Table · dataset · 2017
Data for Spread and evolution of respiratory syncytial virus A genotype ON1, coastal Kenya, 2010–2015
Listed in figshare
In February 2012, the novel respiratory syncytial virus (RSV) group A, genotype ON1, was detected in Kilifi County, coastal Kenya.
Description
ON1 is characterized by a 72-nt duplication within the highly variable G gene (encoding the immunogenic attachment surface protein). Cases were diagnosed through surveillance of pneumonia in children at the county hospital.
Analysis of epidemiologic, clinical, and sequence data of RSV-A viruses detected over 5 RSV seasons (2010/2011 to 2014/2015) indicated the following: 1) replacement of previously circulating genotype GA2 by ON1, 2) an abrupt expansion in the number of ON1 variants detected in the 2014/2015 epidemic, 3) recent accumulation of amino acid substitutions within the ON1 duplicated sequence, and 4) no clear evidence of altered pathogenicity relative to GA2.
Read the rest (3 more)
The study demonstrates the public health importance of molecular surveillance in defining the spread, clinical effects, and evolution of novel respiratory virus variants.<br><br>Data record consists of 3 plain text files, one Stata file, one PDF and the tabular data. The data is from an on-going study aimed at understanding the epidemiology and disease burden of RSV-associated pneumonia cases in Kilifi. This study was specifically interested in the introduction, spread and evolution of the novel RSV-A genotype ON1 in Kilifi.
Respiratory swab samples (combined nasopharyngeal and oropharyngeal) were collected from September 2010 through August 2015 from children ages 1 day to <5 years admitted to Kilifi County Hospital (KCH) with syndromically defined severe or very severe pneumonia, screened for RSV and G-gene sequenced (RSV positives) using the Sanger method. Also included is are two global comparison sequence datasets used in the analyses: (1) RSV-A genotype ON1 contemporenous sequence dataset, and (2) RSV-B genotype BA sequences collected between 1998 and 2006.
Access to data is restricted and requires a Harvard Dataverse account. Data is also available through GenBank.
Links
Where it is published
- DOI doi.org/10.82444/warw.33802609.v1 ↗
DOI / persistent id · from figshare com
Catalogue records · 1
- OAI-PMH record api.figshare.com/v2/oai?verb=GetRecord&metadataPrefix=oai_dc&identifier=oai%3Af… ↗
metadata API · from figshare com
Topics
Provenance · 1 source records, 19 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| figshare | oai:figshare.com:article/33802609 | 11 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · figshare com | connector:figshare_com@1.0.0 | |
| concepts[disease].local:disease:disease | enrichment · figshare com | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[field].local:field:astronomy | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[field].local:field:chemistry | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[field].local:field:computer-science-ai | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[field].local:field:earth-environmental | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[field].local:field:economics-finance | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[field].local:field:engineering | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[field].local:field:humanities | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[field].local:field:medicine-health | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[field].local:field:ocean-atmospheric | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[field].local:field:social-science | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[modality].local:modality:tabular | enrichment · figshare com | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[modality].local:modality:text | enrichment · figshare com | keyword-concept-rules@1.0.0 | title+description (75%) |
| description | source · figshare com | connector:figshare_com@1.0.0 | /metadata/dc/description |
| license | source · figshare com | connector:figshare_com@1.0.0 | /metadata/dc/rights |
| publication_date | source · figshare com | connector:figshare_com@1.0.0 | |
| title | source · figshare com | connector:figshare_com@1.0.0 | /metadata/dc/title |