Human metapneumovirus prevalence and patterns of genotype persistence identified through surveillance of pediatric pneumonia hospital admissions in coastal Kenya, 2007-2016
Human metapneumovirus prevalence and patterns of genotype persistence identified through surveillance of pediatric pneumonia hospital admissions in coastal Kenya, 2007-2016
复制标题
通过监测 2007-2016 年肯尼亚沿海儿童肺炎住院情况确定的人类偏肺病毒流行率和基因型持续模式
DOI：
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发表时间：
2019
期刊：
影响因子：
--
通讯作者：
J. Nokes
中科院分区：
文献类型：
--
作者：
John W. Oketch;E. Kamau;G. Otieno;J. Otieno;C. Agoti;J. Nokes
背景
人偏肺病毒（HMPV）是一种重要的呼吸道病原体，可引起急性呼吸道疾病的季节性流行，并在儿童肺炎中起重要作用。目前对艾滋病在社区中的传播、流行和持续模式的了解和认识有限。
方法
我们对2007年至2016年期间在肯尼亚沿海Kilifi县医院因综合征性肺炎入院的5岁以下儿童的鼻腔样本进行了分子流行病学分析。采用实时荧光定量PCR检测HMPV感染，并对融合基因（F）和附着基因（G）进行测序，然后进行系统发育分析。疾病严重程度和HMPV基因型之间的关联使用卡方检验进行独立性评估。
结果
10年来，筛查的6756份样本中有274份（4.10%）为HMPV阳性。年患病率在1.2%至8.7%之间波动，近年来（2014-2016年）最低。每年10月至次年4月间HMPV的检出率最高。205/274例（74.8%）阳性患者基因分型成功，A2 b（41.0%）、A2 c（10.7%）、B1（23.4%）和B2（24.9%）。优势模式为：2007-11年间的基因型A2 b，2012-14年间的基因型B1，以及最近流行的基因型A2 c。基因型B2病毒在所有年份都存在。这些模式反映了全球情况。时间内的基因型的局部和全球序列数据的系统发育聚类。每个流行季节发生的基因型由多个变异组成。肺炎的严重程度不因基因型而异（p=0.264）。在F和G基因中，发现测序区域主要处于纯化选择下。
结论
来自非洲农村的基因型和毒株模式与全球毒株分布在时间上一致，表明HMPV的全球病毒传播池混合良好。在当地社区的持久性的特征是从全球库中重复引入HMPV变体。应调查该人群中HMPV患病率下降的潜在因素。
Background
Human metapneumovirus (HMPV) is an important respiratory pathogen that causes seasonal epidemics of acute respiratory illness and contributes significantly to childhood pneumonia. Current knowledge and understanding on its patterns of spread, prevalence and persistence in communities is limited.
Methods
We present findings of a molecular-epidemiological analysis of nasal samples from children < 5 years of age admitted with syndromic pneumonia between 2007 and 2016 to Kilifi County Hospital, coastal Kenya. HMPV infection was detected using real-time RT-PCR and positives sequenced in the fusion (F) and attachment (G) genes followed by phylogenetic analysis. The association between disease severity and HMPV genotype was assessed using Chi-square test for independence.
Results
Over 10 years, 274/6756 (4.10%) samples screened were HMPV positive. Annual prevalence fluctuated between years ranging 1.2% to 8.7% and lowest in the recent years (2014-2016). HMPV detections were most frequent between October of one year to April of the following year. Genotyping was successful for 205/274 (74.8%) positives revealing A2b (41.0%), A2c (10.7%), B1 (23.4%) and B2 (24.9%). The dominance patterns were: genotype A2b between 2007-11, B1 between 2012-14, and A2c in more recent epidemics. Genotype B2 viruses were present in all the years. These patterns mirrored the global picture. Temporal phylogenetic clustering within the genotypes for both local and global sequence data was seen. Genotypes occurring in each epidemic season were comprised of multiple variants. Pneumonia severity did not vary by genotype (p=0.264). In both the F and G gene, the sequenced regions were found to be predominantly under purifying selection.
Conclusion
Genotype and strain patterns from this rural African setting temporally map with global strain distribution, suggesting a well-mixed global virus transmission pool of HMPV. Persistence in the local community is characterized by repeated introductions of HMPV variants from the global pool. The factors underlying the declining prevalence of HMPV in this population should be investigated.
影响因子：
3.5
作者：
Hughes, Austin L.;Hughes, Mary Ann K.
通讯作者：
Hughes, Mary Ann K.
DOI：
10.1056/nejmoa1204630
发表时间：
2013-02-14
期刊：
The New England journal of medicine
影响因子：
--
作者：
Edwards KM;Zhu Y;Griffin MR;Weinberg GA;Hall CB;Szilagyi PG;Staat MA;Iwane M;Prill MM;Williams JV;New Vaccine Surveillance Network
通讯作者：
New Vaccine Surveillance Network
影响因子：
10.7
作者：
Tamura, Koichiro;Peterson, Daniel;Kumar, Sudhir
通讯作者：
Kumar, Sudhir