1. Sutcliffe J, Grebe T, Tait-Kamradt A, Wondrack L (1996) Detection of Erythromycin-Resistant

TABLE S1. Previously developed PCR primers used in this work
Target/primer name / Primer sequence (5'-3') / Anneal temp. / Reference
mef(A, E) / F: / AGTATCATTAATCACTAGTGC / 50˚C / [1]
R: / TTCTTCTGGTACTAAAAGTGG
vga(A) / F: / CCAGAACTGCTATTAGCAGATGAA / 55˚C / [2]
R: / AAGTTCGTTTCTCTTTTCGACG
vga(B) / F: / TGACAATATGAGTGGTGGTG / 55˚C / [2]
R: / GCGACCATGAAATTGCTCTC
vgb(A) / F: / ACTAACCAAGATACAGGACC / 50˚C / [3]
R: / TTATTGCTTGTCAGCCTTCC
lsa(A, C) / F: / GGCAATCGCTTGTGTTTTAGCG / 55˚C / [4]
R: / GTGAATCCCATGATGTTGATACC
erm(A, B, C, G) / F: / GAAATIGGIIIIGGIAAAGGICA / 37˚C / [2]
R: / AATTGATTCTTIGTAAA
msr(A, B) / F: / GCAAATGGTGTAGGTAAGACAACT / 55˚C / [2]
R: / ATCATGTGATGTAAACAAAAT
27F / AGAGTTTGATCCTGGCTCAG / 55˚C
1492R / GGTTACCTTGTTACGACTT / 55˚C
337F / GACTCCTACGGGAGGCWGCAG
785F / GGATTAGATACCCTGGTA
M13 / F: / GTTTTCCCAGTCACGAC
R: / CAGGAAACAGCTATGAC
TABLE S2. Previously unpublished PCR primers used in this study
Target / Primer sequence (5'-3') / Anneal temp / GenBank accessions used for primer design
ere(A, B) / F: / CTCATTTYRTMRMRGARTT / 45˚C / AY183453, A15097
R: / GGWGTTTTTTGWAKATG
erm(G, T) / F: / AAATATAAAAGATAGTCAAAA / 45˚C / L42817.1, M64090.1
R: / CCATATTCCACTATTAAATAAG
mph(A, B, C) / F: / TGGGTKCTRMGMWTSCCK / 50˚C / D16251, D85892, AB013298
R: / ARCCCYTCTTCMCCAAA
mph(D) / F: / CTCCTGTAACCAAGCCAATTG / 55˚C / AB048591
R: / TTATCAACCCCGACCAGATTA
mph(E) / F: / ATGACAATTCAAGATATTCAATC / 50˚C / FR751518
R: / TTATATAACTCCCAACTGAGC
mph(F) / F: / ATGCTGCACGACACGGACCG / 55˚C / AM260957
R: / TCAAATCCCTGGCGCCGAC
vat(A, C, F) / F: / ATTGGDGATAARYTRAT / 45˚C / L07778, AF015628, AF170730
R: / ACMGGCATAATBRWYACATC
vat(B, D, E) / F: / TTATYATGAAYGGWGCMAAYCA / 50˚C / U19459, L12033, AF139725
R: / ATKGCWCCRTCHCCKATTT
vat(H) / F: / ATGGCAGAAAAATTAAAAGG / 45˚C / GQ205627.2
R: / CTAATCATTTTCTTTAGAAA
vgb(B) / F: / GTTTCTATGCTGATCTGAATC / 50˚C / AF015628
R: / GGTCTAAATGGCGATATATATGG
Table S3. GenBank accession numbers for amplified antibiotic resistance genesa
GenBank accession / Isolate and gene amplified
KF245571 / Enterococcus faecium F6S1 MsrC (msrC) gene
KF245572 / Pediococcus pentosaceus F4S4 MsrA (msrA) gene
KF245573 / Pediococcus pentosaceus F8S2 MsrA (msrA) gene
KF245574 / Enterococcus faecalis F5S8 Lsa (lsa) gene
KF245575 / Enterococcus faecalis F3S3 Lsa (lsa) gen
KF245576 / Streptococcus lutetiensis F5S7 rRNA methylase (ermTR) gene
KF245577 / Lactobacillus casei F4S1 rRNA methylase (ermG) gene
KF245578 / Pediococcus pentosaceus F7S1 rRNA methylase (ermB) gene
KF245579 / Pediococcus pentosaceus F4S2 rRNA methylase (ermB) gen
KF245580 / Enterococcus casseliflavus F4S7 rRNA methylase (ermB) gene
KF245581 / Lactobacillus fermentum F4S8 rRNA methylase (ermB) gene
KF245582 / Lactococcus lactis F4S9 rRNA methylase (ermB) gene
KF245583 / Pediococcus pentosaceus F4S10 rRNA methylase (ermB) gene
KF245584 / Lactobacillus fermentum F5S2 rRNA methylase (ermB) gene
KF245585 / Pediococcus pentosaceus F5S3 rRNA methylase (ermB) gene
KF245586 / Lactobacillus brevis F5S4 rRNA methylase (ermB) gene
KF245587 / Lactobacillus plantarum F5S5 rRNA methylase (ermB) gene
KF245588 / Enterococcus faecium F6S1 rRNA methylase (ermB) gene
KF245589 / Weissella confusa F2S1 rRNA methylase (ermB) gene
KF245590 / Weissella confusa F2S2 rRNA methylase (ermB) gene
KF245591 / Pediococcus pentosaceus F7S2 rRNA methylase (ermB) gene
KF245592 / Pediococcus pentosaceus F7S3 rRNA methylase (ermB) gene
KF245593 / Pediococcus pentosaceus F4S4 rRNA methylase (ermB) gene
KF245594 / Lactobacillus paracasei F4S3 rRNA methylase (ermG) gene
aAmplified genes are partial sequence only
TABLE S4. DNA sequences amplified with vat PCR primersa
Isolate / vat gene sequence
Pediococcus pentosaceus F7S1 / TTATTATGAACGGTGCCAATCACGTAATGAAAGGTATTTCAACTTATCCATTTAATATTTTGGGTGGCGATTGGCAGAAATATACTCCTGAACTGACTGATTTGCCGTTGAAAGGTGATACTGTAGTCGGAAATGACGTGTGGTTTGGGCAAAATGTGACCGTCCTACCAGGCGTAAAAATCGGGGACGGAGCCAT
Pediococcus pentosaceus F7S4 / TTATTATGAACGGAGCAAATCACGTAATGAAAGGTATTTCAACTTATCCATTTAATATCTTGGGTGGCGATTGGCAGAAATATACTCCTGAACTGACTGATTTGCCGTTGAAAGGTGATACTGTAGTCGGAAATGACGTGTGGTTTGGGCAAAATGTGACCGTCCTACCAGGCGTAAAAATCGGAGACGGTGCCAT
Pediococcus pentosaceus F4S2 / TTATTATGAACGGTGCCAACCACGTAATGAAAGGTATTTCGACTTATCCATTTAATATTTTAGGTGGCGATTGGCAACAATACACTCCTGAACTGACTGATTTGCCGTTGAAAGGTGATACCGTAGTCGGAAGTGACGTGTGGTTTGGGCAAAATGTGACCGTCCTACCAGGCGTAAAAATAGGGGACGGAGCCAT
Pediococcus pentosaceus F7S2 / TTTATTATGAATGGTGCCAATCACGTAATGAAAGGTATTTCAACTTATCCATTTAATATTTTGGGTGGCGATTGGCAGAAATATACTCCTGAACTGACTGATTTGCCGTTGAAAGGTGATACTGTAGTCGGAAATGACGTGTGGTTTGGGCAAAATGTGACCGTCCTACCAGGCGTAAAAATAGGAGACGG
Pediococcus pentosaceus F7S3 / TTTATTATGAACGGAGCCAATCACGTAATGAAAGGTATTTCAACTTATCCATTTAATATTTTGGGTGGCGATTGGCAGAAATATACTCCTGAACTGACTGATTTGCCGTTGAAAGGTGATACTGTAGTCGGAAATGACGTGTGGTTTGGGCAAAATGTGACCGTCCTACCAGGCGTAAAAATAGGAGACGG
Pediococcus pentosaceus F4S10 / AAGGTATTTCGACTTATCCATTTAATATTTTAGGTGGCGATTGGCAACAATACACTCCTGAACTGACTGATTTGCCGTTGAAAGGTGATACTGTAGTCGGAAATGACGTGTGGTTTGGGCAAAATGTGACCGTCCTACCAGGCGTAAAAATAGGAGACGGAGCCAT
Lactobacillus plantarum F5S5 / TTTATTATGAACGGAGCCAACCACGTAATGAAAGGTATTTCAACTTATCCATTTAATATTTTGGGTGGCGATTGGCAGAAATATACTCCTGAACTGACTGATTTGCCGTTGAAAGGTGATACTGTAGTCGGAAATGACGTGTGGTTTGGGCAAAATGTGACCGTCCTACCAGGCGTAAAAATAGGTGACGGTGC
Lactobacillus fermentum F4S8 / TTTATTATGAATGGAGCCAACCACGTAATGAAAGGTATTTCGACTTATCCATTTAATATTTTAGGTGGCGATTGGCAACAATACACTCCTGAACTGACTGATTTGCCGTTGAAAGGTGATACTGTAGTCGGAAATGACGTGTGGTTTGGGCAAAATGTGACCGTCCTACCAGGCGTAAAAATAGGAGACGGAGCCAT
Pediococcus pentosaceus F1S2 / TTTATCATGAACGGAGCAAACCACGTAATGAAAGGTATTTCAACTTATCCATTTAATATTTTGGGTGGCGATTGGCAGAAATATACTCCTGAACTGACTGATTTGCCGTTGAAAGGTGATACTGTAGTCGGAAATGACGTGTGGTTTGGGCAAAATGTGACCGTCCTACCAGGCGTAAAAATCGGAGACGGTGCCAT
Isolate / acetyltransferase gene sequence
Lactococcus lactis F4S9 / GGCATAATTGATACATCTTGACCTATCCAGACATCATTACCAATCACAGTATCTCCCTTAAAAGGAAGTTGTTCTATTGTAGGAGTCACTTTTCCCCATCCACAGCCAAAGATATTAAAGGGGTAGGTTGTAATTCCATCCATTCTATGATTTGCACCATTCATAATAAACTTAACACCCTCTGCAATTGCACAGAACTTACCTATTATCAGTTTATCCCC
aBecause amplified DNA sequences are <200 nt, they have not been submitted to GenBank

REFERENCES

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