TY - JOUR
T1 - Simultaneous viral whole-genome sequencing and differential expression profiling in respiratory syncytial virus infection of infants
AU - RESCEU Investigators
AU - Lin, Gu Lung
AU - Golubchik, Tanya
AU - Drysdale, Simon
AU - O'Connor, Daniel
AU - Jefferies, Kimberley
AU - Brown, Anthony
AU - De Cesare, Mariateresa
AU - Bonsall, David
AU - Ansari, M. Azim
AU - Aerssens, Jeroen
AU - Bont, Louis
AU - Openshaw, Peter
AU - Martinon-Torres, Federico
AU - Bowden, Rory
AU - Pollard, Andrew J.
AU - Nair, Harish
AU - Campbell, Harry
AU - Cunningham, Steve
AU - Beutels, Philippe
AU - Bont, Louis
AU - Wildenbeest, Joanne
AU - Butler, Christopher
AU - Snape, Matthew
AU - Drysdale, Simon
AU - Lin, Gu Lung
AU - O'Connor, Daniel
AU - Clutterbuck, Elizabeth
AU - Jefferies, Kimberley
AU - McGinley, Joseph
AU - Openshaw, Peter
AU - Thwaites, Ryan
AU - Wiseman, Dexter
AU - Martinon-Torres, Federico
AU - Gómez-Carballa, Alberto
AU - Heikkinen, Terho
AU - Meijer, Adam
AU - Fischer, Thea Kølsen
AU - Van Den Berge, Maarten
AU - Giaquinto, Carlo
AU - Abram, Michael
AU - Swanson, Kena
AU - Leach, Amanda
AU - Demont, Clarisse
AU - Gallichan, Scott
AU - Aerssens, Jeroen
AU - Öner, Deniz
AU - Rosen, Brian
AU - Molero, Eva
N1 - Funding Information:
Financial support. This work was supported by the National Institute for Health Research (NIHR) Oxford Biomedical Research Centre; the NIHR Thames Valley and South Midlands Clinical Research Network,; the British Research Council; and the Respiratory Syncytial Virus Consortium in Europe (RESCEU) project. RESCEU has received funding from the Innovative Medicines Initiative 2 Joint Undertaking (grant number 116019). This Joint Undertaking receives support from the European Union Horizon 2020 Research and Innovation Program and European Federation of Pharmaceutical Industries and Associations.
Publisher Copyright:
© 2020 Oxford University Press. All rights reserved.
PY - 2020/11
Y1 - 2020/11
N2 - Targeted metagenomics using strand-specific libraries with target enrichment is a sensitive, generalized approach to pathogen sequencing and transcriptome profiling. Using this method, we recovered 13 (76%) complete human respiratory syncytial virus (RSV) genomes from 17 clinical respiratory samples, reconstructed the phylogeny of the infecting viruses, and detected differential gene expression between 2 RSV subgroups, specifically, a lower expression of the P gene and a higher expression of the M2 gene in RSV-A than in RSV-B. This methodology can help to relate viral genetics to clinical phenotype and facilitate ongoing populationlevel RSV surveillance and vaccine development. Clinical Trials Registration. NCT03627572 and NCT03756766.
AB - Targeted metagenomics using strand-specific libraries with target enrichment is a sensitive, generalized approach to pathogen sequencing and transcriptome profiling. Using this method, we recovered 13 (76%) complete human respiratory syncytial virus (RSV) genomes from 17 clinical respiratory samples, reconstructed the phylogeny of the infecting viruses, and detected differential gene expression between 2 RSV subgroups, specifically, a lower expression of the P gene and a higher expression of the M2 gene in RSV-A than in RSV-B. This methodology can help to relate viral genetics to clinical phenotype and facilitate ongoing populationlevel RSV surveillance and vaccine development. Clinical Trials Registration. NCT03627572 and NCT03756766.
KW - Differential gene expression
KW - Respiratory syncytial virus
KW - RNA sequencing
KW - Transcriptome profiling
KW - Whole-genome sequencing
U2 - 10.1093/INFDIS/JIAA448
DO - 10.1093/INFDIS/JIAA448
M3 - Article
C2 - 32702120
AN - SCOPUS:85092749972
SN - 0022-1899
VL - 222
SP - S666-S671
JO - Journal of infectious diseases
JF - Journal of infectious diseases
ER -