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Table 1 Occurrence of SNPs in the causative genes GLO1, HAA1, VMA7, DOT5, and CUP2 in a set of 28 yeast strains of which the complete genome sequence is known

From: Polygenic analysis and targeted improvement of the complex trait of high acetic acid tolerance in the yeast Saccharomyces cerevisiae

  GLO1   HAA1      
  ORF ORF ORF ORF ORF ORF ORF ORF
  964 106 242 592 694 1025 1091 1130
ER18 A C T G A G TC T
16D G T C A G A AT C
S288C A C C A G A AT C
AWRI1631 G T C A G A AT C
AWRI796 G T C A G A AT C
BY4741 A C C A G A AT C
BY4742 A C C A G A AT C
CBS7960 G C C A G A AT C
CEN.PK113 A C C A G A AT C
CLIB215 G T C A G A AT C
EC1118 G T C A G A AT C
EC9-8 G T C A G A AT C
FL100 A C C A G A AT C
FostersB G C -a R WY Y
FostersO G C A TC C
JAY291 G C C G G A TC C
Kyokai7 A C T G A G TC T
LalvinQA23 G WY C
PW5 A C C G A A TC T
RM11-1a G T C A G A AT C
Sigma1278b A C C A G A AT C
T7 A   T G A G TC T
UC5 A C C G A G TC T
VL3 T A G A AT C
Vin13 G T C R G A WY C
W303 A C C A G A AT C
YJM269 A C C G A G TC T
YJM789 A C C G A G TC T
YPS163 A C C G A G TC T
ZTW1 A T T G A A TC T
    VMA7     
  ORF ORF Prom. Prom. Prom. Prom. Prom.
  1259 1517 −61 −67 −110 −139 −291
ER18 C G G C G T G
16D A A* T T C A A
S288C A G T T C A A
AWRI1631 A G T T C A A
AWRI796 A G T T C A A
BY4741 A G T T C A A
BY4742 A G T T C A A
CBS7960 A G T T C A A
CEN.PK113 A G T T C A A
CLIB215 A G T T C A A
EC1118 A G T T C A A
EC9-8 A G T T C A A
FL100 A G T T C A A
FostersB M G T T C A A
FostersO C G T T C A A
JAY291 A G T T C A A
Kyokai7 C G G C G T G
LalvinQA23 A G C T T A A
PW5 C G T C G A A
RM11-1a A G T T C A A
Sigma1278b A G T T C A A
T7 C G T C G A A
UC5 C G G C G T T
VL3 A G T T C A G
Vin13 A G T T C A A
W303 A G T T C A A
YJM269 C G G C G A A
YJM789 C G T T C A A
YPS163 G T C G A T
ZTW1 C G G C G T G
  DOT5   CUP2  
  ORF ORF ORF ORF
  25 463 361 497
ER18 G C G T
16D A T A C
S288C A C A C
AWRI1631 A T A C
AWRI796 A C A C
BY4741 A C A C
BY4742 A T A C
CBS7960 A C A C
CEN.PK113 A T A C
CLIB215 A T A C
EC1118 A T A C
EC9-8 A C A C
FL100 A C A C
FostersB A R C
FostersO A T R C
JAY291 A T A C
Kyokai7 G C G T
LalvinQA23 A A C
PW5 A C G T
RM11-1a A T A C
Sigma1278b G C A C
T7 A C G T
UC5 A T G T
VL3 G C A C
Vin13 A T A C
W303 A T A C
YJM269 A C G T
YJM789 A C A C
YPS163 A T G T
ZTW1 G C G T
  1. The SNPs present in superior parent 16D compared to inferior parent ER18 were checked in 28 strains of which the whole-genome sequence has been published. SNPs present in the other strains when compared to ER18, but not present in 16D, are not shown. The positions of the SNPs in the ORF or in the promoter are indicated
  2. aThe dash indicates that no sequence data are available for the specified position
  3. * The HAA1 allele of strain 16D contains a SNP at position 1517 (A), which is unique compared to the nucleotide (G) at this position in all the other sequenced strains analyzed. This is the only unique SNP present in the superior alleles identified in this work