Simultaneous Viral Whole-Genome Sequencing and Differential Expression Profiling in Respiratory Syncytial Virus Infection of Infants

Gu-Lung Lin; Tanya Golubchik; Simon Drysdale; Daniel O'Connor; Kimberley Jefferies; Anthony Brown; Mariateresa de Cesare; David Bonsall; M Azim Ansari; Jeroen Aerssens; Louis Bont; Peter Openshaw; Federico Martinón-Torres; Rory Bowden; Andrew J Pollard; RESCEU Investigators; Thea Kølsen Fischer

doi:10.1093/infdis/jiaa448

Simultaneous Viral Whole-Genome Sequencing and Differential Expression Profiling in Respiratory Syncytial Virus Infection of Infants

Gu-Lung Lin, Tanya Golubchik, Simon Drysdale, Daniel O'Connor, Kimberley Jefferies, Anthony Brown, Mariateresa de Cesare, David Bonsall, M Azim Ansari, Jeroen Aerssens, Louis Bont, Peter Openshaw, Federico Martinón-Torres, Rory Bowden, Andrew J Pollard, RESCEU Investigators , Thea Kølsen Fischer (Medlem af forfattergruppering)

9 Citationer (Scopus)

Abstract

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.

Originalsprog	Engelsk
Tidsskrift	The Journal of infectious diseases
Vol/bind	222
Udgave nummer	Supplement_7
Sider (fra-til)	S666-S671
ISSN	0022-1899
DOI	https://doi.org/10.1093/infdis/jiaa448
Status	Udgivet - 7 okt. 2020
Udgivet eksternt	Ja

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Lin, G.-L., Golubchik, T., Drysdale, S., O'Connor, D., Jefferies, K., Brown, A., de Cesare, M., Bonsall, D., Ansari, M. A., Aerssens, J., Bont, L., Openshaw, P., Martinón-Torres, F., Bowden, R., Pollard, A. J., RESCEU Investigators , & Fischer, T. K. (2020). Simultaneous Viral Whole-Genome Sequencing and Differential Expression Profiling in Respiratory Syncytial Virus Infection of Infants. The Journal of infectious diseases, 222(Supplement_7), S666-S671. https://doi.org/10.1093/infdis/jiaa448

Lin, G-L, Golubchik, T, Drysdale, S, O'Connor, D, Jefferies, K, Brown, A, de Cesare, M, Bonsall, D, Ansari, MA, Aerssens, J, Bont, L, Openshaw, P, Martinón-Torres, F, Bowden, R, Pollard, AJ, RESCEU Investigators & Fischer, TK 2020, 'Simultaneous Viral Whole-Genome Sequencing and Differential Expression Profiling in Respiratory Syncytial Virus Infection of Infants', The Journal of infectious diseases, bind 222, nr. Supplement_7, s. S666-S671. https://doi.org/10.1093/infdis/jiaa448

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abstract = "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.",

keywords = "differential gene expression, respiratory syncytial virus, RNA sequencing, transcriptome profiling, whole-genome sequencing",

author = "Gu-Lung Lin and Tanya Golubchik and Simon Drysdale and Daniel O'Connor and Kimberley Jefferies and Anthony Brown and {de Cesare}, Mariateresa and David Bonsall and Ansari, {M Azim} and Jeroen Aerssens and Louis Bont and Peter Openshaw and Federico Martin{\'o}n-Torres and Rory Bowden and Pollard, {Andrew J} and {RESCEU Investigators} and Fischer, {Thea K{\o}lsen}",

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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

AU - RESCEU Investigators

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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 - differential gene expression

KW - respiratory syncytial virus

KW - RNA sequencing

KW - transcriptome profiling

KW - whole-genome sequencing

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DO - 10.1093/infdis/jiaa448

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JO - The Journal of infectious diseases

JF - The Journal of infectious diseases

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ER -

Simultaneous Viral Whole-Genome Sequencing and Differential Expression Profiling in Respiratory Syncytial Virus Infection of Infants

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