TABLE 4.
Comparison of partial nucleotide sequences of 11 HEV isolates in groups A to C obtained in the present study among each other and with those of 21 human and swine HEV isolates whose entire or nearly entire genomic sequence is known
| Isolate and genotype (accession no.) | % Nucleotide sequence identity
|
|||||
|---|---|---|---|---|---|---|
| Group A
|
Group B
|
Group C
|
||||
| ORF1 (412 nt) | ORF2 (412 nt) | ORF1 (412 nt) | ORF2 (412 nt) | ORF1 (412 nt) | ORF2 (412 nt) | |
| Isolates obtained in this studya | ||||||
| Group A (four isolates) | 90.8-93.4 | 90.7-93.9 | ||||
| Group B (four isolates) | 88.6-90.5 | 87.1-89.1 | 92.5-98.8 | 93.7-98.5 | ||
| Group C (three isolates) | 80.0-82.2 | 78.0-79.6 | 79.3-81.1 | 78.5-79.8 | 88.8-90.5 | 88.3-91.2 |
| Known isolates | ||||||
| Genotype I (14 isolatesb) | 75.6-78.6 | 77.1-81.3 | 74.9-77.4 | 77.1-79.8 | 76.5-79.2 | 77.6-82.0 |
| Genotype II, MEX-14 (M74506) | 77.1-77.9 | 74.6-75.8 | 77.3-79.0 | 73.9-76.6 | 79.5-81.4 | 75.2-76.9 |
| Genotype III | ||||||
| US1 (AF060668) | 90.4-91.4c | 86.6-89.0 | 91.9-95.7c | 93.2-95.4 | 79.9-81.5c | 78.5-79.5 |
| US2 (AF060669) | 87.4-89.3 | 87.8-88.8 | 92.0-93.7 | 91.2-92.9 | 80.8-80.5 | 78.8-81.3 |
| swUS1 (AF082843) | 87.9-88.3 | 86.3-88.5 | 91.0-93.4 | 90.8-93.0 | 80.0-80.3 | 78.0-78.8 |
| JRA1 (AP003430) | 90.8-94.4 | 90.5-92.7 | 89.7-90.5 | 87.1-89.0 | 80.2-81.6 | 79.1-80.6 |
| swJ570 (AB073912) | 89.3-93.4 | 89.3-91.0 | 87.9-90.0 | 85.9-87.6 | 79.8-81.1 | 77.6-78.8 |
| Genotype IV, T1 (AJ272108) | 78.3-80.2 | 77.9-79.9 | 78.8-79.6 | 78.8-81.0 | 86.9-88.0 | 85.2-86.9 |
a
Group A comprises HE-JA5, HE-JA6, HE-JA9, and HE-JA11; group B comprises HE-JA4, HE-JA7, HE-JA8, and HE-JA10; and group C comprises HE-JA1, HE-JA2, and HE-JA3.
b
The accession numbers of the 14 isolates are AF051830, AF076239, AF185822, D10330, D11092, D11093, L08816, L25547, L25595, M73218, M80581, M94177, X98292, and X99441.
c
Compared within the sequence of 396 nt, since the 5′-terminal sequence is not available for the US1 isolate.