Skip to main content
. 2010 Oct 27;49(1):367–372. doi: 10.1128/JCM.01120-10

TABLE 1.

Primers used for the interrogation of high-D-value SNPs in E. faecalis and E. faecium

Species and SNP Cumulative D value Primera Primer sequence (5′-3′)b
E. faecalis
    gyd268 0.5034 gyd268GF GACAAAGAAGTTACTGTTGATGAAGTG
gyd268AF GACAAAGAAGTTACTGTTGATGAAGTA
gyd268R CTACGATATCAGAAGAAACGATTTCG
    xpt198c 0.7536 xpt198GR AAATGAATAAACTGAAGCCGTTAAG
xpt198AR AAATGAATAAACTGAAGCYGTTAAA
xpt198F CTTCGCKCGTAAGGCAAAAAGT
    aroE355c 0.8766 aroE355GR TGGGATTATAAATAGCATCATACACG
aroE355AR TGGGATTATAAATAGCATCATACACA
aroE355F CCACATGCRCATAGTAGTCCTATAGAAAA
    gdh165 0.9386 gdh165AF CAGCCTATCGTGATGAACCA
gdh165GF CAGCCTATCGTGATGAACCG
gdh165R CGCCAGACCAACGGAAAT
    gyd208 0.9682 gyd208AF GCTCAACGTGTTCCTGTAGCA
gyd208TF GCTCAACGTGTTCCTGTAGCT
gyd208R CCATTACTGCATTYACTTCATCAAC
    gki141c 0.9824 gki141TR TTCCCCCGCGCCT
gki141CR TTCCCCCGCGCCC
gki141F TTCCGTTTGCHTTAGATAATGATG
    pstS87c 0.9886 psts87GR GACCACTGGTCCCATACCG
psts87AR GACCACTGGTCCCATACCA
psts87F CGTGGATGCCTCTAAATTAGTYGA
    pstS390c 0.992 pstS390GR CATCAATGCTTAAGGCAACG
pstS390AR CATCAATGCTTAAGGCAACA
pstS390F CAGTTCGTAAAATTGTTGAACAAACA
E. faecium
    pstS452c 0.3888 pstS452CR GTGTACATATGTTCATATGACCAGATTC
pstS452TR GTGTACATATGTTCATAKGACCAGATTT
pstS452F TCGACGGTGTAGAACCAAAAGA
    atpA485c 0.6456 atpA485CR CAGCATATGGTGCGATATAAAGC
atpA485TR CAGCATATGGTGCGATATAAAGT
atpA485F ACATTGAAAAAATATGGCGCAAT
    gyd160c 0.7359 gyd160GR CCGTCTAATTTACCGTTCAATTCG
gyd160TR CCGTCTAATTTACCGTTCAATTCT
gyd160AR CCGTCTAATTTACCRTTCAATTCA
gyd160F GCAAACATCGTWCCTAACTCAACW
    purK115 0.8276 purK115TF AGAAAAATCTTTTTTGGAAACGAAT
purK115CF RGAAAAATCTTTTTTGGAAACGAAC
purK115R GATCCCGTCAATCGCATCTT
    pstS87 0.8782 pstS87CF GTGGATCATAAAGTAGCAGTGGTC
pstS87TF GTGGATCATAAAGTAGCAGTRGTT
pstS87R GTAAAGATATCAATCAATTCCTGTTTKG
    atpA314 0.9122 atpA314CF CCGTAAAACAGGGAAAACTTCC
atpA314TF CCGTAAAACAGGGAAAACTTCT
atpA314R GATCATATCTTGRCCTTTTTGGTTRA
    atpA188c 0.9373 atpA188GR GTTAACAGATTTACGTTGCATAACG
atpA188AR GTTAACAGATTTACGTTGCATAACA
atpA188F AATYGACGGACTAGGTGAAATCG
    purK217c 0.9509 purK217AR CCCTTGCCATCATAGCCA
purK217GR CCYTTGCCATCATARCCG
purK217F GATCGTCAGTCCGACRGATATC
a

F, forward primer; R, reverse primer.

b

The allele-specific primers are indicated with a nucleotide base in boldface at the 3′ end of the sequence. Key to symbols: H = A+T+C, K = G+T, R = A+G, W = A+T, Y = C+T.

c

The SNP is in the reverse primer.