: green: AYT, dark blue: S2, red: Tao et al 1998; Maize QTL: pink: Brown et al 2001, bright green: Lubberstedt et al 1998; brown: Kerns et al 1999; bright blue: Wisser et al 2008.
191Mb-229Mb 0Mb-5Mb 0.6Mb-9Mb
Rp1-D
Zm chr 5 SBI-01 Zm chr 117Mb-32Mb 13Mb-24Mb 221Mb-256Mb
G13
G247G8 G9G246G245G5
G1
G248G407
G408 G409G249
G250G29
G30
G251
G354G34 G35
G252G253
G255G256
G43G257
G54G258
G381 G387 G388
G259G260
G261G381 G382 G383 G384 G385
G266G267
G74G268
G270G79
G77
G356 G357G355 G356 G357
G75
G271
G87
G88
G358 G359 G360 G361G358
G94 G102 G103 G104
G105G106
G273
G120
G121
G276G125
G277 G278
G279
G280
Zm
_Lubb_5.01
Zm chr5
G1G2G243
G5
G6G8G9G10G247G11G12G13G14G19G20G21G22G248G407G408G409G410G411G415G416G417G418G419G420G249G23G24G25G421G422G27G28G29G30G251G31G32G33G35G36G252G37G253G38G39G254G255G256GG42G43G44G45G46G47G257G51G52G53G54G381G258G55G259G260G56G57G58G59G261G60G382G383G384G385G386G387G388G64G65G66G67G262G263G68G264G265G72G266G267G73G74G268G75G76G355G356G357G269G82G83G84G85G86G271G87G88G389G390G391G392G89G90G93G94G95G96G97
G98G99G100G272G101G102G103G104G105G106G107
G108
G109
Lr34
G111G112G113G114G273G115G116G117G118G119G274
G124G276G125G277G278G279G280G126G127G128G281G129G130G282G134G284G135G136G137G285G286G138G139G140G141G146G147G148G149G150G151G152G287G288G153
G154G289G155G290G156
G298G157G299G158G300G159G301G160G161G302G162G163G164G303G362
G309G310G311G167G363G364G365G366G367G368G312G369
G168
G313G314G315G169G316G170
G371G173G174G175G319G320G321
G176G323G177G178G179G324G180
G184G327G185
G372G186G328G329G330
G187G188
G189
G190
G191
G331G195G196G197G332G333G334
G335
G198
G199
G200
G204G205G337G338G339
G374G375G376G206G207
G208G340
G379G380G214G215G216G217G218G219G220G342G221G222G393G394G395
G223
G229G230G231G344G232G345G346G396G397G398G399G400
G401
G234
G235G236G348G237G238
G239G349G350
G240G351
G241G352G353G242
QR
ustR_A
YT
_1.3Q
RustR
_S4_1.1
SBI-01
G107
G280
G158G300G159G160G302G162G163G362
G168G316G170
G179G324
G372 G373G328
G332G198G199G336G201G202G203G205
G225G226G227G343G228G230G231G344G232G406G348G237G349 G350G351G241G352G353G242
G101
G73G267G266G72G265G264G71G70G69G68G263G262G67G62G388G65G64G258G48 G53
G2G3G6G7G245G246G10G247G11G19G20G21 G22G407G407G409 G410G251G31G32G37G253G38G39G254G254G255G256
Zm
_Kerns_1.1
Zm
_Lubb_1.05-06
Zm
_Kerns_1.2
Zm chr1
Figure S10. Syntenic regions around the rust resistance gene Lr34 between maize and sorghum. Lr34 gene indicated as red horizontal line. Homologous genes are detailed. Rust QTL are detailed to the right of each chromosome and colour coded as follows: Sorghum QTL: green: AYT, red: S4; Maize QTL: pink: Brown et al 2001, brown: Lubberstedt et al 1998; bright blue: Kerns et al 1999
Lr34
Q3E
Figure S11. Sequence alignment of Lr34 (Sb01g016775), underlying a QTL for rust resistance in the S4 and AYT populations, for the parental genotypes: R931945-2-2 and IS8525 (S4), with missense mutation highlighted.
Figure S12. Linkage Disequilibrium (LD) decay comparisons between the S7 and AYT populations. LD decay plots for the S7 population are detailed in the left-hand column; LD decays plots for the AYT population are detailed in the right-hand column. The red curve corresponds to the 95th percentile of r2 estimates between markers.
Genetic distance (cM) Genetic distance (cM)
SBI-01 SBI-01
SBI-02 SBI-02
SBI-03 SBI-03
SBI-05 SBI-05
SBI-04 SBI-04
Figure S12. Linkage Disequilibrium (LD) decay comparisons between the S7 and AYT populations. LD decay plots for the S7 population are detailed in the left-hand column; LD decays plots for the AYT population are detailed in the right-hand column. The red curve corresponds to the 95th percentile of r2 estimates between markers.
Genetic distance (cM) Genetic distance (cM)
SBI-06 SBI-06
SBI-07 SBI-07
SBI-08 SBI-08
SBI-10 SBI-10
SBI-09 SBI-09