Comparative genomics of Bordetella pertussis isolates from New Zealand, a country with an uncommonly high incidence of whooping cough.
Comparative genomics of Bordetella pertussis isolates from New Zealand, a country with an uncommonly high incidence of whooping cough.
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DOI：
10.1099/mgen.0.000756
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发表时间：
2022-01
影响因子：
3.9
通讯作者：
Bagby S
中科院分区：
文献类型：
--
作者：
Ring N;Davies H;Morgan J;Sundaresan M;Tiong A;Preston A;Bagby S
百日咳是一种由百日咳博德特氏菌引起的呼吸道疾病，在过去几十年中大范围卷土重来。此前，我们开发了一种使用混合纳米孔和 Illumina 测序将重复百日咳博德特氏菌基因组组装成闭合序列的管道。在这里，该测序流程用于对 1982 年至 2018 年间在新西兰分离的 66 株菌株进行更高通量的纵向筛选。新西兰的百日咳发病率高于许多其他国家；尽管疫苗接种率相似，但每 10 万人中的病例数通常至少是美国和英国的两倍，甚至更高。据我们所知，这些菌株是第一个被测序的新西兰百日咳博德特氏菌分离株。这里的分析表明，总体而言，新西兰百日咳博德特氏菌分离株的基因组趋势，例如疫苗相关基因等位基因谱的改变和百日咳杆菌粘附素缺乏的增加，与世界其他地方观察到的情况相似。与此同时，新西兰分离株与全球分离株的系统发育比较表明，许多毒株在新西兰流行，它们与其他全球毒株分开聚集，但彼此密切相关。这项研究的结果丰富了有关百日咳博德特氏菌基因组近期变化的知识体系，并且是对新西兰百日咳博德特氏菌分离株的首次基因研究。
Whooping cough, the respiratory disease caused by Bordetella pertussis , has undergone a wide-spread resurgence over the last several decades. Previously, we developed a pipeline to assemble the repetitive B. pertussis genome into closed sequences using hybrid nanopore and Illumina sequencing. Here, this sequencing pipeline was used to conduct a more high-throughput, longitudinal screen of 66 strains isolated between 1982 and 2018 in New Zealand. New Zealand has a higher incidence of whooping cough than many other countries; usually at least twice as many cases per 100000 people as the USA and UK and often even higher, despite similar rates of vaccine uptake. To the best of our knowledge, these strains are the first New Zealand B. pertussis isolates to be sequenced. The analyses here show that, on the whole, genomic trends in New Zealand B. pertussis isolates, such as changing allelic profile in vaccine-related genes and increasing pertactin deficiency, have paralleled those seen elsewhere in the world. At the same time, phylogenetic comparisons of the New Zealand isolates with global isolates suggest that a number of strains are circulating in New Zealand, which cluster separately from other global strains, but which are closely related to each other. The results of this study add to a growing body of knowledge regarding recent changes to the B. pertussis genome, and are the first genetic investigation into B. pertussis isolates from New Zealand.
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DOI：
10.1099/13500872-145-8-2069
发表时间：
1999-08-01
期刊：
MICROBIOLOGY-UK
影响因子：
--
作者：
Mastrantonio, P;Spigaglia, P;Mooi, FR
通讯作者：
Mooi, FR
开放式细菌种群基因组学：BIGSDB软件，pubmlst.org网站及其应用。
影响因子：
--
作者：
Jolley KA;Bray JE;Maiden MCJ
通讯作者：
Maiden MCJ
影响因子：
3.9
作者：
Connor TR;Loman NJ;Thompson S;Smith A;Southgate J;Poplawski R;Bull MJ;Richardson E;Ismail M;Thompson SE;Kitchen C;Guest M;Bakke M;Sheppard SK;Pallen MJ
通讯作者：
Pallen MJ
影响因子：
10.7
作者：
Hoang DT;Chernomor O;von Haeseler A;Minh BQ;Vinh LS
通讯作者：
Vinh LS
影响因子：
6.4
作者：
Octavia, Sophie;Sintchenko, Vitali;Lan, Ruiting
通讯作者：
Lan, Ruiting