Next generation sequencing analysis of nine Corynebacterium ulcerans isolates reveals zoonotic transmission and a novel putative diphtheria toxin-encoding pathogenicity island

Table 3 C. ulcerans genome usually encode several Prophages

Isolate	Prophage identifier	Prophage size (kb)	Possible derivate of	Virulence factor	CDS	G + C content	Position (bp)	Att	Identity with other isolate of pair	Reference
KL246	I	18.2	Corynephage_BFK20		18	52%	440890-459165	ND	100%
KL251	I	18.2	Corynephage_BFK20		18	52%	441088-459363	ND	100%
KL252	I	18.2	Corynephage_BFK20		18	52%	436472-454747	ND	100%
KL315	I	39.3	ΦCULC0102-I	Diphtheria toxin	28	55%	142798-182119	Yes	100%
KL318	I	39.0	ΦCULC0102-I	Diphtheria toxin	27	55%	291509-33059	Yes	100%
KL387	I	18.2	Corynephage_BFK20	Putative RhuM	18	52%	438665-456940	ND	ND
	II	39.8	Rhodococcus phage REQ2		50	54%	1898856-1938678	Yes	100%
	III	10.4	Mycobacterium phage Fishburne		17	52%	2527900-2538480	ND	92%
KL392	I	42.1	Rhodococcus phage REQ2		54	55%	1858755-1900873	Yes	100%
	II	10.4	Mycobacterium phage Fishburne		17	52%	2505077-2515476	ND	92%
102	I	38.3	ΦCULC0102-I	Diphtheria toxin	26	54%	168523-206883	Yes		[24]
	II	21.4	ΦCULC0102-II		18	52%	536771-558192	ND		[24]
	III	39.4	ΦCULC0102-III		22	57%	1377963-1417370	Yes		[24]
BR-AD22	I	42.0	ΦCULC22-I		42	53%	1299138-1338708	ND		[34]
	II	44.9	ΦCULC22-II		60	55%	1853009-1877311	Yes		[34]
	III	14.0	ΦCULC22-III		19	57%	1963728-1986514	Yes		[34]
	IV	41.0	ΦCULC22-IV		53	54%	2134999-2156991	Yes		[34]
809	I	41.4	ΦCULC809-I		45	53%	1295507-1335046	ND		[34]
FRC58	I	29.4	Mycobacterium phage Fishburne		52	53%	2493492-2522907	Yes		[49]

Prophages are as annotated by PHAST [48] or in [24],[34]. Given are the isolate and prophage identifiers, the predicted prophage size and the name of the prophage sharing the highest similarity with the predicted prophage. The shared identity of the prophage with the corresponding pair isolate is given as a percentage. The prophage KL387-III was not predicted by PHAST, most likely due to a contig boundary. However, the alignment with KL392-III clearly identified the prophage region KL387-III with 100% identity. KL387-I was blasted versus the whole genome data of KL392 but no similarity was identified, arguing against a false negative detection of this prophage in the KL392 genome. Att.: predicted attachment site of the phage. CDS, coding sequence.

ISSN: 1756-994X