Bacterial species associated with interdigital phlegmon outbreaks in Finnish dairy herds

BMC Veterinary Research

Table 2 PCR oligos and reaction conditions of a study of interdigital phlegmon outbreaks in Finnish dairy herds

PCR assay	Oligos	Annealing temperature (°C)	PCR product (bp)	Reference
Dichelobacter nodosus	16S(F2): CGGGGTTATGTAGCTTGC	60	783	[43]
	16S(R2): TCGGTACCGAGTATTTCTACCCAACACCT	60	783	[43]
F. necrophorum leucotoxin	LT3 F: GGAGTAAGAGCAACTATGGGAGCAGCTAC	60	360	[44]
	LT3 R: CCCAATCCACCTTTTACAGCAGCTCG	60	360	[44]
F. necrophorum hemagglutinin	HAEM F: CATTGGGTTGGATAACGACTCCTAC	55	286	[45]
	HAEM R: CAATTCTTTGTCTAAGATGGAAGCGG	55	286	[45]
Trueperella pyogenes pyolysin	PLO F: TCATCAACAATCCCACGAAGAG	60	150	[46]
	PLO R: TTGCCTCCAGTTGACGCTTT	60	150	[46]
Universal 16S	27f YM: 5’-AGAGTTTGATYMTGGCTCAG-3′	53	~ 1500	[47]
	1492 r: 5’-TACCTTGTTACGACTT-3′	53	~ 1500	[47]
Porphyromonas levii
PORP01F01	GACCAAATCGTCGTACTTGACAAA	66.2	75
PORP01R01	GCCTCGGCTGGCAGTAAG	66.4
PORP01P01FAM	ACTCTCATGGTTGCCTACTTCTACAATCTTTCC	71.3
Prevotella melaninogenica
PREV01F01	CCCGGCTGTTTAGAATACTTTGTCA	67.8	152
PREV01R02	CTTTGCATGGGTGGTGTTGAT	67.2
PREV01P01FAM	AATTAATCGTCGTCCGATATCACCACATACAGAG	73.4
Treponemas
Group 1 (T. medium/T. vincentii –like)	TmF 5′-GAATGCTCATCTGATGACGGTAATCGACG-3′	68	472–500	[21]
	TmR 5′-CCGGCCTTATCTAAGACCTTCTACTAG-3′	68	472–500	[21]
Group 2 (T. phagedenis-like)	TbF 5′-GAAATACTCAAGCTTAACTTGAGAATTGC-3′	64	400	[21]
	TbR 5′-CTACGCTACCATATCTCTATAATATTGC-3′	64	400	[21]
Group 3 (T. denticola /T. putidum-like)	TpF 5′-GGAGATGAGGGAATGCGTCTTCGATG-3′	67	475	[21]
	TpR 5′-CAAGAGTCGTATTGCTACGCTGATATATC-3′	67	475	[21]
Universal 16S	16S F 5′-AGAGTTTGATCCTGG-3′	57	1526	[48]
	16S R 5′-TACCTTGTTACGACTT-3′	57	1526	[48]

ISSN: 1746-6148