TABLE 2.

List of primers

PrimerGeneSequenceReference(s)
J 101gmhD15′-GCCATCCCACTCTGTGGTCGCAGAGCAAGCTCC-3′14
J 103rjg25′-CCCGTGACACTCGCCTTCCCTCCGTGATGAACC-3′14
M 177gmhD15′-TTACTTACGATTAATCAGCGCCAT-3′45
M 178gmhD25′-GGCGGCGCTGGCATGATTGGCAGC-3′45
M 179rjg15′-CATGGAAGTGGTTCATCACGGAGG-3′45
J 414rjg25′-GTGGACGCGTTCAAAGCACCGAATATCCGAGTT-3′45
M 310orf215′-GGTGACATCAAAGGGACCACTTTTTC22; this study
M 311orf225′-GGTGTATGCCACTAGTGTAGGTAAT22; this study
M 459IS100415′-CCCCAGCTTTTGACGCTTATTGTGAACGT-3′22; this study
M 460IS100425′-GATCGATATCTTTCTAACTTCTGTATAAGG-3′22; this study
M 277ctxA15′-ACAGAGTGAGTACTTTGACC-3′22; this study
M 278ctxA25′-ATACCATCCATATATTTGGGAG-3′22; this study
S 86ctxAB15′-GGCTGTGGGTAGAAGTGAAACGG-3′22; this study
S 87ctxAB25′-CTAAGGATGTGGAATAAAAACATC-3′22; this study
M 279tcpA15′-AAAACCGGTCAAGAGGG-3′ (same as KAR 24)28
M 280tcpA25′-CAAAAGCTACTGTGAATGG-3′ (same as KAR 25)28
M 281tcpA35′-CAAATGCAACGCCGAATGG-3′ (same as KAR 82)28
M 590tcpAL15′-GATCGCATGCCAGAGTTCTATCTTTCGTC-3′22; this study
M 591tcpAL25′-GATCGTCGACATAGTGATAAGAGTCTTACCC-3′22; this study
M 668smt1 (smt-VCA0198)5′-CCGAAATACGGTCATTACTTGGGC-3′22; this study
M 669smt25′-CACTTCATTATTCCCGTAAGCAGC-3′22; this study
M 680smt1.1 (nupC-VCA0179)5′-AATAGCCAATCACGCACCAAG-3′22; this study
M 681smt1.25′-TAATCGCACTGCGGCTTTCAG-3′22; this study
M 682smt2.1 (hmpA-VCA0183)5′-TGACCCACCAGAAAACCGGAC-3′22; this study
M 683smt2.25′-GCGCCTTATCCACACCAAGCG-3′22; this study
M 684smt3.1 (rhlE-VCA0204)5′-CGCTCAATCGCAAATAATTCC-3′22; this study
M 685smt3.2 (dcuB-VCA0205)5′-TGCTCTCTCTCCCCAAATGAC-3′22; this study
M 686smt4.1 (VCA0206)5′-GTATTGTCGGATTTCATTTGC-3′22; this study
M 687smt4.2 (VCA0208)5′-AGTGACGGCCTCTGGCGGAGC-3′22; this study
M 688smt5.1 (hlyA-VCA0219)5′-GGGTTCCGCGACACCGGATGC-3′22; this study
M 689smt5.25′-TGTTTAATGGCTATGTTGACG-3′22; this study
M 698ctxrgn1.1 (VC1444)5′-TAATCTGCTATTTCACTGAAG-3′22; this study
M 699ctxrgn1.25′-TTCCTGAGTGATCCCCAATCC-3′22; this study
M 700ctxrgn2.1 (VC1451-rtxA)5′-GCGGAAAAGCTGAAAGGCACC-3′22; this study
M 701ctxrgn2.25′-ACCTTCATGGTGTGAAATCAC-3′22; this study
M 702ctxrgn3.1 (VC1465)5′-CCGCTGTCTCAATAGAACCTG-3′22; this study
M 703ctxrgn3.25′-GGACATCATACAAGAGAAGAC-3′22; this study
M 704ctxrgn4.1 (VC1470)5′-GAACATGAACCTTAATGCGAG-3′22; this study
M 705ctxrgn4.25′-CACGTCATTTATGAATTACGG-3′22; this study
M 706ctxrgn5.1 (VC1476-VC1477)5′-GGTATCAGCATGAGACTTTTTTG-3′22; this study
S 122ctx core (orfU)5′-CGTCACACCAGTTACTTTTCG-3′22; this study
S 123ctx core (zot)5′-AACCCCGTTTCACTTCTAC-3′22; this study
M 707ctxrgn5.25′-CCAATAGTGATAACTACTTCG-3′22; this study
M 452ald25′-TTTTCTTGATTGTTAGGATGC-3′12
M 453ald15′-ATTCTTCTGAGGATTGCTGAT-3′12
M 644tagD15′-GCGGTGACACTAAAGTAGTGTTTG-3′22; this study
M 645tagD25′-GATGGTCAGATAAAAGAACGCAGG-3′22; this study
M 664tcpAdn15′-TTCGCAATTACAGTCGGTGGCTTG-3′22; this study
M 665tcpAdn25′-AGCCAACTCAGTTAAAACTTGTTC-3′22; this study
M 448toxT25′-CTTGGTGCTACATTCATGG-3′12
M 449toxT15′-AGGAGATGGAAGTGGTGTG-3′12
M 646vpi084515′-ATCATTCCAGATAAAGTTACGCAGA-3′22; this study
M 647vpi084525′-TCTACTTCCGGCTTCCCTGCCACG-3′22; this study
M 407rstR15′-GACGTAGCGTGCGGAGTCGCGTTG-3′22; this study
M 408rstR25′-TGAAGCATAAGGAACCGACCAAGC-3′22; this study
M 573rstA15′-ACTCGATACAAACGCTTCTC-3′22; this study
M 574rstA25′-AGAATCTGGAGGTTGAGTG-3′22; this study