Investigation of a Carbapenemase-producing Acinetobacter baumannii outbreak using whole genome sequencing versus a standard epidemiologic investigation

Table 1 Single nucleotide variant (SNV) differences between outbreak strains

			SNV Analysis
Year	Identifier	PFGE Pulsovar	Pseudo-alignment	Difference in SNVs from Index Case
2012	1	A5-c	CGCAAGCTTCTGGTTTAACC	Index case
	2	A	CACAAGACTCTGGTTCAACC	4
	3	A5	CGCAAGACTCTGGTTTAACC	2
	4	A4	CGCCAGCTTCTGATTTAACC	2
2013	5	A5	CGCAAGACTCTGGTTTAACC	2
	6	A5	CGCAAGACTCCGGTTTAACC	3
	7	A5	CGCAAGACTCCGGTTTAACC	3
	8	A5	CGCAAGACTCCGGTGTAACC	4
	9	A5	CGCAAGACTCCGGTTTAGCC	4
	10	A5	CGCAAGACTCCGGTTTAACC	3
	11	A5	CGCAAGACCCTAGTTTAACC	4
	12	A5	CGCAAGACTCCGGTTTAACC	3
	13	A4	CGCATAACTCCGGTTTAACC	5
	14	A6	CGCAAAACTCCGGTTTAACC	4
	15	A4	CGCATAACTCCGGTTTAACC	5
	16	A6	CGCATAACTCCGGTTTAACC	5
	17	A5	CGCAAGACTCTGGTTTAACC	2
	18	A5	TGTAAGACTCTGGTTTAACC	4
	19	A5-a	CGCAAGACTCTGGTTTAACC	2
	20	A5-a	CGCAAGACTCTGGTTTAACC	2
	21	A5-a	CGCAAGACTCTGGTTTAACC	2
	22	A5-a	CGCAAGACTCTGGTTTAACC	2
	23	A5-a	CGCAAGACTCTGGTTTAACC	2
	24	A5	TGTAAGACTCTGGTTTAACC	4
	25	A5	CGCAAGACTCTGGTTTAATC	3
	26	A5	TGTAAGACTCTGGTTTAACC	4
	27	A5	TGTAAGACTCTGGTTTAACC	4
2014	28	A6	CGCAAGACTCTGGATTCACC	4

Bolded letters represent a SNV difference compared to the index case
Abbreviations: SNV, single nucleotide variants; PFGE, pulsed-field gel electrophoresis; Q, quarter

ISSN: 2047-2994