dc.contributor.author |
Bose, Michael E.
|
|
dc.contributor.author |
He, Jie
|
|
dc.contributor.author |
Shrivastava, Susmita
|
|
dc.contributor.author |
Nelson, Martha I.
|
|
dc.contributor.author |
Bera, Jayati
|
|
dc.contributor.author |
Halpin, Rebecca A.
|
|
dc.contributor.author |
Town, Christopher D.
|
|
dc.contributor.author |
Lorenzi, Hernan A.
|
|
dc.contributor.author |
Noyola, Daniel E.
|
|
dc.contributor.author |
Falcone, Valeria
|
|
dc.contributor.author |
Gerna, Giuseppe
|
|
dc.contributor.author |
De Beenhouwer, Hans
|
|
dc.contributor.author |
Videla, Cristina
|
|
dc.contributor.author |
Kok, Tuckweng
|
|
dc.contributor.author |
Venter, Marietjie
|
|
dc.contributor.author |
Williams, John V.
|
|
dc.contributor.author |
Henrickson, Kelly J.
|
|
dc.date.accessioned |
2015-08-03T09:57:02Z |
|
dc.date.available |
2015-08-03T09:57:02Z |
|
dc.date.issued |
2015-03-20 |
|
dc.description |
All genome sequence
files are available from the GenBank database
(bioproject id PRJNA73049 and accession numbers
KF530258 - KF530269 and KF826816 - KF826860).
All other relevant data are within the paper and its
Supporting Information files. |
en_ZA |
dc.description.abstract |
BACKGROUND
Human respiratory syncytial virus (RSV) is the leading cause of respiratory tract infections
in children globally, with nearly all children experiencing at least one infection by the age of
two. Partial sequencing of the attachment glycoprotein gene is conducted routinely for genotyping,
but relatively few whole genome sequences are available for RSV. The goal of our
study was to sequence the genomes of RSV strains collected from multiple countries to further
understand the global diversity of RSV at a whole-genome level.
METHODS
We collected RSV samples and isolates from Mexico, Argentina, Belgium, Italy, Germany,
Australia, South Africa, and the USA from the years 1998-2010. Both Sanger and nextgeneration
sequencing with the Illumina and 454 platforms were used to sequence the
whole genomes of RSV A and B. Phylogenetic analyses were performed using the Bayesian
and maximum likelihood methods of phylogenetic inference. RESULTS
We sequenced the genomes of 34 RSVA and 23 RSVB viruses. Phylogenetic analysis
showed that the RSVA genome evolves at an estimated rate of 6.72 × 10-4 substitutions/
site/year (95% HPD 5.61 × 10-4 to 7.6 × 10-4) and for RSVB the evolutionary rate was 7.69 ×
10-4 substitutions/site/year (95% HPD 6.81 × 10-4 to 8.62 × 10-4). We found multiple clades
co-circulating globally for both RSV A and B. The predominant clades were GA2 and GA5
for RSVA and BA for RSVB.
CONCLUSIONS
Our analyses showed that RSV circulates on a global scale with the same predominant
clades of viruses being found in countries around the world. However, the distribution of
clades can change rapidly as new strains emerge. We did not observe a strong spatial
structure in our trees, with the same three main clades of RSV co-circulating globally, suggesting
that the evolution of RSV is not strongly regionalized. |
en_ZA |
dc.description.librarian |
am2015 |
en_ZA |
dc.description.sponsorship |
This project has been funded in whole or
part with federal funds from the National Institute of
Allergy and Infectious Diseases, National Institutes of
Health, Department of Health and Human Services
(www.niaid.nih.gov) under contract number
HHSN272200900007C and grant numbers
5U01AI070428 and 5U01AI077988. This work was supported in part by the Multinational Influenza
Seasonal Mortality Study (MISMS), led by the
Fogarty International Center, National Institutes of
Health, with funding from the Department of Health
and Human Services (www.fic.nih.gov). |
en_ZA |
dc.description.uri |
http://www.plosone.org |
en_ZA |
dc.identifier.citation |
Bose ME, He J, Shrivastava S, Nelson MI, Bera J, Halpin RA, et al. (2015) Sequencing and Analysis of Globally Obtained Human Respiratory Syncytial Virus A and B Genomes. PLoS ONE 10(3): e0120098. DOI: 10.1371/journal.pone.0120098. |
en_ZA |
dc.identifier.issn |
1932-6203 |
|
dc.identifier.other |
10.1371/journal.pone.0120098 |
|
dc.identifier.uri |
http://hdl.handle.net/2263/49229 |
|
dc.language.iso |
en |
en_ZA |
dc.publisher |
Public Library of Science |
en_ZA |
dc.rights |
The work is made
available under the Creative Commons CC0. |
en_ZA |
dc.subject |
Human respiratory syncytial virus |
en_ZA |
dc.subject |
Infections |
en_ZA |
dc.subject |
Children |
en_ZA |
dc.subject |
Genomes |
en_ZA |
dc.title |
Sequencing and analysis of globally obtained human respiratory syncytial virus A and B genomes |
en_ZA |
dc.type |
Article |
en_ZA |