2001-2018 年接种疫苗时代的肺炎链球菌血清 3 型群体结构。

IF 4 2区 生物学 Q1 GENETICS & HEREDITY
Eleonora Cella, Catherine G Sutcliffe, Lindsay R Grant, Carol Tso, Robert C Weatherholtz, Shea Littlepage, Ladonna Becenti, Mohammad Jubair, Brenna C Simons, Marcella Harker-Jones, Raymond Reid, Del Yazzie, Mathuram Santosham, Katherine L O'Brien, Laura L Hammitt, Taj Azarian
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引用次数: 0

摘要

背景。尽管使用了高效的结合疫苗,侵入性肺炎球菌疾病 (IPD) 仍然是发病和死亡的主要原因,而且对土著居民的影响尤为严重。虽然 2010 年推出的 13 价肺炎球菌结合疫苗 (PCV13) 中包含了血清型 3,但它仍是美国西南部土著社区的致病原因。在纳瓦霍部落,血清 3 型 IPD 在成人中的发病率有所上升(2001-2009 年为 3.8/100000,2011-2019 年为 6.2/100000);在儿童中,虽然发病率从 5.8/100000 降至 2.3/100000,但该疾病依然存在。我们分析了 2001 年至 2018 年期间从纳瓦霍部落 129 名成人和 63 名儿童肺炎球菌携带者(n=61)或 IPD(n=131)中收集的血清 3 型分离株的基因组流行病学。利用全基因组测序数据,我们确定了支系成员资格,并评估了血清 3 型种群结构随时间的变化。血清 3 型的种群结构以三个主要亚群为特征:Ⅱ支系(90 人,占 46.9%)和Ⅰα支系(59 人,占 30.7%),它们属于克隆复合体(CC)180 和非 CC180 支系(43 人,占 22.4%)。从2001年至2010年到2011年至2018年,成人中与支系II相关的IPD病例比例显著增加(23.1%-71.8%;PP=0.84)。在同一时期,与Ⅱ系相关的携带比例也有所增加;这在儿童中具有统计学意义(23.3-52.6%;P=0.04),但在成人中并不明显(0-50.0%,P=0.08)。自 2010 年以来,在血清 3 型 IPD 和携带持续存在的情况下,支系 II 有所增加。随着时间的推移,基因组的变化可能会导致观察到的血清 3 型携带和疾病趋势。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Streptococcus pneumoniae serotype 3 population structure in the era of conjugate vaccines, 2001-2018.

Background. Despite use of highly effective conjugate vaccines, invasive pneumococcal disease (IPD) remains a leading cause of morbidity and mortality and disproportionately affects Indigenous populations. Although included in the 13-valent pneumococcal conjugate vaccine (PCV13), which was introduced in 2010, serotype 3 continues to cause disease among Indigenous communities in the Southwest USA. In the Navajo Nation, serotype 3 IPD incidence increased among adults (3.8/100 000 in 2001-2009 and 6.2/100 000 in 2011-2019); in children the disease persisted although the rates dropped from 5.8/100 000 to 2.3/100 000.Methods. We analysed the genomic epidemiology of serotype 3 isolates collected from 129 adults and 63 children with pneumococcal carriage (n=61) or IPD (n=131) from 2001 to 2018 of the Navajo Nation. Using whole-genome sequencing data, we determined clade membership and assessed changes in serotype 3 population structure over time.Results. The serotype 3 population structure was characterized by three dominant subpopulations: clade II (n=90, 46.9 %) and clade Iα (n=59, 30.7 %), which fall into Clonal Complex (CC) 180, and a non-CC180 clade (n=43, 22.4 %). The proportion of clade II-associated IPD cases increased significantly from 2001 to 2010 to 2011-2018 among adults (23.1-71.8 %; P<0.001) but not in children (27.3-33.3 %; P=0.84). Over the same period, the proportion of clade II-associated carriage increased; this was statistically significant among children (23.3-52.6 %; P=0.04) but not adults (0-50.0 %, P=0.08).Conclusions. In this setting with persistent serotype 3 IPD and carriage, clade II has increased since 2010. Genomic changes may be contributing to the observed trends in serotype 3 carriage and disease over time.

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来源期刊
Microbial Genomics
Microbial Genomics Medicine-Epidemiology
CiteScore
6.60
自引率
2.60%
发文量
153
审稿时长
12 weeks
期刊介绍: Microbial Genomics (MGen) is a fully open access, mandatory open data and peer-reviewed journal publishing high-profile original research on archaea, bacteria, microbial eukaryotes and viruses.
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