Supplemental Figures
1 x
Mix
ed
Beer 2
WA
(^) As
ia
Origin
Beer
Wine
Spirits
Saké
Wild
Bio-ethanol
Bread
Laboratory
S.paradoxus
(^) Belg
ium/
Germa
ny
Win
e
US
0.005
Beer 1
Lineage
Mixed
Wine
Beer 2
West Africa
Asia
Britain
US
Belgium/Germany
Brit
ain
Beer^
1
BE062
BE008
WL003
BE016
BI003
WI005
BE079
SP010
BE069
BE057
BE007
BE037
BE074
BE065
BE031
BE021
BE052
WI015
BI004
BE097
(^950) EB
BE055
WL001
WL004
BE068BE035
BE070
SA007
BR001BR003
SP007
BE001
WI013
BE003
BE082
BE034
BE002
BE100
BE005
BE024BE088
BE049
BE056
BE092
BE076
BE085
BR002
WI018
BE075BE042
BE091
BE102
WI001
SP003
BE061
spar
WI003
SP006
SP005 BE067
BI001
SP002
BE101
BE006
BE063
BE026
SA005
(^590) EB
WL006
BE041
WI006
BE060
230 EB
BE043
BE098
BE009
BE020
BE096
BE080
BE027BE004
LA002
BE029BE028
SA001
BE058
WI009
WI004
BE066
BE011
BE081
BR004
BE019
BE038
SP011
BE014
BE047
SP001
BE073
WI019
BE039
BE071
BE015
BE025
BE093
BE033
BE083
SA002
BE013
BE050
BE072
BE018
BE086
WI012
BE078
BE045
WI007
BE077
WI010
BE023 BE054
150 EB
WI014
BE090
BI002
BE044
WL005
BE064
SP008
BE040
WI016
BE046
SA003
WI002
BE017
WL002
BE022
WI008
BE087
SP009
SP004
LA001
SA006
BE048
WI017
BI005
SA004
BE053
BE030
WL007 BE036
BE084
BE099
BE010
BE012
WI011
BE089
BE094
- Origin
Wild
Clinical
Fermented source
Laboratory
NA
S.paradoxus
AB
0.002
C
0.00
0.50
1.00
0.00
0.50
1.00
0.00
0.50
1.00
0.00
0.50
Estimated ancestry (Q)1.00
Britain USGermanyBelgium/ Mixed Wine Beer 2 Asia Mosaic NS
K=2
K=4
K=6
K=8
BE047BE048BE049BE053BE054BE055BE056BE064BE069BE070BE079BE089BE100BE101BE001BE009BE010BE037BE090BE066BE050BE036BE045BE099BE094WI012BE065BE067BE071BE082BE098BE102BE007BE068BE044BE051BE046BE073BE075BE076BE077BE078BE081BE087BE008BE012BE016BE022BE026BE041SP005BE031BE015BE043BE061WL005WL006WL007BE025SP003BR002BR003BR004BR001BE028BE023BE006BE029SP001BE038BE005SP011BE088BE014BE020BE024BE030BE033WI001WI003WI004WI005WI006WI007WI009WI010WI011WI013WI014WI015WI017WI018SA002SP002BE086BE092BE002BE032BE003BE063BE021WI019BE083BE084BE085BE091BE004BE011BE027BE034BE039BE040BE080BE013BE062BE059SA001SA003SA004SA005SA006SA007BI001BI003BI004WL004WI002WL002WL003WL001LA001SP004SP006WI016BI005BI002LA002BE018SP010BE017BE074BE072BE093BE035BE060BE019BE057WI008SP008SP007SP009BE058BE042BE052BE095BE096BE097
ZP590
BJ3
SP004
BE041
WI018
SA005
YJM1418
ZP578
BE083
YJM326
Kyokai7
YJM1342
BE024
BJ17
WI002
EXF7145
ZP680
BE027
YJM1401
YJM1341
YJM1248
BJ9
BE038
BJ23
YJM981
XJ6
YN2BI003
ZP656
265 P
Z
YJM1615
LA002
YJM1388
BE065
YJM1439
YJM1244
YJM244
HN1
BE006
UC5
Vin13
BE035
YN4
BE004
YJM682
XJ7
W303
HLJ3
ZP579
BI001
BE022
(^14) 5P
Z
EXF6780
ZP786
BE081
BE001
FJ11 HLJ2
Y10
BE008
UWOPS03-461.4
BE102
SP010
AN3e1s1
WL005
247 PZ
BJ19
BE098
BJ18
HN2
EC1118
YJM450
BE046
YJM1400
ZP611
BE052
YJM1129
BJ5
ZP1041
HN8
BE093
WI003
ZP823
YN5
spar
Y12
ZP793
FJ10
HLJ1
BE075
WI019
SD3
SX2
WL007
WI004
BE048
WL003
BE029
XJ3
YJM1444
YJM1336
YJM1419
BE080
YJM554
ZP796
BR004
BE025
YJM453
BE077
BE039
YJM1356
SA006
BE050
BE068
YJM193
YJM627
BE051
BE096
SX7
YJM1460
BE085
DBVPG1106
WI012
YJM1385
YJM270
BE047
YS9
CLIB324
DBVPG10100
YJM1199
ZP736
HN14
ZP653
SX8
PYR4b
ZP785
BJ28
SX9 YJM451
HN7
BI004
SX1
SDO8s1SM69s1
YJM1526
BE099
YJM1477
YJM1549
SDO2s1
BJ21
YJM1415
BE015
FJ9
OakArd11
SDO6s1YJM1434
WL002
SA002
DBVPG1373
FJ5
FostersB
ZP577YJM993
YJM1307
CLIB215
BE010
BE017
BE095
YJM978
BE030
ZP781
FJ4
IOC9002
XJ2
FJ2
YJM1450
YJM1573
YJM1386
BE086
BE071
ZP817
BE100
YJM990
BE097 BJ16
CBS7960ZP862
AN1g2s1
YJM1399 ZP565
WI010
BR003
WL006
BE040
YJM1202
ZP575
YJM969
YJM1478
YJM689
BE054
YJM1527
YJM1574
XJ4
YJM1190
FJ8
BE031
SP007
(^654) MJ
Y
Dav1e
BE057
HN17
BJ15
s288c
YN6
BE056
BJ12
YJM470
ZP1050
SD1
BE067
YJM1273
BE011 WI001
BE069
BE087
HN6
ZP570
CEN.PK2
BE088
BJ13
BJ26
BI005
UWOPS87-2421
NX1
YJM1592
BE070
ZP530
L1528
BJ4
FJ7
ZP779
YJM681
BJ8
WL004
SX6
BR002
BE060
SK1
YJM1479
BE037
ZJ2
BE043
JL5
EXF6719
SP001
DBVPG6044
WI017
AWRI796
SX5
HN16
ZP561
YJM975
YJM1381
SD4
ZP850
BE089
NX3
DBVPG6765
YJM1332
SDO3s1
YJM1417
BE072
ZP851
YJM1133
SA004
YJM984
BE049
WL001
BE026
WI005
YN1
BE045
WI013
BE064
ZP633
JL1
SP003
1 M 344
JY
BE013
YJM972
EXF6761
HN4
7 T
HN3
WI016
BJ25
SP006
LalvinQA23
BJ7
YJM271
BJ27
NX2
BE044
SX4
BE033
HN13
HUN9.1s1
ZTW1
BE012
BJ6
ZP641
BE082
WI008
YPS128
BE058
WI007
JL2
YPS163
YJM1242
BJ1
PW5
YJM987
BE079
BE018
BE034
WI006
BE005
EXF7179 YJM1326
JL3
YJM555
XJ1
HN15
BE059
SX3
SON4c SD2
ZP560 YJM1250
BE020
YJM1311
YJM1083
EXF7200
YJM320
BE073
YJM195
HN19
UWOPS83-787.3
SX10
YJM189
BE101
ZP651
SP008
YJM1208
BR001
YJM1389
BI002
ZP860
YJM683
BE063
WI009
BE021
ZP675
SP009
BE028
BE036
BJ10
SA001
YJM1387
XJ5
ZP652
BE053
HN11
BJ22
SP002
ZJ1
YN3
HN9
WI015
BE042
BE074
SP011
BE014
BE091
OakBor21-1
HN12
OakRom3
BE009
FJ3
BE032
FJ1
ZP848
SA007
BE094
ZP636
HN5
BE019
FJ6
RedStar
BE061
VL3
YJM1433
BJ14
BE078
YJM428
SX11
BE084
BE066
HN18
BE002
YJM1447
BE062
BE055
BE092
YJM1338
ZP566
FJ12
BE023
BE007
WI011
BJ20
YJM1383
BE090
BJ2
HN10
YJM1355
YJM996
SA003
SP005
BE003
YJM541
YJM339
BE076
FostersO
Y55
WI014
(^365) P
Z
EC9-8
BJ24
JL4
YJM1402
BE016
Sigma1278bYJM693
ZP861
ZP568
YJM1304
AWRI1631
YJM1463
LA001
OakGri7
Figure S1. Phylogeny and Population Structure of the IndustrialS. cerevisiaeStrains, Related toFigures 1A–1C
(A) Phylogenetic tree of strains sequenced in this study, usingSaccharomyces paradoxusas an outgroup. The tree was inferred from the concatenation matrix of
2,020 single copy orthologs. Black dots on nodes indicate bootstrap support values < 70%. Color codes indicate origin (names) and lineage (circular bands). The
basal splits of the five industrial lineages are indicated with a colored dot. Branch lengths reflect the average number of substitutions per site (scale bar = 0.005
substitutions per site).
(B) Population structure plot, with strain codes indicated.
(legend continued on next page)