TABLE 2.
Description of strains examined
| Isolate | Serotype detected bya
: |
cpsK sequenceb | Sequencing methodc | Date of isolation | Species | Age | Tissue | MLSTd | |
|---|---|---|---|---|---|---|---|---|---|
| Multi-PCR | PCR-RFLP | ||||||||
| S1 reference strain | 1 or 14 | 1 | ggtggcctgTaataaac | WGS | 13 | ||||
| S1/2 reference strain | 2 or 1/2 | 1/2 | ggtggcctgTaataaac | WGS | 56 | ||||
| S2 reference strain | 2 or 1/2 | 2 | ggtggcctgGaataaac | WGS | 1 | ||||
| S14 reference strain | 1 or 14 | 14 | ggtggcctgGaataaac | WGS | 6 | ||||
| 3/18/Ji/376 | 2 or 1/2 | 2 | ggtggcctgGaataaac | WGS, S | 16 January 2018 | Pig | 25 days | Lung | 28 |
| 10/18/Ji/830 | 2 or 1/2 | 2 | ggtggcctgGaataaac | WGS, S | 26 January 2018 | Pig | Lung | 28 | |
| 11/18/Ji/830 | 2 or 1/2 | 2 | ggtggcctgGaataaac | WGS, S | 26 January 2018 | Pig | Spleen | 28 | |
| 13/18/Ji/1670 | 2 or 1/2 | 1/2 | ggtggcctgCaataaac | WGS, S | 7 February 2018 | Pig | 40 days | Lung | 28 |
| 36/18/Ji/3895 | 2 or 1/2 | 1/2 | ggtggcctgTaataaac | S | 20 March 2018 | Pig | 14 days | Brain | 28 |
| 55/18/Ji/6714 | 1 or 14 | 1 | ggtggcctgTaataaac | S | 9 May 2018 | Pig | 7 days | Brain | 1 |
| 62/18/Ji/8065 | 2 or 1/2 | 1/2 | ggtggcctgTaataaac | S | 6 June 2018 | Pig | 28 days | Spleen | 7 |
| 63/18/Ji/7649 | 2 or 1/2 | 1/2 | ggtggcctgCaataaac | S | 6 June 2018 | Pig | Nasal swab | 28 | |
| 74/18/Ji/10270 | 1 or 14 | 1 | ggtggcctgTaataaac | S | 25 June 2018 | Pig | 10 days | Brain | 11 |
| 75/18/Ji/10270 | 1 or 14 | 1 | ggtggcctgTaataaac | S | 22 June 2018 | Pig | 10 days | Joint | 11 |
| 78/18/Ji/12432 | 2 or 1/2 | 2 | ggtggcctgGaataaac | S | 9 August 2018 | Pig | 75 days | Lung | 1 |
| 94/18/Ji/13557 | 2 or 1/2 | 2 | ggtggcctgGaataaac | S | 5 September 2018 | Pig | Lung | 28 | |
| 104/18/Ji/15350 | 2 or 1/2 | 1/2 | ggtggcctgTaataaac | S | 10 October 2018 | Pig | 14 days | Lymph node | 1 |
| 105/18/Ji/15351 | 2 or 1/2 | 1/2 | ggtggcctgCaataaac | S | 10 October 2018 | Pig | 20 days | Pericardium | 28 |
| 106/18/Ji/15351 | 2 or 1/2 | 1/2 | ggtggcctgCaataaac | S | 10 October 2018 | Pig | 20 days | Spleen | 28 |
| 107/18/Ji/15351 | 2 or 1/2 | 1/2 | ggtggcctgCaataaac | S | 10 October 2018 | Pig | 20 days | Lung | 28 |
| 119/18/Ji/16786 | 2 or 1/2 | 1/2 | ggtggcctgCaataaac | S | 8 November 2018 | Pig | 20 days | Joint | 28 |
| 120/18/Ji/16789 | 2 or 1/2 | 1/2 | ggtggcctgCaataaac | S | 8 November 2018 | Pig | 20 days | Lung | 28 |
| 124/18/Ji/18103 | 2 or 1/2 | 1/2 | ggtggcctgTaataaac | S | 5 December 2018 | Pig | 20 days | Nasal Swab | 28 |
| 125/18/Ji/18566 | 2 or 1/2 | 2 | ggtggcctgGaataaac | S | 13 December 2018 | Pig | Weaned piglet | Pericardium | 1 |
| 126/18/Ji/18567 | 2 or 1/2 | 2 | ggtggcctgGaataaac | S | 13 December 2018 | Pig | Weaned piglet | Brain | 1 |
| 131/18/Ji/18762 | 1 or 14 | 1 | ggtggcctgTaataaac | S | 19 December 2018 | Pig | 20 days | Brain | 1 |
| 132/18/Ji/18762 | 1 or 14 | 1 | ggtggcctgTaataaac | S | 19 December 2018 | Pig | 20 days | Lung | 1 |
| 141/19/JI/1352 | 2 or 1/2 | 2 | ggtggcctgGaataaac | S | 22 January 2019 | Pig | 68 days | Lymph node | 1 |
| 142/19/JI/1353 | 2 or 1/2 | 2 | ggtggcctgGaataaac | S | 22 January 2019 | Dog | Brain | 1 | |
| 143/19/JI/1352 | 2 or 1/2 | 2 | ggtggcctgGaataaac | S | 22 January 2019 | Pig | 68 days | Brain | 1 |
| 144/19/JI/1625 | 1 or 14 | 14 | ggtggcctgGaataaac | S | 24 January 2019 | Pig | Fattening pig | Heart | 13 |
| 145/19/JI/1634 | 1 or 14 | 14 | ggtggcctgGaataaac | S | 25 January 2019 | Pig | Weaned piglet | Brain | 17 |
| 149/19/JI/2993 | 1 or 14 | 1 | ggtggcctgTaataaac | S | 29 January 2019 | Pig | 19 days | Lymph node | 1 |
| 156/19/JI/3589 | 2 or 1/2 | 2 | ggtggcctgGaataaac | S | 19 February 2019 | Pig | 8 weeks | Lung | 28 |
| 159/19/JI/3959 | 2 or 1/2 | 2 | ggtggcctgGaataaac | S | 28 February2019 | Pig | Lung | 28 | |
| 163/19/JI/4739 | 2 or 1/2 | 2 | ggtggcctgGaataaac | S | 11 March 2019 | Pig | Fattening pig | Liver | 28 |
| 187/19/JI/10440 | 2 or 1/2 | 2 | ggtggcctgGaataaac | S | 19 June 2019 | Pig | Fattening pig | Brain | 1 |
| 188/19/JI/10440 | 2 or 1/2 | 2 | ggtggcctgGaataaac | S | 21 June 2019 | Pig | Fattening pig | Intestine | 1 |
| 189/19/JI/10440 | 2 or 1/2 | 2 | ggtggcctgGaataaac | S | 24 June 2019 | Pig | Fattening pig | Lymph node | 1 |
| 203/19/JI/11813 | 2 or 1/2 | 1/2 | ggtggcctgCaataaac | S | 18 July 2019 | Pig | Weaned piglet | Lung | 28 |
| 211/19/JI/14336 | 2 or 1/2 | 1/2 | ggtggcctgTaataaac | S | 28 August 2019 | Chicken | 1 day | Yolk sac | 28 |
| 213/19/JI/14852 | 2 or 1/2 | 1/2 | ggtggcctgTaataaac | S | 4 September 2019 | Pig | 40 days | Heart | 28 |
| 214/19/JI/14881 | 2 or 1/2 | 2 | ggtggcctgGaataaac | S | 4 September 2019 | Pig | 55 days | Lung | 28 |
a
Multi-PCR, multiplex PCR for detecting capsular polysaccharide synthesis genes (10).
b
Nucleotide position 483 of the cpsK gene is indicated in uppercase, and the BstNI recognition site is underlined.
c
WGS, whole-genome sequence; S, Sanger sequence of cpsK PCR product.
d
MLST, multilocus sequence type.