Table 6.

Assignment of genetic profiles according to the different typing schemes for strains initially belonging to the lineage D.

Strain ID	Isolation Source	Year of isolation	ST – gyrA – porA – Extended MLST	CT – cgMLST SeqSphere+	Genotype – cgMLST Oxford	L1:L2:L3 – cgMLST INNUENDO	Genotype – wgMLST INNUENDO
Camp082	V	2017	6175 – 9 – 1625	543	Ox4	41:68:27	wg4
Camp083	H	2017	6175 – 9 – 1625	543	Ox4	41:68:27	wg4
Camp081	H	2017	6175 – 9 – 1625	543	Ox4	41:68:27	wg4
Camp084	MA	2017	6175 – 9 – 1625	543	Ox4	41:68:27	wg4
Camp080	H	2017	6175 – 9 – 1625	543	Ox4	41:68:27	wg4
Camp085	H	2018	6175 – 9 – 1625	543	Ox4	41:68:27	wg4
Camp086	V	2018	6175 – 9 – 1625	543	Ox4	41:68:27	wg4
Camp087	H	2018	6175 – 9 – 1625	543	Ox4	41:68:27	wg4
Camp089	H	2018	6175 – 9 – 1625	543	Ox4	41:68:27	wg4
Camp088	H	2018	6175 – 9 – 1625	543	Ox7	2724:68:27	wg14

In the column Isolation Source, H refers to clinical samples, MA to mammals (cattle and sheep), V to poultry and SW to surface waters.

ST, Sequence Type; CT, Complex Type; MLST, Multi Locus Sequence Typing; cg, core genome; wg, whole genome.