. 2015 Feb 19;53(3):789–794. doi: 10.1128/JCM.01910-14

TABLE 1.

Primer sequences and main characteristics of selected loci in M. bovis MLST typing scheme

Gene	Primer name	Primer sequence (5′ to 3′)	Product size (bp)	Analyzed sequence size (bp)	Nucleotide positions within gene^a	H^b	No. of alleles	No. of polymorphic sites	Z test result^c
dnaA	dnaA-F	TCAAATCGTGAAGTCGACAA	924	498	532–1029	0.51	11	28	d_N < d_S
dnaA	dnaA-R	CTTCCCAATTTGTTCCAGTG	924	498	532–1029	0.51	11	28	d_N < d_S
metS	metS-F	TCGGACAACTGATCCTAAGC	867	596	439–1009	0.79	12	29	NS
metS	metS-R	AATAGGCCTTCTGGGAAAGA	867	596	439–1009	0.79	12	29	NS
recA	recA-F	TCCTAAAGGCAGAATCGTTG	711	463	248–710	0.47	6	12	NS
recA	recA-R	TAAGCATATCAAGCGCCTTT	711	463	248–710	0.47	6	12	NS
tufA	tufA-F	TGATTACTGGTGCTGCTCAA	798	499	447–945	0.54	6	17	d_N > d_S
tufA	tufA-R	TTTCACCAGGTTGAACGAAT	798	499	447–945	0.54	6	17	d_N > d_S
atpA	atpA-F	TGTTGCTATATTTGGTAACGC	787	589	322–910	0.70	7	23	d_N < d_S
atpA	atpA-R	AACATTAGTAGGAATATAAGCTG	787	589	322–910	0.70	7	23	d_N < d_S
rpoD	rpoD-F	ATATTATGGATGAAGTTGATGC	861	600	381–980	0.74	11	21	d_N > d_S
rpoD	rpoD-R	CGCCATTTTCTTGTTGTAGC	861	600	381–980	0.74	11	21	d_N > d_S
tkt	tkt-F	CATGTGAATATAAATGCACTGC	677	394	743–1136	0.76	9	30	d_N < d_S
tkt	tkt-R	TGATAAGGCAATTACTGAAGC	677	394	743–1136	0.76	9	30	d_N < d_S

Based on the complete genome of M. bovis strain PG45.

H, genetic diversity.

d_N < d_S, test for purifying selection statistically significant; d_N > d_S, test for positive selection statistically significant; NS, no statistical significance found.