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Combining genomics and epidemiology to track mumps virus transmission in the United States.
PLOS Biology ( IF 7.8 ) Pub Date : 2020-02-11 , DOI: 10.1371/journal.pbio.3000611 Shirlee Wohl 1, 2 , Hayden C Metsky 1, 3 , Stephen F Schaffner 1, 2, 4 , Anne Piantadosi 1, 5 , Meagan Burns 6 , Joseph A Lewnard 7 , Bridget Chak 1, 2 , Lydia A Krasilnikova 1, 2 , Katherine J Siddle 1, 2 , Christian B Matranga 1 , Bettina Bankamp 8 , Scott Hennigan 6 , Brandon Sabina 6 , Elizabeth H Byrne 1, 2 , Rebecca J McNall 8 , Rickey R Shah 1, 2 , James Qu 1 , Daniel J Park 1 , Soheyla Gharib 9 , Susan Fitzgerald 9 , Paul Barreira 9 , Stephen Fleming 6 , Susan Lett 6 , Paul A Rota 8 , Lawrence C Madoff 6, 10 , Nathan L Yozwiak 1, 2 , Bronwyn L MacInnis 1, 4 , Sandra Smole 6 , Yonatan H Grad 4, 11, 12 , Pardis C Sabeti 1, 2, 4, 13
PLOS Biology ( IF 7.8 ) Pub Date : 2020-02-11 , DOI: 10.1371/journal.pbio.3000611 Shirlee Wohl 1, 2 , Hayden C Metsky 1, 3 , Stephen F Schaffner 1, 2, 4 , Anne Piantadosi 1, 5 , Meagan Burns 6 , Joseph A Lewnard 7 , Bridget Chak 1, 2 , Lydia A Krasilnikova 1, 2 , Katherine J Siddle 1, 2 , Christian B Matranga 1 , Bettina Bankamp 8 , Scott Hennigan 6 , Brandon Sabina 6 , Elizabeth H Byrne 1, 2 , Rebecca J McNall 8 , Rickey R Shah 1, 2 , James Qu 1 , Daniel J Park 1 , Soheyla Gharib 9 , Susan Fitzgerald 9 , Paul Barreira 9 , Stephen Fleming 6 , Susan Lett 6 , Paul A Rota 8 , Lawrence C Madoff 6, 10 , Nathan L Yozwiak 1, 2 , Bronwyn L MacInnis 1, 4 , Sandra Smole 6 , Yonatan H Grad 4, 11, 12 , Pardis C Sabeti 1, 2, 4, 13
Affiliation
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Unusually large outbreaks of mumps across the United States in 2016 and 2017 raised questions about the extent of mumps circulation and the relationship between these and prior outbreaks. We paired epidemiological data from public health investigations with analysis of mumps virus whole genome sequences from 201 infected individuals, focusing on Massachusetts university communities. Our analysis suggests continuous, undetected circulation of mumps locally and nationally, including multiple independent introductions into Massachusetts and into individual communities. Despite the presence of these multiple mumps virus lineages, the genomic data show that one lineage has dominated in the US since at least 2006. Widespread transmission was surprising given high vaccination rates, but we found no genetic evidence that variants arising during this outbreak contributed to vaccine escape. Viral genomic data allowed us to reconstruct mumps transmission links not evident from epidemiological data or standard single-gene surveillance efforts and also revealed connections between apparently unrelated mumps outbreaks.
中文翻译：
结合基因组学和流行病学来追踪美国腮腺炎病毒的传播。
2016 年和 2017 年，美国各地爆发了异常大规模的腮腺炎疫情，引发了人们对腮腺炎传播范围以及此次疫情与之前疫情之间关系的疑问。我们将公共卫生调查的流行病学数据与 201 名感染者的腮腺炎病毒全基因组序列分析相结合，重点关注马萨诸塞州大学社区。我们的分析表明，腮腺炎在当地和全国范围内持续、未被发现的传播，包括多次独立传入马萨诸塞州和各个社区。尽管存在多种腮腺炎病毒谱系，但基因组数据显示，至少自 2006 年以来，一种谱系在美国占据主导地位。考虑到高疫苗接种率，广泛传播令人惊讶，但我们没有发现任何遗传证据表明这次爆发期间出现的变异导致了疫苗逃脱。病毒基因组数据使我们能够重建流行病学数据或标准单基因监测工作中不明显的腮腺炎传播联系，并且还揭示了明显不相关的腮腺炎暴发之间的联系。
更新日期：2020-03-02
中文翻译：
结合基因组学和流行病学来追踪美国腮腺炎病毒的传播。
2016 年和 2017 年，美国各地爆发了异常大规模的腮腺炎疫情，引发了人们对腮腺炎传播范围以及此次疫情与之前疫情之间关系的疑问。我们将公共卫生调查的流行病学数据与 201 名感染者的腮腺炎病毒全基因组序列分析相结合，重点关注马萨诸塞州大学社区。我们的分析表明，腮腺炎在当地和全国范围内持续、未被发现的传播，包括多次独立传入马萨诸塞州和各个社区。尽管存在多种腮腺炎病毒谱系，但基因组数据显示，至少自 2006 年以来，一种谱系在美国占据主导地位。考虑到高疫苗接种率，广泛传播令人惊讶，但我们没有发现任何遗传证据表明这次爆发期间出现的变异导致了疫苗逃脱。病毒基因组数据使我们能够重建流行病学数据或标准单基因监测工作中不明显的腮腺炎传播联系，并且还揭示了明显不相关的腮腺炎暴发之间的联系。
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