TY - JOUR
T1 - Simultaneous Viral Whole-Genome Sequencing and Differential Expression Profiling in Respiratory Syncytial Virus Infection of Infants
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 - Martinón-Torres, Federico
AU - Bowden, Rory
AU - Pollard, Andrew J
N1 - Publisher Copyright:
© 2020 Oxford University Press. All rights reserved.
PY - 2020/10/7
Y1 - 2020/10/7
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 population-level 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 population-level RSV surveillance and vaccine development. Clinical Trials Registration. NCT03627572 and NCT03756766.
KW - RNA sequencing
KW - differential gene expression
KW - respiratory syncytial virus
KW - transcriptome profiling
KW - whole-genome sequencing
UR - https://www.scopus.com/pages/publications/85092749972
U2 - 10.1093/infdis/jiaa448
DO - 10.1093/infdis/jiaa448
M3 - Article
C2 - 32702120
SN - 0022-1899
VL - 222
SP - S666-S671
JO - The Journal of infectious diseases
JF - The Journal of infectious diseases
IS - Supplement_7
ER -