Population genomic datasets describing the post-vaccine evolutionary epidemiology of Streptococcus pneumoniae.
Author(s)
Type
Journal Article
Abstract
Streptococcus pneumoniae is common nasopharyngeal commensal bacterium and important human pathogen. Vaccines against a subset of pneumococcal antigenic diversity have reduced rates of disease, without changing the frequency of asymptomatic carriage, through altering the bacterial population structure. These changes can be studied in detail through using genome sequencing to characterise systematically-sampled collections of carried S. pneumoniae. This dataset consists of 616 annotated draft genomes of isolates collected from children during routine visits to primary care physicians in Massachusetts between 2001, shortly after the seven valent polysaccharide conjugate vaccine was introduced, and 2007. Also made available are a core genome alignment and phylogeny describing the overall population structure, clusters of orthologous protein sequences, software for inferring serotype from Illumina reads, and whole genome alignments for the analysis of closely-related sets of pneumococci. These data can be used to study both bacterial evolution and the epidemiology of a pathogen population under selection from vaccine-induced immunity.
Date Issued
2015-10-27
Date Acceptance
2015-09-28
Citation
Scientific Data, 2015, 2
ISSN
2052-4463
Publisher
Nature Publishing Group
Journal / Book Title
Scientific Data
Volume
2
Copyright Statement
This work is licensed under a Creative Commons Attribution 4.0 International License. The
images or other third party material in this article are included in the article’s Creative
Commons license, unless indicated otherwise in the credit line; if the material is not included under the
Creative Commons license, users will need to obtain permission from the license holder to reproduce the
material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0
Metadata associated with this Data Descriptor is available at http://www.nature.com/sdata/ and is released
under the CC0 waiver to maximize reuse.
images or other third party material in this article are included in the article’s Creative
Commons license, unless indicated otherwise in the credit line; if the material is not included under the
Creative Commons license, users will need to obtain permission from the license holder to reproduce the
material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0
Metadata associated with this Data Descriptor is available at http://www.nature.com/sdata/ and is released
under the CC0 waiver to maximize reuse.
License URL
Subjects
Bacterial genetics
Genetic variation
Molecular evolution
Respiratory tract diseases
Publication Status
Published
Article Number
150058