TABLE 1.

Primer sequences used in MLST analysis of pSymB and pSMED01 of Medicago-nodulating rhizobia

Locus and primer typeaPrimer sequencebLength (bp)cLocation on pSymBdLocus location on pSMED01
PCR primers
    catCF: 5′-CGCGGCAACGGTGGAGAACTT-3′1,33210154-12271590487-592604
R: 5′-GGGCGGCGTCTGGCTGATGAA-3′
    dakF: 5′-CGGCGGCGGCTCGGGACATTA-3′1,2231558643-1560361711076-712794
R: 5′-TCGCCGCGTCGCTCACCTTTT-3′
    dgoAF: 5′-CCGCGCTGGCTGTTTCTCAAG-3′1,028532438-53358625022-26170
R: 5′-TTCGCGCGTTCCATCACATAG-3′
    gabTF: 5′-GCCCCCTTCCCGATCGAGCTT-3′679935353-9366211191216-1192484
R: 5′-TCGGCGCCAGGAAACGGATGA-3′
    idhF: 5′-CGGGCGTATCGGCAAGGTTCA-3′6401306775-1307767950746-951738
R: 5′-ACGGCGCGAGTTCGAGATGAT-3′
    pdhF: 5′-GCGCCGAGGAATGGAACGAAG-3′1,02927345-29423574417-576495
R: 5′-GCGCGTCGAGATCGATGAAGG-3′
Sequence primers
    catCF: 5′-TCCGCCCACGACAATTTCTG-3′427580-599
R: 5′-GCGCCCCTGCAGCAATGGATC-3′1093-1113
    dakF: 5′-CGCCGGCGACGTCCTGAATTT-3′467315-335
R: 5′-CCCGCGTCATTGAGCTGTCTG-3′825-845
F: 5′-GCGCCTCCAGCTCTTCATTCA-3′pSMED01 specific926-946
    dgoAF: 5′-GGGCGCGCGCTCACGGTCGAA-3′561106-126
R: 5′-CGCCAGCGCCACGTCGTAGG-3′830-849
    gabTPCR primers were used for sequence analysis526496-516
1175-1195
    idhF: 5′-TCGCCGGCGCCTATGGATG-3′530128-146
R: 5′-ACGCGCCATGTCGAAATCA-3′522-541
    pdhF: 5′-ATGGCGGGGGGATTCTTAAAA-3′6601456-1476
F: 5′-CGGCCCGGTGCAATCGTG-3′1913-1933
  • a The genes listed code for the following products: catC, catalase; dak, glycerone kinase; dgoA, galactonate dehydratase; gabT, 4-aminobutyrate aminotransferase; idh, myo-inositol dehydrogenase; pdh, pyruvate dehydrogenase.

  • b F, forward; R, reverse.

  • c The lengths shown represent the product length for the PCR primers and the sequence length for the sequence primers.

  • d The locations shown represent the locus location on pSymB for the PCR primers and the primer location on pSymB for the sequence primers.