Imperial College London
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Professor Nuno R. Faria

Faculty of Medicine, School of Public Health

Professor in Virus Genomic Epidemiology
 
 
 
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Contact

 

+44 (0)20 7594 3560n.faria

 
 
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Location

 

Sir Alexander Fleming BuildingSouth Kensington Campus

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Summary

 

Publications

Citation

BibTex format

@article{Lu:2020:10.1101/2020.04.01.20047076,
author = {Lu, J and Plessis, LD and Liu, Z and Hill, V and Kang, M and Lin, H and Sun, J and François, S and Kraemer, MUG and Faria, NR and McCrone, JT and Peng, J and Xiong, Q and Yuan, R and Zeng, L and Zhou, P and Liang, C and Yi, L and Liu, J and Xiao, J and Hu, J and Liu, T and Ma, W and Li, W and Su, J and Zheng, H and Peng, B and Fang, S and Su, W and Li, K and Sun, R and bai, R and Tang, X and Liang, M and Quick, J and Song, T and Rambaut, A and Loman, N and Raghwani, J and Pybus, OG and Ke, C},
doi = {10.1101/2020.04.01.20047076},
title = {Genomic epidemiology of SARS-CoV-2 in Guangdong Province, China},
url = {http://dx.doi.org/10.1101/2020.04.01.20047076},
year = {2020}
}
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RIS format (EndNote, RefMan)

TY  - JOUR
AB  - <jats:title>Summary</jats:title><jats:p>COVID-19 is caused by the SARS-CoV-2 coronavirus and was first reported in central China in December 2019. Extensive molecular surveillance in Guangdong, China’s most populous province, during early 2020 resulted in 1,388 reported RNA positive cases from 1.6 million tests. In order to understand the molecular epidemiology and genetic diversity of SARS-CoV-2 in China we generated 53 genomes from infected individuals in Guangdong using a combination of metagenomic sequencing and tiling amplicon approaches. Combined epidemiological and phylogenetic analyses indicate multiple independent introductions to Guangdong, although phylogenetic clustering is uncertain due to low virus genetic variation early in the pandemic. Our results illustrate how the timing, size and duration of putative local transmission chains were constrained by national travel restrictions and by the province’s large-scale intensive surveillance and intervention measures. Despite these successes, COVID-19 surveillance in Guangdong is still required as the number of cases imported from other countries is increasing.</jats:p><jats:sec><jats:title>Highlights</jats:title><jats:list list-type="bullet"><jats:list-item><jats:p>1.6 million molecular diagnostic tests identified 1,388 SARS-CoV-2 infections in Guangdong Province, China, by 19<jats:sup>th</jats:sup> March 2020</jats:p></jats:list-item><jats:list-item><jats:p>Virus genomes can be recovered using a variety of sequencing approaches from a range of patient samples.</jats:p></jats:list-item><jats:list-item><jats:p>Genomic analyses reveal multiple virus importations into Guangdong Province, resulting in genetically distinct clusters that require careful interpretation.</jats:p></jats:list-item><jats:list-item><jats:p>Large-scale epidemiological surve
AU  - Lu,J
AU  - Plessis,LD
AU  - Liu,Z
AU  - Hill,V
AU  - Kang,M
AU  - Lin,H
AU  - Sun,J
AU  - François,S
AU  - Kraemer,MUG
AU  - Faria,NR
AU  - McCrone,JT
AU  - Peng,J
AU  - Xiong,Q
AU  - Yuan,R
AU  - Zeng,L
AU  - Zhou,P
AU  - Liang,C
AU  - Yi,L
AU  - Liu,J
AU  - Xiao,J
AU  - Hu,J
AU  - Liu,T
AU  - Ma,W
AU  - Li,W
AU  - Su,J
AU  - Zheng,H
AU  - Peng,B
AU  - Fang,S
AU  - Su,W
AU  - Li,K
AU  - Sun,R
AU  - bai,R
AU  - Tang,X
AU  - Liang,M
AU  - Quick,J
AU  - Song,T
AU  - Rambaut,A
AU  - Loman,N
AU  - Raghwani,J
AU  - Pybus,OG
AU  - Ke,C
DO  - 10.1101/2020.04.01.20047076
PY  - 2020///
TI  - Genomic epidemiology of SARS-CoV-2 in Guangdong Province, China
UR  - http://dx.doi.org/10.1101/2020.04.01.20047076
ER  -
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