Volume 11, Number 12—December 2005
Research
SARS-CoV Infection in a Restaurant from Palm Civet
Table 2
Comparison of signature nucleotide variations in the spike (S) gene of SARS-CoV from various sources*
Virus | Source | Signature nucleotide variation position of S gene† |
||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
2 | 2 | 2 | 2 | 2 | 2 | 2 | 2 | 2 | 2 | 2 | 2 | 2 | 2 | 2 | 2 | 2 | 2 | 2 | 2 | 2 | ||
1 | 2 | 2 | 2 | 2 | 2 | 2 | 2 | 2 | 2 | 2 | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 4 | 4 | 5 | ||
9 | 5 | 5 | 5 | 8 | 8 | 9 | 9 | 9 | 9 | 9 | 3 | 3 | 3 | 4 | 7 | 7 | 8 | 5 | 9 | 0 | ||
0 | 1 | 2 | 7 | 7 | 7 | 0 | 2 | 2 | 3 | 5 | 1 | 1 | 3 | 8 | 1 | 8 | 2 | 6 | 7 | 3 | ||
7 | 7 | 2 | 0 | 4 | 5 | 6 | 7 | 8 | 0 | 1 | 6 | 7 | 0 | 5 | 9 | 5 | 3 | 6 | 8 | 1 | ||
Civet007 | Civet, restaurant | T | G | G | C | T | T | C | G | A | G | G | T | T | A | C | G | T | G | C | G | C |
Civet010 | Civet, restaurant | T | G | G | C | T | T | C | G | A | G | G | T | T | A | C | G | T | G | C | G | C |
Civet019 | Civet, restaurant | T | G | G | C | T | T | C | G | A | G | G | T | T | A | C | G | T | G | C | G | C |
Civet020 | Civet, restaurant | T | G | G | C | T | C | C | G | A | G | G | T | T | A | C | G | T | G | C | G | C |
Civet014 | Civet, restaurant | T | G | G | C | T | C | C | A | A | G | G | T | T | A | C | G | T | G | C | G | C |
Waitress | Patient 2, waitress | G | A | G | G | |||||||||||||||||
Customer | Patient 4, customer | G | A | G | G | |||||||||||||||||
GD03T0013 | Patient 1 | T | G | G | C | T | C | C | A | T | G | G | T | T | A | C | G | T | G | C | G | C |
SZ3 | Civet, market | C | G | G | C | C | C | T | A | A | A | G | G | C | T | C | C | C | G | C | G | T |
SZ16 | Civet, market | C | G | G | C | C | C | T | A | A | A | G | G | C | T | C | C | C | G | C | G | T |
GZ60 | Early phase | C | G | G | T | C | C | T | A | T | A | C | G | C | T | C | C | C | G | T | A | T |
HGZ8L1-A | Early phase | C | G | G | T | C | C | T | A | T | A | C | G | C | T | T | C | C | G | T | A | T |
ZS-A | Early phase | C | G | G | T | C | C | T | A | T | A | C | G | C | T | T | C | C | G | T | A | T |
ZS-B | Early phase | C | G | G | T | C | C | T | A | T | A | C | G | C | T | T | C | C | G | T | A | T |
ZS-C | Early phase | C | G | G | T | C | C | T | A | T | A | C | G | C | T | T | C | C | G | T | A | T |
GD01 | Early phase | C | G | G | T | C | C | T | A | T | A | C | G | C | T | T | C | C | G | C | A | T |
GZ02 | Early phase | C | G | G | T | C | C | T | A | T | A | C | G | C | T | T | C | C | G | T | G | T |
HSZ-Bb | Early phase | C | A | A | T | C | C | T | A | T | A | C | G | C | T | T | C | C | G | T | G | T |
HSZ-Bc | Early phase | C | A | A | T | C | C | T | A | T | A | C | G | C | T | T | C | C | G | T | G | T |
HSZ-Cb | Early phase | C | A | A | T | C | C | T | A | T | A | C | G | C | T | T | C | C | G | T | G | T |
HSZ-Cc | Early phase | C | A | A | T | C | C | T | A | T | A | C | G | C | T | T | C | C | G | T | G | T |
GZ50 | Middle phase | C | A | A | T | C | C | T | A | T | A | C | G | C | T | T | C | C | T | T | A | T |
BJ01 | Late phase | C | A | A | T | C | C | T | A | T | A | C | G | C | T | T | C | C | T | T | A | T |
BJ03 | Late phase | C | A | A | T | C | C | T | A | T | A | C | G | C | T | T | C | C | T | T | A | T |
HKU-36871 | Late phase | C | A | A | T | C | C | T | A | T | A | C | G | C | T | T | C | C | T | T | A | T |
HKU-39849 | Late phase | C | A | A | T | C | C | T | A | T | A | C | G | C | T | T | C | C | T | T | A | T |
HKU-65806 | Late phase | C | A | A | T | C | C | T | A | T | A | C | G | C | T | T | C | C | T | T | A | T |
CUHK-W1 | Late phase | C | A | A | T | C | C | T | A | T | A | C | G | C | T | T | C | C | T | T | A | T |
CUHK-Su10 | Late phase | C | A | A | T | C | C | T | A | T | A | C | G | C | T | T | C | C | T | T | A | T |
Fra | Late phase | C | A | A | T | C | C | T | A | T | A | C | G | C | T | T | C | C | T | T | A | T |
Tor2 | Late phase | C | A | A | T | C | C | T | A | T | A | C | G | C | T | T | C | C | T | T | A | T |
Urbani | Late phase | C | A | A | T | C | C | T | A | T | A | C | G | C | T | T | C | C | T | T | A | T |
*Blank spaces indiate information not available. Early, middle, and late phases indicate when virus was isolated from patients in various stages of the 2003 epidemic. SARS-CoV, severe acute respiratory syndrome.
†Numbers indicate position of signature nucleotide variations on the virus genome based on SARS-CoV Tor2 numbering. The 4 signature nucleotide variations in 286-bp S gene sequences for isolates from 2 restaurant-related patients were identical to 4 of 5 S gene sequences of palm civets at the restaurant.
1These authors contributed equally to this article.