Bayes Factors are given for the CP: constant population size and Extender Bayesian skyline plot
(EBSP) model (under the same clock model). b
Bayes Factors are given for the strict and uncorrelated lognormal-distribution relaxed molecular
clock (under the same coalescent model).
TABLE S3. Multiple alignments of amino acid sequences of S segment Position
4
12
13
20
26
38
45
52
56
62
71
74
75
77
78
79
84
85
93
95
Majority
M
N
A
I
K
D
T
A
S
K
A
N
I
Q
E
R
V
E
R
M
DBSV
E
HTNV
R
E
ASV
R
E
V+A
A
T
L
D
A
T
L
K
Q
A
T
L
K
Q
DOBV
L
N
S
Q
G
R
K
L
D
K
SAAV
L
S
S
Q
G+S
R
K
L
D
K
SANGV
L
I
S
H
R
K
L
SEOV
S
H
D
A
GOUV
S
H
D
A
SERV
V
H
THAIV
V
H
T
D
S
T
D
Position
101
102
106
110
121
123
131
134
149
155
165
178
179
181
191
198
214
215
223
226
Majority
V
L
H
D
S
V
V
L
T
M
F
Y
V
M
E
F
N
M
I
L
DBSV
I
A
T
Y
Q
M+V
M
Y
Q
Y
Q L+V
I V+I
HTNV
T
G+S
ASV
L
T
L
DOBV
I
F
L
D
L
SAAV
I
F
L
D
L
SANGV
I
F
L
SEOV
T
S
T
I
I
S
GOUV
T
S
T
I
I
S
M+I
I
Y
V
Y
V
SERV
N
E
T
I
I
I
Y
I
THAIV
N
E
T
I
I
I
Y
I
M+V
Position
227
230
231
233
234
236
237
238
242
248
250
251
252
253
Majority
A
K
D
T
D
I
E
E
E
P
T
S
A
V
S+N
S+A
S+A
S
Q
A
G+V
Q
A
DBSV HTNV ASV N
DOBV
E
N
E+D
S
P
255
256
257
258
259
L
L
G
G
P
L+F
H+L
S+I G+V
H P
T
T
K
L
S
P
P
T
T
K
Q
S
P
Q
T
Q
K
SEOV
S
A+T
A+V
S
P
I
A
G
S
S
GOUV
S
A
A
S
P
I
A
G
S
S
SANGV
T
R
V
L
S
E
SAAV
E
V
254
E+D
N N
SERV
Q
D
S
L+M
T
Q
H
A
S
THAIV
Q
D
A
L
T
Q
H
A
S
Position
260
261
263
266
267
272
274
275
278
281
283
284
286
287
289
294
295
298
299
323
Majority
A
T
R
L
R
A
A
N
T
A
A
V
Q
H
E
S
L
H
I
A
DBSV
I
G
HTNV
L+F
G G
ASV
S
I
S
I
DOBV
S
N
K
K
I
N
SAAV
S
N
K
K
I
N+T
N
SANGV SEOV
P
P
S
I
V
GOUV SERV
V
I A
I
A
L
Q
Q G
P
F
G
P
F
G+S
S
G
M
N
M
D
M
D
A+V
I
V
N
S
L
K
T
G
L
K
T
I
D
R
T
G L
THAIV
P
Position
351
Majority
S
A
I
A
L
352
382
387
395
409
412
416
427
429
E
V
A
N
L
S
Q
L
L
G
S
DBSV V
HTNV
L
ASV DOBV SAAV I
SANGV SEOV
A
D
GOUV
A
D
V+G
D
S
D
S
E
G
A A F
I
A I
M
I
M
SERV
L
THAIV
L
G
I
D
R
T
L
TABLE S4. Multiple alignments of amino acid sequences of M segment Position
3
5
6
8
9
11
12
14
15
17
23
32
33
34
38
Majority
M
G
L
L
L
A
L
G
P
F
Y
S
V
N
N
V
V
G
DBSV HTNV
I+M
K
W
V
M+I
S
W
ASV
L
K
W
I+T
M+I
V
W
T
I
D
F
T+I
S+A
N+S
L+P
DOBV SAAV
V+L
SANGV
I
SEOV
T
L+Y+F
T
T+A A
T+A
SERV
A
I
V
THAIV
V
I
I
M+L
I
S
I
S
Q Q+R
GOUV
S
T
F
S
I+K
Q
S F
S+L
N+K
F
T T
S
T T
Position
41
43
44
45
48
50
52
54
56
58
72
73
74
75
76
Majority
I
Y
V
E
P
P
A
A
Q
V
S
T
I
T
K
DBSV
V+I
N+S
HTNV
T
N
I
N
ASV
V
DOBV
T
K
SAAV
T+I
K
SANGV
M
K
SEOV
S
T
GOUV
S
T
SERV
S
Q
THAIV
T
Q
Position
77
79
80
81
84
87
88
89
90
92
93
94
Majority
Y
K
V
S
K
E
Q
A
Q
S
Q
N
DBSV
Q
L
I+S
R+K
D+E
HTNV
Q
I+V
I+S
G
D+E
P+H+Q
G+S+A
A
K
D
L
Q
T
A
I
T+A
T
I+V
T
Q
V
L
Q
S
T
S
Q
N N A
V A
K+R
N
T
N
T
96
100
103
F
S
V
T+N
V
K
SAAV
V
SANGV
A
SEOV
L
V+I
GOUV
L
I
SERV
L
I
THAIV
L
Position
104
108
110
111
112
120
Majority
D
T
V
L
K
Y
A+S
K
V
A
K
D
H
S
N
G
K
D
N
E
L+S
N+S
N
E
S
E
S
S
E
T
V
S
E
T
122
132
135
137
142
144
150
160
164
N
S
S
F
L
M
A
G
Y
I
H
A
F
Y
A
H+Y
T
F
DBSV
S
A
T
DOBV
I
Q
Q
Q
ASV
S
M
F+I
HTNV
S
ASV
S
L
DOBV
N
T+A
SAAV
N
T
T+A
S
SANGV
Q
V
S
T
SEOV
S
L
M
A
GOUV
S
L
M
A
SERV
S
L
M
S+N H
M+I Y
L
T
M
S
H
M
S S
V T
V V
I
E
V+I
A
H
H
T
THAIV
S
L
M
F
T
Position
176
177
181
184
187
190
193
195
196
198
200
201
202
203
204
Majority
T
T
T
K
V
Q
V
I
I
H
I
F
D
I
A
DBSV
M
S
HTNV
M
ASV
M
R I
S
L+I V
DOBV I+T
SAAV V
SANGV
V+I
N
S+T
K
SERV
I
THAIV
V
V
A K
SEOV GOUV
V
N
V
L+M+I
N
V
V
N
A
L
R
M
Y
A
V
A
L
Y
A
R
M
K
L
S
R
M
V
V
T
I
K
L
S
R
M
V
V
T
Position
207
208
209
214
218
219
223
225
227
230
231
232
236
239
246
Majority
H
I
V
A
N
T
M
Q
K
F
G
S
D
N
I
F
E
A
L
F
E+Q
S
L
E
I
DBSV HTNV
S+G
L
I+T
DOBV
S
R
T
N
S
T
A
N
L
SAAV
S
R
N+T
S
S+N
N
P
N
L
SANGV
Q
I
R
S
L
T
M
N
G
G
D
SEOV
E
T
I
H
V
A
T
M
S
N
T
GOUV
E
T
I+V
H
V
A
T
M
S
N
S
SERV
Q
V
T
V
H
THAIV
Q
V
L
V
H
S
Position
251
254
260
261
262
269
270
272
Majority
G
A
S
L
D
A
F
G
ASV
L
S
N
E
M
M
N
273
274
275
278
285
289
290
I
F
R
H
A
I
A
N
I+N
P+R
DBSV S+A
HTNV
T
DOBV A
SANGV
V
K+R
T
ASV
SAAV
E
V+I
K
S
T
T
S
T
T
G
G
T
A+V
V+I
L
S
L
L
S
V
L
S
L
L
S+A
V
L
N
M
L
P
L
SEOV
A
G
E
V
I
T
GOUV
A
G
E
V
I
T
SERV
I
N
THAIV
I
N
P P
V+I
L
F
P
M
L
F
P
F
S S
Position
293
295
297
298
305
306
307
309
311
312
314
318
320
326
329
Majority
S
V
Q
I
T
A
S
K
L
S
T
S
I
F
L
DBSV
P
T
S
S
S+K
T+Y
I+L
E+S
D+T
R+Q+S
HTNV
P
A
S
G+S
I+T
S+F
P
A
S
T+S
V
ASV DOBV
A
SAAV
A
SANGV
A
V
D D
A+E
T
F+I L
N
A
M
L
L
Y+F
N
A
M
L
L+F
F
Q
E
H
SEOV
Q
S
V
K
GOUV
Q
S
V
K
SERV
Q
A
P
T
V
A
I
N
V
THAIV
Q
A
P
T
A
I
N
I
I+T
A
T
A
T
Position
331
332
333
335
336
337
338
339
349
351
353
354
359
362
364
Majority
G
S
Q
G
R
H
I
F
Q
V
D
K
L
T
M
V
P
K
V
H
K
T
A+T
A
K
V
H
N+K
A+T
A
DBSV HTNV
S+G
ASV DOBV SAAV
R
V+G P
V+I
N
T
V
T
Q
L
V+I
S
R
Y
S
E
Y
Y
A+S
E+D
E
Y
Y
D
K
E
T
SANGV
L
SEOV
A
E
F
N
R
L
GOUV
A
E
F
N
R
L
SERV
S
F
V
Q
E
M
R
THAIV
S
Y
V
Q
E
M
R
Position
366
368
373
378
383
416
417
422
430
434
456
457
463
473
481
Majority
D
P
A
N
L
A
A
N
M
V
T
I
L
I
H
S+N
DBSV
T
S
S+L
HTNV
T
L
T
T
S
S
ASV
E
F
SEOV
T
GOUV
T
SERV
S
THAIV
S
V V
T
SAAV SANGV
M+V
T
DOBV
V
Q
I
S
V
I
Q
I
S
V
I
I
S
T S S V
S
Position
497
501
502
504
508
509
515
519
520
521
526
528
529
533
556
Majority
V
A
T
V
N
T
S
N
F
A
I
I
Y
I
L
DBSV
L
F
I
L
HTNV
I+M
F
I+V
L
S
V
L
S
V
ASV
V
I
V
I+T
DOBV
I
S
V
A
N
S
I
G
SAAV
I
S
I
A
N
S
I+V
G
SANGV
L
S
A
N
Y
L
SEOV
C
L
GOUV
C
L
I
T
T
G L
F
L
SERV
I
T
I
N
S
V
THAIV
I
T
V
N
S
L
Position
563
564
567
569
570
580
583
584
585
586
589
594
Majority
N
L
P
S
Q
P
S
A
F
Q
Y
DBSV
G
L+P
L V
S
600
601
606
A
D
D
V
V
E
E
HTNV
G
V
A
V
ASV
G
V
A
V
DOBV
I
SAAV
L
I
SANGV
N
M
E
SEOV
V
G
E
T
GOUV
V
G
I
E
T
SERV
E
A
T
THAIV
K
A
T
E
I
E F K
E E
I
Position
610
611
612
633
635
636
639
640
644
650
651
653
655
Majority
N
F
T
M
V
F
I
I
L
S
E
P
V
P
L
DBSV
I+V
L+F
I+V
F
S
T
D
HTNV
I+V
C+F
I+V
L
ASV
D
L
DOBV
S
T
S
V
T
SAAV
S
T
S
V
V+I
SANGV
I
S
V
SEOV
I
GOUV
I
SERV THAIV
F+S M
L
C
L
A
G
T
L
G
I
L
V
G
L
V
M
V
V
G
L
S
M
A
656
657
T+N
V
T+V
V+I
V
E
S
V+I
E
S+N
S
N
A+T V
A
I+V
Position
665
667
689
691
694
696
697
698
699
701
702
703
712
714
715
Majority
V
S
K
K
N
V
N
E
E
S
V
D
G
G
A
D
T+A
S+T
A
A+S+T
A+S
T
A+S
DBSV
R
HTNV
R
R+K
R
R+K
ASV
L
E
L
E
DOBV
V
S
L
Q
SAAV
V
S
I
Q
S
T
P
SANGV
N+D
L
T
V
T
G+R A
SEOV
H
D
Q
GOUV
H
D
Q
I
I
T
S
V S
T
S
T
A
S S
SERV
I
THAIV
I
Position
719
741
724
754
756
762
765
788
791
793
795
798
799
801
806
Majority
A
T
F
F
R
N
G
L
V
S
Y
I
T
R
V
DBSV
A
G
Q
T
G
Q
T
HTNV
Y
T
ASV
Y
T
S+N
K
DOBV SAAV SANGV SEOV
S S
Y
H Y
H Y
K
A
GOUV
H
K
A
SERV
N
S
K
A
M
THAIV
H
S
K
A
M
Position
812
814
826
830
842
848
850
Majority
E
N
V
V
S
L
L
DBSV
D
T
F
T
F
S S
T
V
A
I
T
V
A
862
866
869
870
878
883
890
892
H
S
Q
F
S
G
P
S
A
P+S F
HTNV
F
ASV DOBV SAAV M
SANGV
V
D
V
D
V
D
T
T
H
T
H
P+A
Q
Y
SEOV
Y
A
H
G
P
GOUV
Y
A
H
G
P
Q
SERV H
THAIV
I
P
Q
I
P
Q
Position
911
916
918
919
932
933
935
937
940
941
942
950
956
958
967
Majority
M
K
V
M
N
I
F
D
I
E
W
R
L
T
G
R
DBSV
T
HTNV ASV
M+I
A
T
M
M+S
M
DOBV
S
Y
SAAV
N+Y
Y
SANGV
L
W+R
K K
E
SEOV
I
GOUV
V
L
SERV
Q
M
THAIV
Q
M
K
S
Position
970
972
977
979
981
993
995
Majority
P
K
T
S
E
T
Q
R
V+F
L
V S
A
A
1000
1002
1003
1013
1022
E
P
T
M
V
E+D V
A
V
T
S
K
P+S
K K
SANGV
V
999
DOBV SAAV
A
E
A
ASV
A
S
M
L
HTNV
S
V
L
V
DBSV
V
I
D
S
R
S
R
A
R
1023 T
1025 V
T+I I
T I
S
SEOV
A
N
S
GOUV
A
N
S
Q
V
A
THAIV
L
G
V
A
K
Position
1043
1049
1050
1054
1055
1058
1060
1061
1066
1068
1071
1073
1074
1075
1076
Majority
S
G
E
Q
T
Q
S
A
K
N
S
L
E
N
E
DBSV
A
N+D
V+I
D
HTNV
T+S
Q+K
I
H
A
I+M
S+N
ASV
T
I
H
A
SERV
T
DOBV
A+T
SAAV E
V
Q
Q
V
Q
V
S
SEOV
K
S+L
GOUV
K
S+A
SERV
T
N
THAIV
V
S
N
SANGV
M
Q
S E+D
S S
Q
T D
N R
S
S
N
P
R
A
T
Position
1077
1089
1093
1095
1099
1100
1103
1104
1110
1115
1119
1126
1127
1130
1135
Majority
K
K
V
S
I
S
F
N
L
V
F
I
L
V
K
F+L
S
I
I
V
DBSV
V+A
S
HTNV ASV S
DOBV SAAV
Q
S
T V+I
K
S+N
V+I
I+V
A
L
I
F
L
L
I
R
I
F
L
F
I
R
SANGV
S
SEOV
T
K
L
GOUV
T
K
SERV
A
THAIV
A
F I
V
M
I
V
M
I
V
K
L
V
K
H
S
V
I
R
I
F
I
F
TABLE S5. Entire S and M segment nucleotide (above-right) and amino acid (below-left) sequence identities of DBSV variants from Wenzhou with those of other hantaviruses S segment
TABLE S6. Summary of evolution rates in the complete M segments Summary statistic
Mean
SE
GM
95% HPD lower
95% HPD upper
TMRCA (DBSV)
671
18.7
598
180
1347
TMRCA (HTNV)
619
16.6
568
225
1168
TMRCA (ASV)
452
13.8
409
135
875
TMRCA (SEOV)
159
3.6
149
67
277
TMRCA (GOUV)
309
9.9
178
837
596
TMRCA (DOBV)
194
4.5
176
65
367
TMRCA (SAAV)
370
11.2
331
110
725
TMRCA (SANGV)
129
3.4
112
29
269
TMRCA (HTNV-ASV)
968
26.7
886
324
1792
TMRCA (HTNV-ASV-DBSV)
1563
43.7
1425
491
2916
TMRCA (DOBV-SAAV)
696
20.7
630
208
1337
TMRCA (DOBV-SAAV-SANGV)
1795
56.8
1603
500
3589
TMRCA (SEOV-GOUV)
612
18.0
553
182
1177
TMRCA (THAIV-SERV)
851
28.1
743
168
1741
1794
53.8
1616
501
3427
2.9E-4
1.4E-5
2.7E-4
1.0E-4
5.6E-4
TMRCA (SEOV-GOUV- THAIV-SERV) Mean rate
Note: GM, geometric mean
TABLE S7. Detection of positive selected sites by Maximum likelihood (ML) estimation for 48 S segment sequences of hantavirus. Models
d.f. ω
Branch Model M0 vs. FR Site Model M7 vs. M8 Branch-site Model A MA' vs. MA ASV group As foreground DBSV group As foreground HTNV group As foreground
92 ω= 0.01400
SEOV group As foreground
2
ω= 3.00482
1
ω2= 1.00000
1
ω2= 23.55478
1
ω2= 1.00000
1
ω2= 1.00000
GOUV 1 group As foreground DOBV 1 group As foreground SAAV 1 group As foreground DOBV-SAAV 1 group As foreground DOBV-SAAV-SANGV 1 group As foreground HTNV-ASV 1 group As foreground HTNV-ASV-DBSV group As 1 foreground SEOV-GOUV 1 group As foreground THAIV-SERV group As 1 foreground
