Molecular characterisation of Mycobacterium avium subsp. paratuberculosis in Australia

Hodgeman, Rachel; Mann, Rachel; Savin, Keith; Djitro, Noel; Rochfort, Simone; Rodoni, Brendan

doi:10.1186/s12866-021-02140-2

BMC Microbiology

Table 1 Map isolates that generated inconsistent typing results. The Map K10 and Map Telford reference strains are included for comparison

From: Molecular characterisation of Mycobacterium avium subsp. paratuberculosis in Australia

Isolate	Host	Mycobactin Dependency	IS900^a PCR	IS1311 PCR Result	IS1311 Sequencing Result	LSP-20^b	LSP-18^b	LSP-4^b	LSP Strain Type Result	Phylogenetic Cluster	No. of SNP’s compared to K10 reference	ANI percentage identity compared to K10 reference	SNP based assay of Leao et al [13]
Map K10^c	Bovine	NT^e	+	Type C	Type C	+	–	–	Type C	Type C	0	0.999	Type C
Map Telford^d	Ovine	NT^f	+	Type S	Type S	–	+	+	Type S	Type S	1533	0.998	Type S
MAP-150	Bovine	+	+	Type B	Type C	+	–	–	Type C	Type C	33	0.999	Type C
MAP-320	Ovine	+	+	Type S	Type S	–	+	+	Type S	Type S	1506	0.998	Type C
MAP-322	Ovine	+	+	Type S	Type C	+	–	–	Type C	Type C	40	0.999	Type C
MAP-323	Ovine	+	+	Type S	Type S	–	+	+	Type S	Type S	1508	0.998	Type C
MAP-328	Ovine	+	+	Type S	Type S	–	+	+	Type S	Type S	1512	0.998	Type C
MAP-339	Ovine	+	+	Type C	Type S	–	+	+	Type S	Type S	1506	0.998	Type S
MAP-340	Bovine	+	+	Type C	Type S	–	+	+	Type S	Type S	1511	0.998	Type S
MAP-350	Ovine	+	+	Type S	Type C	+	–	–	Type C	Type C	33	0.999	Type C
MAP-372	Ovine	+	+	Type S	Type S	–	+	+	Type S	Type S	1505	0.998	Type C
MAP-403	Bovine	+	+	Type S	Type C	+	–	–	Type C	Type C	42	0.999	Type C
MAP-551	Ovine	+	+	Type S	Type S	–	+	+	Type S	Type S	1507	0.998	Type C
MAP-552	Ovine	+	+	Type S	Type S	–	+	+	Type S	Type S	1501	0.998	Type C
MAP-554	Bovine	+	+	Type C	Type S	–	+	+	Type S	Type S	1491	0.998	Type S
MAP-555	Ovine	+	+	Type S	Type C	+	–	–	Type C	Type C	60	0.999	Type C
MAP-556	Ovine	+	+	Type S	Type S	–	+	+	Type S	Type S	1510	0.998	Type C
MAP-557	Ovine	+	+	Type S	Type S	–	+	+	Type S	Type S	1511	0.998	Type C
MAP-571	Ovine	+	+	Type S	Type S	–	+	+	Type S	Type S	1514	0.998	Type C
MAP-588	Ovine	+	+	Type S	Type S	–	+	+	Type S	Type S	1503	0.998	Type C
MAP-598	Ovine	+	+	Type S	Type S	–	+	+	Type S	Type S	1512	0.998	Type C
MAP-612	Caprine	+	+	Type C	Type S	–	+	+	Type S	Type S	1513	0.998	Type S
MAPMRI085	Bovine	NT	+	Type C	Type S	+	+	+	–	Type S	1463	0.998	Type S
SRR1793685	Bovine	NT	+	Type C	Type B	+	–	–	Type C	Type B	290	0.999	Type C
MAPMRI049	Ovine	NT	+	Type S	Type S	–	+	+	Type S	Type S	1442	0.998	Type C
MAPMRI058	Caprine	NT	+	Type S	Type S	–	+	+	Type S	Type S	1474	0.998	Type C
MAPMRI074	Bovine	NT	+	Type S	Type C	+	–	–	Type C	Type C	440	0.999	Type C
MAPMRI083	Cervine	NT	+	Type S	Type S	–	+	+	Type S	Type S	739	0.998	Type C
MAPMRI051	Ovine	NT	+	Type S	Type S	–	+	+	Type S	Type S	1464	0.998	Type C
MAPMRI094	Ovine	NT	+	Type S	Type S	–	+	+	Type S	Type S	88	0.998	Type C

^aIS900 PCR is reported to be specific for identifying Map
^b LSP-20 is present in type C strain and absent in type S, LSP-18 is present in type S strain and absent in type C strain, LSP-4 is present in type S strain and absent in type C
^cMap K10 reference strain (NC_002944.2), IS900 PCR and IS1311 PCR and REA results were obtained from published data [33, 34]
^dMap Telford reference strain (NZ_CPO33688.1), IS900 PCR and IS1311 PCR and REA results obtained from published data [35]. Type strains included for comparative purposes
^e+ = positive result, − = negative result, blank space = result unknown
^fNT = Not tested in this study

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