TABLE 1.

Oligonucleotide PCR and DNA sequencing primers used in this study

Primera	5′-3′ sequence	Use
VC1500-F0	AGGGAAATCGACGCTGATTC	SOE PCR
VC1500-F1	CCTATACTGTTTAATGACAC	SOE PCR
VC1500-F2	GCTCCTATTGTAGGTTGTTTGAATGAGTCA	SOE PCR
VC1500-R1	AAACAACCTACAATAGGAGCCGCCATTAAC	SOE PCR
VC1500-R2	CTTTGAGAGAAATGGTCAAG	SOE PCR
VC2487-F0	AACATAGAGTGCATACCTAG	SOE PCR
VC2487-F1	GGAAGGATGTGTGATGAGAG	SOE PCR
VC2487-F2	AAAGCATTTGTGACGTGAATATTAGTGTTC	SOE PCR
VC2487-R1	ATTCACGTCACAAATGCTTTTCTCCATTAC	SOE PCR
VC2487-R2	GCATAAACAACTCATCATTG	SOE PCR
VC0488-F0	AGTATCAGCAACGATTACAG	SOE PCR
VC0488-F1	CCTGTCACGAGTGATTGCTC	SOE PCR
VC0488-F2	GGAAGTTATGTAATGGCAATGCGCTGGATA	SOE PCR
VC0488-R1	ATTGCCATTACATAACTTCCTCATTGTTAT	SOE PCR
VC0488-R2	TAGAAGCGTCTCTTAAACTG	SOE PCR
VC0622-F0	ATCTTACGCGGTAGACTATC	SOE PCR
VC0622-F1	TGGGAAGTCGCTTACTGCTC	SOE PCR
VC0622-F2	ACGTTTTTTGTAAAGCAATCCGCAAGCGAG	SOE PCR
VC0622-R1	GATTGCTTTACAAAAAACGTGAGGAGAATG	SOE PCR
VC0622-R2	ATAATGGCTCTTTGCCTGAG	SOE PCR
VC0874-F0	GTCGTGATGTTGAACTGG	SOE PCR
VC0874-F1	CCATCGAACAAAACCATGACG	SOE PCR
VC0874-F2	TGGTGAATTACATGGGCTATCTCCTCTGG	SOE PCR
VC0874-R1	ATAGCCCATGTAATTCACCACTCATGAGG	SOE PCR
VC0874-R2	CTTTGCGATAACCGTTGATT	SOE PCR
VC0130-F0	GGTGTATGACCAAGCGCATC	SOE PCR
VC0130-F1	GAGCGAGACGCTTGAGCAAG	SOE PCR
VC0130-F2	CTTGCGTTACATAAAGAGCTGATAAGCCAG	SOE PCR
VC0130-R1	TCAGCTCTTTATGTAACGCAAGACGC	SOE PCR
VC0130-R2	CGTTTCAACTCTCGCTGCTC	SOE PCR
VC2705-F0	CTGCGATTAACGACTTGATG	SOE PCR
VC2705-F1	GCTATTAGGCTGCTAACCTAAG	SOE PCR
VC2705-F2	GTATTAACTTACATCGAGATGAAGGAAG	SOE PCR
VC2705-R1	CATCTCGATGTAAGTTAATACTGACTACTCAA	SOE PCR
VC2705-R2	GTGATGCTCCCTGCATTG	SOE PCR
VC2646-F0	GAGATCATGCACGAAGTGCTG	SOE PCR
VC2646-F1	AATTTGTGGTTGCTGCGAAC	SOE PCR
VC2646-F2	ACTCACATTGTAACAAATCGCTAAATGTCA	SOE PCR
VC2646-R1	CGATTTGTTACAATGTGAGTTCAGTTAATTACAC	SOE PCR
VC2646-R2	TTGAGTTCACGATATACCTG	SOE PCR
BLA-F	CGCGGAACCCCTATTTGT	pIVETn construction
BLA-R	GTCTGACAGTTACCAATG	pIVETn construction
ORI-F	CGCTAGTTTGTTTTGACT	pIVETn construction
ORI-R	CAGCAGTTCAACCTGTTG	pIVETn construction
MOB-F	CAGCCGACCAGGCTTTCC	pIVETn construction
MOB-R	CTTTTTGTCCGGTGTTGG	pIVETn construction
TNPR-F	CGACCCGGGAGATCTCAATTGTTCGAATTTAGGATACATTTTTAT	pIVETn construction
TNPR-R	GCGGTACCTTATGTTAGTTGCTTTCA	pIVETn construction
LACZ-F	GCGGTACCACAGGAAACAGCTATGACC	pIVETn construction
LACZ-R	TTATTATTTTTGACACCA	pIVETn construction
TNPRWTF4	GAGAATTTAGGATAAATTTTTATGCGACTTTTTGGTTACG	pIVETn construction
TNPR135F5	GAGAATTTGAGATAAATTTTTATGCGACTTTTTGGTTAC	pIVETn construction
TNPR168F6	GAGAATTTAAGATAAATTTTTATGCGACTTTTTGGTTACG	pIVETn construction
TNPR-R4	ACAATTGAGATCTCGAGAAAAAGC	pIVETn construction
NEO-F	CGCTCTAGAGGCCTGTGTG	Cassette construction
NEO-R	CTGAGATCTAATGCTCTGCCAGTGTTAC	Cassette construction
IRGA-F	ATCTTGCATAGGTATTTGACC	PirgA cloning
IRGA-R	GCTGGCGCATTTTGAATCA	PirgA cloning
SACB1	GGAAGATCTGATCCTTTTTAACCCATCACATATA	Cassette construction
SACB-R1	CTTCTAGAAAAGGTTAGGAATACGGTTAG	Cassette construction
1RES-F	TCTATTGAATTCCGTCCGAAATATTATAAATTATCGCAC	Cassette construction
1RES-R	TCTAATCTCGAGTGTATCCTAAATCAAATATCGGACAAG	Cassette construction
1RES1-F	TCTAATGAATTCCGTCCGAAATATTACAAATTATCGCAC	Cassette construction
2RES-F	TCTAATCTCGAGTCTAGACGTCCGAAATATTATAAATTATCGCAC	Cassette construction
2RES1-F	TCTAATCTCGAGTCTAGACGTCCGAAATATTACAAATTATCGCAC	Cassette construction
2RES-R	TCTAATGGTACCTGTATCCTAAATCAAATATCGGACAAG	Cassette construction
VIVI-F	GACAGCGTGGCACAAAAAAGAGAG	Cassette confirmation
VIVI-R	ACCAAAACTCACCCATCCGAGAG	Cassette confirmation
T3	AATTAACCCTCACTAAAGGG	Cassette integration
T7	AATACGACTCACTATAGGGC	Cassette integration

^aPrimers for VCA1008 SOE PCR are described in reference 18.