Supplementary figures
Table S1
Table 1: Likelihood Ratio Test (LRT) for the random effects for each analyzed trait
|
term
|
BTL
|
EH
|
EL
|
ER
|
GMC
|
GWE
|
GY
|
HSW
|
PH
|
|
ME
|
0.9993
|
0.998
|
0.4532
|
0.9999
|
1
|
0.1762
|
0.9996
|
1
|
0.1295
|
|
GEN
|
0.1623
|
0.0001158
|
0.001976
|
2.811e-08
|
2.381e-05
|
0.02818
|
0.3131
|
1.234e-07
|
3.094e-07
|
|
GEN:YEAR
|
0.8979
|
0.486
|
0.9997
|
0.9998
|
0.9997
|
0.4008
|
0.9997
|
0.9988
|
0.7332
|
|
GEN:ME
|
0.3916
|
1
|
0.005561
|
0.3466
|
1
|
0.1961
|
0.3527
|
0.3534
|
1
|
|
GEN:ME:YEAR
|
6.015e-38
|
5.846e-36
|
1.623e-11
|
1.41e-21
|
2.254e-06
|
4.085e-07
|
2.597e-17
|
0.0001163
|
3.111e-32
|
|
REP:(ME:YEAR)
|
2.402e-54
|
6.957e-136
|
2.864e-91
|
3.494e-19
|
3.1e-81
|
3.42e-115
|
7.102e-204
|
2.899e-220
|
2.974e-72
|
|
ME:YEAR
|
1
|
0.09063
|
1
|
1
|
0.0006672
|
1
|
0.0317
|
1
|
0.5888
|
|
YEAR
|
1
|
0.3594
|
0.2755
|
0.4651
|
0.04146
|
0.1256
|
0.9992
|
0.9993
|
0.2946
|
Table S2
Table 2: Eigenvalues and explained variance for the factor analysis within each mega-environments (ME1, ME2, ME3, and ME4).
|
model
|
PC
|
Eigenvalues
|
Variance (%)
|
Cum. variance (%)
|
|
ME1
|
PC1
|
2.9048
|
32.2755
|
32.2755
|
|
ME1
|
PC2
|
1.6590
|
18.4335
|
50.7090
|
|
ME1
|
PC3
|
1.2536
|
13.9292
|
64.6381
|
|
ME1
|
PC4
|
1.0292
|
11.4350
|
76.0732
|
|
ME1
|
PC5
|
0.8384
|
9.3154
|
85.3886
|
|
ME1
|
PC6
|
0.5137
|
5.7075
|
91.0961
|
|
ME1
|
PC7
|
0.4369
|
4.8547
|
95.9508
|
|
ME1
|
PC8
|
0.2353
|
2.6143
|
98.5652
|
|
ME1
|
PC9
|
0.1291
|
1.4348
|
100.0000
|
|
ME2
|
PC1
|
2.6264
|
29.1824
|
29.1824
|
|
ME2
|
PC2
|
1.4635
|
16.2612
|
45.4436
|
|
ME2
|
PC3
|
1.3912
|
15.4574
|
60.9010
|
|
ME2
|
PC4
|
1.1580
|
12.8671
|
73.7680
|
|
ME2
|
PC5
|
0.9121
|
10.1344
|
83.9024
|
|
ME2
|
PC6
|
0.6959
|
7.7324
|
91.6348
|
|
ME2
|
PC7
|
0.4390
|
4.8783
|
96.5131
|
|
ME2
|
PC8
|
0.2292
|
2.5472
|
99.0603
|
|
ME2
|
PC9
|
0.0846
|
0.9397
|
100.0000
|
|
ME3
|
PC1
|
2.6731
|
29.7011
|
29.7011
|
|
ME3
|
PC2
|
1.9628
|
21.8091
|
51.5102
|
|
ME3
|
PC3
|
1.3120
|
14.5781
|
66.0883
|
|
ME3
|
PC4
|
1.0805
|
12.0054
|
78.0937
|
|
ME3
|
PC5
|
0.6778
|
7.5310
|
85.6247
|
|
ME3
|
PC6
|
0.5212
|
5.7916
|
91.4162
|
|
ME3
|
PC7
|
0.4507
|
5.0078
|
96.4241
|
|
ME3
|
PC8
|
0.1951
|
2.1682
|
98.5923
|
|
ME3
|
PC9
|
0.1267
|
1.4077
|
100.0000
|
|
ME4
|
PC1
|
2.2929
|
25.4767
|
25.4767
|
|
ME4
|
PC2
|
1.8789
|
20.8771
|
46.3538
|
|
ME4
|
PC3
|
1.3836
|
15.3734
|
61.7272
|
|
ME4
|
PC4
|
1.0722
|
11.9138
|
73.6411
|
|
ME4
|
PC5
|
0.7253
|
8.0584
|
81.6994
|
|
ME4
|
PC6
|
0.6302
|
7.0026
|
88.7020
|
|
ME4
|
PC7
|
0.5051
|
5.6123
|
94.3144
|
|
ME4
|
PC8
|
0.3232
|
3.5909
|
97.9052
|
|
ME4
|
PC9
|
0.1885
|
2.0948
|
100.0000
|
Table S3
Table 3: Selecion differentials for mean performance and stability of the studied traits in the four delineated mega environments.
|
|
Mean performance
|
Stability
|
|
ME
|
TRAIT
|
Factor
|
Xo
|
Xs
|
SD
|
Xo
|
Xs
|
SD
|
|
ME1
|
EH
|
FA1
|
115.1686
|
110.3583
|
-4.1767
|
287.9145
|
341.4788
|
18.6042
|
|
ME1
|
PH
|
FA1
|
292.9013
|
289.1667
|
-1.2750
|
315.3069
|
238.7900
|
-24.2674
|
|
ME1
|
EL
|
FA2
|
18.3032
|
19.0750
|
4.2167
|
3.1804
|
1.2354
|
-61.1555
|
|
ME1
|
GY
|
FA2
|
11.3963
|
12.0839
|
6.0336
|
2.2780
|
2.0733
|
-8.9884
|
|
ME1
|
BTL
|
FA3
|
1.3955
|
1.5556
|
11.4684
|
3.1218
|
4.5937
|
47.1494
|
|
ME1
|
ER
|
FA3
|
16.3603
|
16.3000
|
-0.3683
|
3.4559
|
5.3685
|
55.3442
|
|
ME1
|
GMC
|
FA3
|
27.9077
|
27.4889
|
-1.5007
|
9.5114
|
6.1766
|
-35.0612
|
|
ME1
|
GWE
|
FA4
|
191.6609
|
196.7083
|
2.6335
|
1484.6240
|
593.2737
|
-60.0388
|
|
ME1
|
HSW
|
FA4
|
34.8949
|
35.5528
|
1.8854
|
12.9523
|
13.7309
|
6.0113
|
|
ME2
|
EH
|
FA1
|
102.1944
|
100.9259
|
-1.2413
|
1746.1723
|
2767.4794
|
58.4883
|
|
ME2
|
GMC
|
FA1
|
28.3406
|
27.1537
|
-4.1880
|
18.3819
|
17.0779
|
-7.0940
|
|
ME2
|
PH
|
FA1
|
266.0662
|
273.7593
|
2.8914
|
3237.5826
|
5817.5449
|
79.6879
|
|
ME2
|
GY
|
FA2
|
10.0020
|
10.6186
|
6.1646
|
2.0422
|
1.9058
|
-6.6775
|
|
ME2
|
HSW
|
FA2
|
33.0491
|
34.7907
|
5.2697
|
24.0236
|
6.1234
|
-74.5108
|
|
ME2
|
BTL
|
FA3
|
1.4226
|
1.2500
|
-12.1358
|
2.5058
|
1.5026
|
-40.0356
|
|
ME2
|
ER
|
FA3
|
16.1157
|
16.3139
|
1.2296
|
5.1660
|
1.1787
|
-77.1843
|
|
ME2
|
EL
|
FA4
|
18.6455
|
18.6389
|
-0.0355
|
1.3509
|
0.3979
|
-70.5436
|
|
ME2
|
GWE
|
FA4
|
165.5722
|
176.8111
|
6.7879
|
959.9331
|
1939.8253
|
102.0792
|
|
ME3
|
EH
|
FA1
|
107.3942
|
109.8958
|
2.3294
|
174.6787
|
75.4959
|
-56.7801
|
|
ME3
|
GMC
|
FA1
|
27.7042
|
26.7139
|
-3.5745
|
13.0603
|
3.3610
|
-74.2658
|
|
ME3
|
HSW
|
FA1
|
34.1939
|
33.2556
|
-2.7442
|
15.2821
|
27.8854
|
82.4718
|
|
ME3
|
PH
|
FA1
|
276.4776
|
275.2153
|
-0.4566
|
1433.6657
|
645.5966
|
-54.9688
|
|
ME3
|
BTL
|
FA2
|
1.3433
|
1.0896
|
-18.8857
|
1.3436
|
2.2187
|
65.1352
|
|
ME3
|
ER
|
FA2
|
16.1045
|
16.1958
|
0.5672
|
3.0241
|
4.2699
|
41.1980
|
|
ME3
|
EL
|
FA3
|
17.9563
|
18.0951
|
0.7735
|
4.7299
|
6.3681
|
34.6328
|
|
ME3
|
GWE
|
FA4
|
166.0665
|
171.2965
|
3.1494
|
994.1200
|
734.4834
|
-26.1172
|
|
ME3
|
GY
|
FA4
|
10.2719
|
10.6635
|
3.8122
|
6.9039
|
3.3072
|
-52.0976
|
|
ME4
|
BTL
|
FA1
|
1.5679
|
0.7236
|
-53.8498
|
3.0430
|
0.3149
|
-89.6507
|
|
ME4
|
GMC
|
FA1
|
29.5715
|
30.3458
|
2.6186
|
32.3595
|
44.5085
|
37.5439
|
|
ME4
|
GWE
|
FA1
|
178.6907
|
182.3833
|
2.0665
|
863.3880
|
715.2423
|
-17.1586
|
|
ME4
|
GY
|
FA1
|
9.7761
|
10.3792
|
6.1689
|
3.6834
|
2.1659
|
-41.1989
|
|
ME4
|
EH
|
FA2
|
108.9423
|
109.5417
|
0.5502
|
291.3284
|
428.3351
|
47.0283
|
|
ME4
|
HSW
|
FA2
|
34.8843
|
35.4083
|
1.5022
|
10.2273
|
9.6333
|
-5.8080
|
|
ME4
|
PH
|
FA2
|
278.8333
|
280.8750
|
0.7322
|
700.0429
|
371.3342
|
-46.9555
|
|
ME4
|
ER
|
FA3
|
16.1497
|
15.5889
|
-3.4725
|
5.7913
|
4.2754
|
-26.1748
|
|
ME4
|
EL
|
FA4
|
18.0981
|
18.0389
|
-0.3270
|
4.5881
|
3.7955
|
-17.2762
|