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Nature and distribution of large sequence polymorphisms in Saccharomyces cerevisiae
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SUPPORTING INFORMATION
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Ludo A. H. Muller* and John H. McCusker.
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Department of Molecular Genetics and Microbiology, Duke University Medical Center, Durham, NC 27710,
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USA.
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*
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Germany.
Current address: Institut für Biologie - Botanik, Freie Universität Berlin, Altensteinstraße 6, 14195 Berlin,
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Corresponding author:
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John H. McCusker
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Department of Molecular Genetics and Microbiology
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Duke University Medical Center, box 3020
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Durham, NC 27710, USA
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Telephone: +1 919 681 6778
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Fax: +1 919 684 8735
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E-mail: mccus001@mc.duke.edu
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Table S1. Yeast strains - Overview of 88 clinical and non-clinical Saccharomyces cerevisiae strains genotyped
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by hybridization of genomic DNA onto separate GeneChip® S. cerevisiae Tiling 1.0R Arrays (Affymetrix); ND,
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not determined; NA, not applicable. All strains have been deposited in, and should be requested from, the
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Phaff Yeast Culture Collection (http://www.phaffcollection.org/).
Strain
Parental
isolate
YJM1451
YJM1281,2,3,4
CBS 7833*
Kansas, USA
Clinical
YJM189
YJM1803,4
NCYC 431
ND
Distillery
YJM193
YJM1843
NCYC 914
ND
Distillery
YJM195
YJM1823
NCYC 762
Nigeria
Palm wine
YJM2371
NA
Isogenic with S288c5
California, USA
Rotten fig
YJM244
YJM2103
CBS 1227*
Romania
Clinical
YJM247
YJM2203,4
CBS 4411*
ND
Pig rectum
YJM248
YJM2183,4
CBS 2910*
ND
Faeces
YJM269
YJM2163
CBS 2808*
ND
Wine
YJM270
YJM2153,4
CBS 2807*
Slovenia
Wine
YJM271
YJM2143,4
CBS 1782*
ND
Brewery
YJM2801
YJM2731,3,4
CBS 7835*
ND
Clinical
YJM3201
YJM3091,3
CBS 7837*
ND
Clinical
YJM326
YJM3101,3
CBS 7838*
ND
Clinical
YJM3391
YJM3111,3
CBS 7839*
ND
Clinical
YJM4281
YJM3081,3
CBS 7836*
ND
Clinical
Original isolate or source
Geographic origin
Source
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Strain
Parental
isolate
Original isolate or source
Geographic origin
Source
YJM450
YJM4403,4
92-123
California, USA
Clinical
YJM451
YJM4363,4,6
B70302(b)
ND
Clinical
YJM453
YJM4343,4,6
B68019c
ND
Clinical
YJM456
YJM4543,4
89-156
ND
Clinical
YJM470
YJM4553,4
SUH7
California, USA
Clinical
YJM541
YJM522
SUH7
ND
Clinical
YJM554
YJM5213
SUH7
ND
Clinical
YJM555
YJM523
SUH7
ND
Clinical
YJM627
Y55
J.E. Haber
ND
Laboratory
YJM681
YJM653
SUH7
ND
Clinical
YJM682
YJM6688
R87-91
ND
Clinical
YJM683
YJM6783
R93-1871
ND
Clinical
YJM689
YJM6758
R93-1017
ND
Clinical
YJM693
YJM6693,8
R91-48
ND
Clinical
YJM969
YJM9673,4
96-98
Italy
Clinical
YJM972
YJM9473,4
96-100
Italy
Clinical
YJM975
YJM9483,4
96-101
Italy
Clinical
YJM978
YJM9543,4
96-109
Italy
Clinical
YJM981
YJM9553,4
96-110
Italy
Clinical
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Strain
Parental
isolate
Original isolate or source
Geographic origin
Source
YJM984
YJM9563,4
96-112
Italy
Clinical
YJM987
YJM9573,4
96-113
Italy
Clinical
YJM990
YJM9633,4
96-119
Italy
Clinical
YJM993
YJM9643,4
96-120
Italy
Clinical
YJM996
YJM9653,4
96-121
Italy
Clinical
YJM1077
YJM10764
ATCC 204722
ND
Laboratory
YJM1078
YJM10753,4
NRRL YB-4348*
Portugal
Clinical
YJM1083
YJM10733,4
NRRL Y-10,988*
North Carolina, USA
Clinical
YJM1129
YJM11233,4
NCMH 125
Ohio, USA
Distillery
YJM1132
YJM11003,4
R. Barton
UK
Clinical
YJM1133
YJM11253,4
MMRL 125
North Carolina, USA
Clinical
YJM1190
YJM11073,4
C. Kaufman
Michigan, USA
Clinical
YJM1192
YJM11123,4
C. Kaufman
Michigan, USA
Clinical
YJM1197
YJM11053,4
C. Kaufman
Michigan, USA
Clinical
YJM1199
YJM11153,4
C. Kaufman
Michigan, USA
Clinical
YJM1202
YJM11163,4
C. Kaufman
Michigan, USA
Clinical
YJM1250
YJM12233,4
NRRL Y-6673*
ND
Sugar cane
YJM1252
YJM12244
NRRL Y-6679*
Spain
Alpechin
YJM1273
YPS1343,4
P. Sniegowski
Pennsylvania, USA
Oak tree
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Strain
Parental
isolate
Original isolate or source
Geographic origin
Source
YJM1290
YJM12873,4
1278b9
ND
Laboratory
YJM1293
YJM12924
Bb32(3)10
California, USA
Wine
YJM1304
YJM6763,8
R93-1092
ND
Clinical
YJM1307
YJM10713,4
NRRL Y-961*
Washington DC, USA Clinical
YJM1311
YJM11013,4
C. Kaufman
Michigan, USA
Clinical
YJM1326
YJM12893,4
J. Bakken
Minnesota, USA
Clinical
YJM1332
YJM12843,4
M1-29
Italy
Wine
YJM1336
YJM12854
M28s29
Italy
Wine
YJM1337
YJM12863,4
M28f29
Italy
Wine
YJM1338
YJM13153,4
NRRL Y-963*
Maryland, USA
Sour fig
YJM1339
YJM13163,4
NRRL Y-964*
California, USA
Sour fig
YJM1341
YJM13234
NRRL Y-12637*
South Africa
Wine
YJM1342
YJM13243,4
NRRL Y-12638*
South Africa
Soil
YJM1343
YJM3121,3
CBS 7840*
ND
Clinical
YJM1355
YJM13444
NRRL Y-234*
Illinois, USA
Molasses
YJM1356
YJM13493,4
NRRL Y-747*
ND
Cider
YJM1381
YJM13574
NRRL YB-427*
Trinidad
Rum fermentation
YJM1383
YJM13594
NRRL Y-5511*
Philippines
Coconut
YJM1385
YJM13634
NRRL Y-11857*
Maryland, USA
Sugar refinery
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Strain
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Parental
isolate
Original isolate or source
Geographic origin
Source
YJM1386
YJM13654
NRRL Y-11878*
Jamaica
Sugar cane
YJM1387
YJM13664
NRRL Y-12758*
Japan
Wine
YJM1388
YJM13674
NRRL Y-12769*
Malaya
Fermented tapioca
YJM1389
YJM13684
NRRL Y-17447*
Thailand
Sewage
YJM1399
YJM13934
NRRL YB-908*
ND
Wild cherry tree
YJM1400
YJM13944
NRRL YB-4081*
Philippines
Guava
YJM1401
YJM13954
NRRL YB-4082*
Philippines
Papaya
YJM1402
YJM13964
NRRL YB-4449*
ND
Grape vine
YJM1403
YJM13974
NRRL Y-7568*
Philippines
Papaya
YJM1414
YJM14064
NRRL Y-266*
France
Wine
YJM1415
YJM14073
NRRL Y-268*
France
Wine
YJM1416
YJM14103
NRRL YB-2370*
ND
Soil
YJM1417
YJM14113
NRRL YB-2541*
ND
Cider
YJM1418
YJM14133
NRRL YB-4506*
ND
Oak tree
YJM1419
YJM1412
NRRL YB-2625*
ND
Sugar cane
McCusker JH, Clemons KV, Stevens DA & Davis RW (1994) Genetic characterization of pathogenic Saccharomyces cerevisiae isolates. Genetics 136: 1261-1269.
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Tawfik OW, Papasian CJ, Dixon AY & Potter LM (1989) Saccharomyces cerevisiae pneumonia in a patient with acquired immune deficiency syndrome. J Clin Microbiol 27:
1689-1691.
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Muller LAH & McCusker JH (2009) A multispecies-based taxonomic microarray reveals interspecies hybridization and introgression in Saccharomyces cerevisiae. FEMS
Yeast Res 9: 143-152.
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Muller LAH & McCusker JH (2009) Microsatellite analysis of genetic diversity among clinical and non-clinical Saccharomyces cerevisiae isolates suggests heterozygote
advantage in clinical environments. Mol Ecol 18: 2779-2786.
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5
Mortimer RK & Johnston JR (1986) Genealogy of principal strains of the yeast genetic stock center. Genetics 113: 35-43.
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F. Odds → K. Clemons → J. McCusker
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SUH = Stanford University Hospital → J. McCusker
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M. Rinaldi → K. Clemons → J. McCusker
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Winzeler EA, Castillo-Davis CI, Oshiro G, Liang D, Richards DR, Zhou Y & Hartl DL (2003) Genetic diversity in yeast assessed with whole-genome oligonucleotide arrays.
Genetics 163: 79-89.
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* CBS, NCYC and NRRL strains and isolates should be requested from the CBS (Centraalbureau voor Schimmelcultures; http://www.cbs.knaw.nl/), NCYC (National
Collection of Yeast Cultures; http://www.ncyc.co.uk/) and NRRL (Northern Regional Research Laboratory, now the National Center For Agricultural Utilization Research;
http://nrrl.ncaur.usda.gov/)
culture
collections,
respectively.
R. Mortimer → L. Hartwell → J. McCusker
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