TABLE 2.
Analysis of norovirus recombinant strains in pediatric patients with acute gastroenteritis in Chiang Mai, Thailand from 2017 to 2018
| Sample code | Norovirus genotypes |
Reference strains used for Simplot analysis (accession no.) |
Predicted recombination nt positions | Breakpoint on ORF |
P-value (Bootscan) |
||
|---|---|---|---|---|---|---|---|
| ORF1 (RdRp) | ORF2 (VP1) | RdRp genotype | VP1 genotype | ||||
| CMH-S087-17 | GII.P7 | GII.6 | GII.14[P7] (GU017903) | GII.6[P6] (AB039779) | 4959 | ORF1 | 4.9 × 10−6 |
| CMH-N101-18 | GII.P7 | GII.6 | 4936 | ORF1 | 1.8 × 10−3 | ||
| CMH-ST002-18 | GII.P7 | GII.7 | GII.7[P7] (KJ196295) | GII.7[P7] (AF414409) | No evidence of recombination | ||
| CMH-S172-18 | GII.P7 | GII.14 | GII.6[P7] (AB039777) | GII.14[P7] (KM289171) | 4949 | ORF1 | 1.1 × 10−10 |
| CMH-ST116-18 | GII.P7 | GII.14 | 4949 | ORF1 | 3.4 × 10−8 | ||
| CMH-R057-18 | GII.P7 | GII.14 | 4939 | ORF1 | 1.3 × 10−6 | ||
| CMH-S093-18 | GII.P16 | GII.13 | GII.16[P16] (AY772730) | GII.13[P13] (EU921354) | 5110 | ORF2 | 1.1 × 10−10 |
| CMH-S115-18 | GII.P16 | GII.13 | 5125 | ORF2 | 9.2 × 10−5 | ||
| CMH-S116-18 | GII.P16 | GII.13 | 5125 | ORF2 | 9.2 × 10−5 | ||
| CMH-R025-18 | GII.P16 | GII.13 | 5122 | ORF2 | 5.4 × 10−11 | ||
| CMH-R044-18 | GII.P16 | GII.13 | 5125 | ORF2 | 7.2 × 10−11 | ||
| CMH-R053-18 | GII.P16 | GII.13 | 5125 | ORF2 | 1.3 × 10−9 | ||
| CMH-R060-18 | GII.P16 | GII.13 | 5125 | ORF2 | 5.7 × 10−10 | ||
| CMH-S021-17 | GII.P16 | GII.2 | GII.16[P16] (AY772730) | GII.2[P2] (X81879) | 5049 | ORF1 | 8.7 × 10−12 |
| CMH-S022-17 | GII.P16 | GII.2 | 5049 | ORF1 | 3.9 × 10−12 | ||
| CMH-S025-17 | GII.P16 | GII.2 | 5049 | ORF1 | 3.0 × 10−11 | ||
| CMH-S026-17 | GII.P16 | GII.2 | 5029 | ORF1 | 3.2 × 10−12 | ||
| CMH-S029-17 | GII.P16 | GII.2 | 5049 | ORF1 | 3.0 × 10−11 | ||
| CMH-S030-17 | GII.P16 | GII.2 | 5049 | ORF1 | 7.8 × 10−11 | ||
| CMH-S031-17 | GII.P16 | GII.2 | 5049 | ORF1 | 3.0 × 10−11 | ||
| CMH-S033-17 | GII.P16 | GII.2 | 5039 | ORF1 | 7.4 × 10−12 | ||
| CMH-S035-17 | GII.P16 | GII.2 | 5039 | ORF1 | 5.8 × 10−13 | ||
| CMH-S122-18 | GII.P16 | GII.2 | 5039 | ORF1 | 8.4 × 10−11 | ||
| CMH-S177-18 | GII.P16 | GII.2 | 5039 | ORF1 | 1.4 × 10−12 | ||
| CMH-R058-18 | GII.P16 | GII.2 | 5039 | ORF1 | 9.9 × 10−13 | ||
| CMH-S057-18 | GII.P16 | GII.3 | GII.16[P16] (AY772730) | GII.3[P3] (U02030) | 5130 | ORF2 | 8.7 × 10−10 |
| CMH-ST103-18 | GII.P16 | GII.3 | 5100 | ORF1/2 | 1.5 × 10−9 | ||
| CMH-N013-17 | GII.P16 | GII.4 | GII.16[P16] (AY772730) | GII.4[P4] (KC013592) | 5100 | ORF1/2 | 9.2 × 10−14 |
| CMH-S079-18 | GII.P16 | GII.4 | 5090 | ORF1/2 | 1.3 × 10−10 | ||
| CMH-N002-18 | GII.P16 | GII.4 | 5049 | ORF1 | 1.3 × 10−13 | ||
| CMH-N010-18 | GII.P16 | GII.4 | 5090 | ORF1/2 | 6.7 × 10−11 | ||
| CMH-N016-18 | GII.P16 | GII.4 | 5090 | ORF1/2 | 6.6 × 10−11 | ||
| CMH-N020-18 | GII.P16 | GII.4 | 5100 | ORF1/2 | 1.1 × 10−11 | ||
| CMH-N033-18 | GII.P16 | GII.4 | 5090 | ORF1/2 | 7.5 × 10−11 | ||
| CMH-N039-18 | GII.P16 | GII.4 | 5069 | ORF1 | 9.2 × 10−14 | ||
| CMH-ST095-18 | GII.P16 | GII.4 | 5100 | ORF1/2 | 3.8 × 10−11 | ||
| CMH-ST111-18 | GII.P17 | GII.17 | GII.17[P17] (AB983218) | GII.17[P17] (LC043167) | No evidence of recombination | ||
| CMH-S118-17 | GII.P31 | GII.4 | GII.4[P31] (AB541319) | GII.4[P4] (KC013592) | 5165 | ORF2 | 3.5 × 10−2 |
| CMH-S062-18 | GII.P31 | GII.4 | 5145 | ORF2 | 3.8 × 10−2 | ||
| CMH-ST023-18 | GII.P31 | GII.4 | 5105 | ORF2 | 1.7 × 10−2 | ||
| CMH-ST254-18 | GII.P31 | GII.4 | 5145 | ORF2 | 5.8 × 10−3 | ||
| CMH-ST258-18 | GII.P31 | GII.4 | 5145 | ORF2 | 2.1 × 10−3 | ||
| CMH-R144-18 | GII.P31 | GII.4 | 5119 | ORF2 | 2.2 × 10−3 | ||