. 1999 Nov;67(11):5994–6001. doi: 10.1128/iai.67.11.5994-6001.1999

TABLE 2.

PCR primers and conditions used in this study

Primer designation	Nucleotide sequence of primers	Target	PCR conditions						Length of PCR product (bp)	Reference for PCR
			Denaturing		Annealing		Extension
			Temp^a	T^b	Temp^a	T^b	Temp^a	T^b
KS7	`5′-CCCGGATCCATGAAAAAAACATTATTAATAGC-3′`	stx₁B	94	30	52	60	72	40	285	42
KS8	`5′-CCCGAATTCAGCTATTCTGAGTCAACG-3′`
GK3	`5′-CCCGGATCCATGAAGAAGATGTTTATGGCG-3′`	stx₂B	94	30	52	60	72	40	260	14
GK4	`5′-CCCGAATTCTCAGTCATTTATTAAACTGCAC-3′`	stx_2cB
LP43	`5′-ATCCTATTCCCGGGAGTTTACG-3′`	stx₂A and variants	94	30	57	60	72	60	584	10
LP44	`5′-GCGTCATCGTATACACAGGAGC-3′`
VT2-cm	`5′-AAGAAGATATTTGTAGCGG-3′`	stx_2d	94	30	55	60	72	60	256	35
VT2-f	`5′-TAAACTGCACTTCAGCAAAT-3′`
SK1	`5′-CCCGAATTCGGCACAAGCATAAGC-3′`	eae	94	30	52	60	72	60	863	43
SK2	`5′-CCCGGATCCGTCTCGCCAGTATTCG-3′`
Hly A1	`5′-GGTGCAGCAGAAAAAGTTGTAG-3′`	EHEC hlyA	94	30	57	60	72	90	1,551	45
Hly A4	`5′-TCTCGCCTGATAGTGTTTGGTA-3′`
asnU	`5′-TTTCGCTGTTAAGATGTGCC-3′`	asnU/int	94	30	53	60	72	60	1,500	This study^c
int2	`5′-TGCTTCCAGATAATCCGACCAC-3′`
asnV	`5′-GACAGCAAACAAACAAAAA-3′`	asnV/int	94	30	53	60	72	60	1,500	This study
int2	`5′-TGCTTCCAGATAATCCGACCAC-3′`
ybtEup	`5′-GCAAGATAGACAAAAAACGCC-3′`	ybtE/fyuA	94	60	52	60	72	60	359	This study
fyuybtE (IX)	`5′-GCTGACAACGGTAGACGAGA-3′`
fyuA FP	`5′-GCGACGGGAAGCGATTTA-3′`	fyuA	94	60	57	60	72	60	780	49
fyuA RP (X)	`5′-CGCAGTAGGCACGATGTTGTA-3′`
50A	`5′-ATTGATCCACCGTTTTACTC-3′`	IS100	94	60	50	60	72	60	100	This study
50B (XI)	`5′-CGAACGAAAGCATGAAACAA-3′`
int5	`5′-ATGGAATCGGGTTTATGGG-3′`	int/ybtS	94	60	54	60	72	60	830	This study
ybtSlp (XII)	`5′-GCTATTGCTGAACTGGAGG-3′`
ybtSup	`5′-GAAACAGCACGGTAAACGCA-3′`	ybtS/ybtQ	94	30	55	60	72	180	2,797	This study
ybtQ3lp (XIII)	`5′-ACGCGGCAGGAGGTAGAAG-3′`
ybtQup	`5′-GCCGCCAGTCTATCCACA-3′`	ybtQ/ybtA	94	30	52	60	72	180	2,805	This study
ybtA1lp (XIV)	`5′-GAATCGGCCACAATAGGA-3′`
ybtAup	`5′-GGTATGGATATTTTGCTCTGG-3′`	ybtA/irp2	94	60	54	60	72	60	1,340	This study
irp2 RP (XV)	`5′-TCGTCGGGCAGCGTTTCTTCT-3′`
irp2-1up	`5′-ACCTCTTCACCCACCCTTCT-3′`	irp2/irp1	94	60	54	60	72	60	300	This study
irp1-1lp (XVI)	`5′-TTCAGGAAAATGGCAGGCGT-3′`
irp1-1up	`5′-TTCCGGTCCCCTGTCTCA-3′`	irp1/ybtT	94	30	52	60	72	120	1,762	This study
ybtTlp (XVII)	`5′-ATCCGCCAATGTCTATCA-3′`
asnT	`5′-GACAGACAAGGTACCGCTAA-3′`	asnT/int	94	60	52	60	72	60	1,500	This study
int2	`5′-TGCTTCCAGATAATCCGACCAC-3′`
asnT1	`5′-CACGATTCCTCTGTAGTTCA-3′`	asnT/int	94	60	52	60	72	60	1,255	This study
int3 (I)	`5′-TCCTTTTTCGTGTCGTAACCC-3′`
asnT1	`5′-CACGATTCCTCTGTAGTTCA-3′`	asnT/int	94	60	52	60	72	60	1,500	This study
int2 (II)	`5′-TGCTTCCAGATAATCCGACCAC-3′`
int1	`5′-TCCCTTACCGACGCAAAAATCC-3′`	int	94	60	58	60	72	60	1,203	This study
int2 (III)	`5′-TGCTTCCAGATAATCCGACCAC-3′`
ybtSup	`5′-GAAACAGCACGGTAAACGCA-3′`	ybtS	94	60	52	60	72	60	160	This study
ybtSlp (IV)	`5′-GCTATTGCTGAACTGGAGG-3′`
ybtQup	`5′-CGGGCGGCCTCTTCTACCT-3′`	ybtQ	94	30	59	60	72	90	797	This study
ybtQ1lp (V)	`5′-GCGATGCGGCGACAAATGC-3′`
ybtAup	`5′-GGTATGGATATTTTGCTCTGG-3′`	ybtA	94	60	52	60	72	60	233	This study
ybtAlp (VI)	`5′-GGTAATGCTCTCGAATCGG-3′`
irp2 FP	`5′-AAGGATTCGCTGTTACCGGAC-3′`	irp2	94	60	60	60	72	60	280	49
irp2 RP (VII)	`5′-TCGTCGGGCAGCGTTTCTTCT-3′`
irp1up	`5′-TGAATCGCGGGTGTCTTATGC-3′`	irp1	94	60	56	60	72	60	240	34
irp1lp (VIII)	`5′-TCCCTCAATAAAGCCCACGCT-3′`
ybtTup	`5′-TGCAAAAACAGCCCAGTA-3′`	ybtT/fyuA	94	30	50	60	72	180	2,518	This study
fyuA1lp (XVIII)	`5′-CATTCCATCCCACATAGG-3′`

Temperature in degrees Celsius.

Time in seconds.

The primers asnU and asnV were designed according to DNA sequences published for the respective genes in E. coli K-12 (1); the primer pair asnT/int2 and the primer pairs targeting the regions I to VI, IX, and XI to XVIII were designed according to published sequences of Y. pestis HPI (13).