supplementary fig. s1: hierarchical clustering of aux/iaa genes, showing significant differential...
TRANSCRIPT
Les.3702.1.A1_at
Les.5442.1.S1_atLes.4087.1.S1_at
Les.4095.1.S1_at
LesAffx.67531.1.S1_atLes.3703.1.A1_atLes.3706.1.A1_at
LesAffx.58084.1.S1_atLesAffx.3360.2.A1_at
C Sal
tS
us-C
Sus
-TT
ol-C
Tol
-TS
us-C
Sus
-TT
ol-C
Tol
-T
Drought Heat
Supplementary Fig. S1: Hierarchical clustering of AUX/IAA genes, showing significant differential expression under at least one abiotic stress condition. The fold change values in treated sample as compared to its corresponding mock-treated control sample were used for clustering. The gene probe-set IDs are on the left of the heat map while the gene names are presented on the right. The color bar present below represents the range of log2 signal for heat map. C, control; Salt, salt stress; Sus-C, susceptible-control; Sus-T, susceptible-treated; Tol-C; tolerant-control; Tol-T; tolerant-treated.
Supplementary Fig. S2: Hierarchical clustering of AUX/IAA genes showing significant differential expression under at least biotic stress condition is shown. The fold change values in treated sample as compared to its corresponding mock-treated control sample were used for clustering. The gene probe-set IDs are on the left of the heat map while the gene names are presented on the right. The color bar present below represents the range of log2 signal for heat map. B. cinerea, Botrytis cinerea inoculated; C. coccodes; Colletotrichum coccodes inoculated.
Les.1298.1.S1_atLes.4087.1.S1_at
Les.4095.1.S1_atLes.5442.1.S1_atLes.3702.1.A1_at
LesAffx.58084.1.S1_at
Hea
lthy
Wou
nded
B. c
iner
ea
C. c
occo
des
Hea
lthy
Wou
nded
MG RR MG
B. c
iner
eaC
ontr
ol
Supplementary Fig. S3: Expression profiles of SlIAAs in tomato development in various tissues and developmental stages in MicroTom and Pusa Ruby. The expression profiles of SlIAA genes in different tissues and stages of tomato development was analyzed by using normalized GC-RMA signal intensities generated in microarray experiments. The gene probe-set IDs are on the left of the heat map while the gene names are presented on the right. The color bar present below represents the range of log2 signal for heat map. R, root; HYP, hypocotyl; COT, cotyledon; 3 rd L, third leaf; L-3W, 3-week old leaf; L-5W, 5-week old leaf; MG, mature green; B, breaker; B+3 days old fruit, breaker+3 days old fruit; B+5; breaker+5 days old fruit; Breaker+20 days old fruit, breaker+ 20 days old fruit.
Les.3702.1.A1_at
Les.5442.1.S1_atLes.4087.1.S1_at
LesAffx.67531.1.S1_at
Les.3703.1.A1_atLes.3706.1.A1_at
LesAffx.3360.2.A1_at
Les.1298.1.S1_at
Les.4097.1.S1_at
Les.4095.1.S1_at
Les.3707.1.A1_at
LesAffx.58084.1.S1_at
Les.256.1.A1_at
Les.3701.1.A1_at
Les.3705.1.A1_at
R HY
PC
OT
3rdL
L-3
WL
-5W
MG
B B+
3B
+5
B+
20
MicroTom Pusa Ruby
0
100
200
300
400
500
600
MG B B+3 B+5 B+20
SlIAA9
0
1000
2000
3000
4000
5000
6000
7000
MG B B+3 B+5 B+20
SlIAA8
0
100
200
300
400
500
MG B B+3 B+5 B+20
SlIAA6
0
500
1000
1500
2000
2500
3000
MG B B+3 B+5 B+20
SlIAA1
0
2
4
6
8
10
12
MG B B+3 B+5 B+20
SlIAA2
0
20
40
60
80
100
120
MG B B+3 B+5 B+20
SlIAA3
0
2000
4000
6000
8000
10000
MG B B+3 B+5 B+20
SlIAA4
0100200300400500600700800
MG B B+3 B+5 B+20
SlIAA21
012345678
MG B B+3 B+5 B+20
SlIAA5
0
2
4
6
8
10
MG B B+3 B+5 B+20
SlIAA24
020406080
100120140160
MG B B+3 B+5 B+20
SlIAA26
020406080
100120140160
MG B B+3 B+5 B+20
SlIAA26
020406080
100120140160
MG B B+3 B+5 B+20
SlIAA26
020406080
100120140160
MG B B+3 B+5 B+20
SlIAA26
0
50
100
150
200
MG B B+3 B+5 B+20
M
R
Microarray
0
50
100
150
200
MG B B+3 B+5 B+20
M
R
Real time
Rel
ativ
e tr
ansc
ript
abu
ndan
ce
Supplementary Fig. S4: Validation of microarray expression profiles for tomato Aux/IAA genes at different developmental stages by QPCR. Three biological replicates for each stage were used to generate microarray and QPCR expression profiles. Y-axis represents the normalized raw expression values obtained from the microarray analysis in the form of relative transcript abundance while X-axis shows five fruit developmental stages in tomato. Standard error bars are shown for data obtained using both techniques. MG; mature green, B; breaker. B+3, B+5 and B+20 represent 3, 5 and 20 days post breaker stages of fruit ripening.
Supplementary Fig. S5: Expression profiles of ARF and Aux/IAA genes from tomato and pepper. Heatmaps showing expression of members of these two gene families in various tissues/organs and developmental stages (labeled on top) of tomato (A), pepper (B) and potato (C). Color scale represents log2(RPKM) values in case of RNA-seq data publically available for tomato (TGC 2012) and pepper (Kim et al., 2014). MG, mature green; B, breaker; DPA, days post anthesis; cm, fruit diameter in centimeter.