TABLE 1.
Core-genome multilocus sequence type groups containing two isolates
| cgMLST typea | Region(s)b | Yr(s) | Pulsotype(s)c | Maximum no. of differencesd |
|
|---|---|---|---|---|---|
| cgMLST | wgMLST | ||||
| L1-SL2-ST2-CT4548 | L, M | 2012, 2013 | Asc0023:Apa0031, NT | 0 | 0 |
| L2-SL321-ST321-CT5870 | B, C | 2001 | Asc0051:Apa0032 | 0 | 0 |
| L1-SL4-ST4-CT5903 | F | 2009 | Asc0021:Apa0023 | 0 | 0 |
| L1-SL1-ST1-CT5954 | B, C | 2005, 2005 | Asc0058:Apa0005 | 0 | 0 |
| L1-SL220-ST220-CT5993 | F, I | 2009 | Asc0036:Apa0039 | 0 | 0 |
| L1-SL1-ST1-CT3416 | S | 2010, 2011 | Asc0045:Apa007 | 0 | 1 |
| L1-SL4-ST4-CT4534 | C, E | 2011 | Asc0021:Apa0023 | 0 | 2 |
| L1-SL1-ST1-CT5963 | S | 2001 | Asc0078:Apa0006 | 0 | 2 |
| L1-SL1-ST1-CT5950 | C, D | 2007 | Asc0045:Apa0152 | 1 | 1 |
| L2-SL8-ST120-CT5874 | Q | 2001 | Asc0002:Apa0002 | 1 | 2 |
| L2-SL7-ST7-CT5986 | B, D | 2006, 2007 | Asc0015:Apa0026 | 1 | 2 |
| L1-SL2-ST2-CT3414 | H | 2012, 2013 | Asc0023:Apa0031 | 1 | 4 |
| L2-SL37-ST37-CT4583 | D | 2011, 2017 | Asc0055a:Apa0057, NT | 3 | 5 |
| L2-SL155-ST155-CT2607 | E, G | 2003, 2004 | Asc0126:Apa0041 | 3 | 11 |
| L1-SL1-ST1-CT4552 | B, D | 2011, 2012 | Asc0040:Apa0045, Asc0040:Apa, NT | 4 | 6 |
| L1-SL2-ST2-CT5917 | C, F | 2002 | Asc0023:0031 | 5 | 8 |
| L1-SL2-ST2-CT5936 | C, J | 2004, 2008 | Asc0063:Apa0012, Asc0077:Apa0012 | 5 | 12 |
| L1-SL220-ST220-CT4597 | B, D | 2000, 2011 | Asc0036:Apa0039 | 5 | 13 |
| L2-SL155-ST155-CT4611 | E, F | 2011 | Asc0055a:Apa0057, Asc0044:Apa0045 | 7 | 9 |
| L2-SL14-ST14-CT4622 | E, G | 2011, 2012 | Asc0050:Apa0046, Asc0059:Apa0046a | 7 | 11 |
| L2-SL155-ST155-CT4608 | O, Q | 2015, 2016 | Asc0037:Apa0044, NT | 9 | 16 |
| L1-SL2-ST2-CT5934 | B, C | 1999, 2009 | Asc0023:Apa0071, Asc0082:Apa0129 | 9 | 23 |
| L2-SL321-ST321-CT4591 | B | 2007, 2014 | Asc00001:Apa0055 | 6 | 8 |
| L2-SL14-ST14-CT6025 | F, T | 2004, 2010 | Asc0038:Apa0046 | 6 | 10 |
| L2-SL101-ST101-CT6007 | D, NS | 2000, 2001 | Asc007:Apa0042, Asc0006:Apa0056 | 6 | 12 |
| L2-SL204-ST204-CT638 | B, R | 2006, 2013 | Asc0055:Apa0096, Asc0055:Apa0107 | 13 | 28 |
a
The lineage (L)-sublineage (SL)-multilocus sequence type (ST)-core genome multilocus sequence types (CTs) were inferred from WGS data and defined by using international nomenclature (13).
b
Regions within New Zealand that have been anonymized. NS, no region stated for the case.
c
Pulsotype assigned as a part of the PulseNet New Zealand/Aotearoa database. NT, not tested.
d
Maximum allele differences observed for isolates within a cgMLST type using cgMLST and whole-genome MLST.