Genetic Variation of SARS Coronavirus in Beijing Hospital

Genetic Variation of SARS Coronavirus in Beijing Hospital

Dong-ping XU, Zheng Zhang, Fuliang Chu, Yonggang Li, Lei JIN, Lingxia Zhang, George F. Gao, Fu-sheng WANG

To characterize genetic variation of severe acute respiratory syndrome–associated coronavirus (SARS-CoV) transmitted in the Beijing area during the epidemic outbreak of 2003, we sequenced 29 full-length S genes of SARS-CoV from 20 hospitalized SARS patients on our unit, the Beijing 302 Hospital. Viral RNA templates for the S-gene amplification were directly extracted from raw clinical samples, including plasma, throat swab, sputum, and stool, during the course of the epidemic in the Beijing area. We used a TA-cloning assay with direct analysis of nested reverse transcription–polymerase chain reaction products in sequence. One hundred thirteen sequence variations with nine recurrent variant sites were identified in analyzed S-gene sequences compared with the BJ01 strain of SARS-CoV. Among them, eight variant sites were, we think, the first documented. Our findings demonstrate the coexistence of S-gene sequences with and without substitutions (referred to BJ01) in samples analyzed from some patients.

2004

SARS-coronavirus, Genetic variation, quasispecies, spike glycoprotein gene, China

DOI: 10.3201/eid1005.030875

Emerging Infectious Diseases

Centers for Disease Control and Prevention

Infectious and parasitic diseases, Medicine

EN