Imperial College London

Peter Openshaw - Professor of Experimental Medicine

Faculty of MedicineNational Heart & Lung Institute

Senior Consul, Professor of Experimental Medicine
 
 
 
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Contact

 

+44 (0)20 7594 3854p.openshaw Website CV

 
 
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Assistant

 

Ms Gale Lewis +44 (0)20 7594 0944

 
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Location

 

353Norfolk PlaceSt Mary's Campus

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Summary

 

Publications

Citation

BibTex format

@article{Goya:2020:10.1111/irv.12715,
author = {Goya, S and Galiano, M and Nauwelaers, I and Trento, A and Openshaw, PJ and Mistchenko, AS and Zambon, M and Viegas, M},
doi = {10.1111/irv.12715},
journal = {Influenza and Other Respiratory Viruses},
pages = {274--285},
title = {Toward unified molecular surveillance of RSV: A proposal for genotype definition},
url = {http://dx.doi.org/10.1111/irv.12715},
volume = {14},
year = {2020}
}

RIS format (EndNote, RefMan)

TY  - JOUR
AB - BackgroundHuman respiratory syncytial virus (RSV) is classified into antigenic subgroups A and B. Thirteen genotypes have been defined for RSVA and 20 for RSVB, without any consensus on genotype definition.MethodsWe evaluated clustering of RSV sequences published in GenBank until February 2018 to define genotypes by using maximum likelihood and Bayesian phylogenetic analyses and average pdistances.ResultsWe compared the patterns of sequence clustering of complete genomes; the three surface glycoproteins genes (SH, G, and F, single and concatenated); the ectodomain and the 2nd hypervariable region of G gene. Although complete genome analysis achieved the best resolution, the F, G, and Gectodomain phylogenies showed similar topologies with statistical support comparable to complete genome. Based on the widespread geographic representation and large number of available Gectodomain sequences, this region was chosen as the minimum region suitable for RSV genotyping. A genotype was defined as a monophyletic cluster of sequences with high statistical support (≥80% bootstrap and ≥0.8 posterior probability), with an intragenotype pdistance ≤0.03 for both subgroups and an intergenotype pdistance ≥0.09 for RSVA and ≥0.05 for RSVB. In this work, the number of genotypes was reduced from 13 to three for RSVA (GA1GA3) and from 20 to seven for RSVB (GB1GB7). Within these, two additional levels of classification were defined: subgenotypes and lineages. Signature amino acid substitutions to complement this classification were also identified.ConclusionsWe propose an objective protocol for RSV genotyping suitable for adoption as an international standard to support the global expansion of RSV molecular surveillance.
AU - Goya,S
AU - Galiano,M
AU - Nauwelaers,I
AU - Trento,A
AU - Openshaw,PJ
AU - Mistchenko,AS
AU - Zambon,M
AU - Viegas,M
DO - 10.1111/irv.12715
EP - 285
PY - 2020///
SN - 1750-2640
SP - 274
TI - Toward unified molecular surveillance of RSV: A proposal for genotype definition
T2 - Influenza and Other Respiratory Viruses
UR - http://dx.doi.org/10.1111/irv.12715
UR - http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000511025000001&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=1ba7043ffcc86c417c072aa74d649202
UR - https://onlinelibrary.wiley.com/doi/full/10.1111/irv.12715
UR - http://hdl.handle.net/10044/1/78125
VL - 14
ER -