Short report: Introduction of chikungunya virus ECSA genotype into the Brazilian Midwest and its dispersion through the Americas.
Short report: Introduction of chikungunya virus ECSA genotype into the Brazilian Midwest and its dispersion through the Americas.
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DOI：
10.1371/journal.pntd.0009290
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发表时间：
2021-04
影响因子：
3.8
通讯作者：
Giovanetti M
中科院分区：
文献类型：
--
作者：
de Oliveira EC;Fonseca V;Xavier J;Adelino T;Morales Claro I;Fabri A;Marques Macario E;Viniski AE;Campos Souza CL;Gomes da Costa ES;Soares de Sousa C;Guimarães Dias Duarte F;Correia de Medeiros A;Campelo de Albuquerque CF;Venancio Cunha R;Oliveira De Moura NF;Bispo de Filippis AM;Oliveira T;Lourenço J;de Abreu AL;Alcantara LCJ;Giovanetti M
自2014年传入巴西以来，基孔肯雅病毒（CHIKV）呈现持续传播，尽管其在中西部各州的传播情况尚不清楚。在这里，我们分析了来自位于巴西中西部马托格罗索州（MT）的城市大都市库亚巴的24个新的部分和接近完整的CHIKV基因组。采用纳米孔技术对CHIKV全基因组进行测序。采用系统发育和流行病学方法探讨了CHIKV-ECSA基因型在巴西中西部和美洲的时空演变和传播。流行病学数据显示，2018-2020年报告病例数有所减少，这可能是群体免疫力逐渐积累的结果。系统地理学重建显示，至少有两次来自东北部地区的分散事件的ECSA谱系在MT中被独立引入，这表明巴西中西部地区似乎是病毒向南美邻国巴拉圭传播的一个来源。我们的研究结果显示了流行季节之间传播的复杂动态，并提示巴西可能是CHIKV-ECSA基因型向美洲其他国家国际传播的一个来源。基孔肯雅病毒（CHIKV）自2014年传入巴西以来，呈现出持续传播，尽管其在中西部各州的传播情况尚不清楚。通过对直接从临床样本中获得的基孔肯雅病毒分离株进行便携式纳米孔测序，我们利用移动测序任务与基因组学和流行病学分析相结合的策略，生成了24个新的部分和接近完整的基孔肯雅病毒基因组序列。我们的研究结果强调，需要持续的基因组监测策略来协助监测和了解虫媒病毒流行，这可能有助于减轻传染病对公共卫生的影响。
Since introduction into Brazil in 2014, chikungunya virus (CHIKV) has presented sustained transmission, although much is unknown about its circulation in the midwestern states. Here, we analyze 24 novel partial and near complete CHIKV genomes from Cuiaba, an urban metropolis located in the Brazilian midwestern state of Mato Grosso (MT). Nanopore technology was used for sequencing CHIKV complete genomes. Phylogenetic and epidemiological approaches were used to explore the recent spatio-temporal evolution and spread of the CHIKV-ECSA genotype in Midwest Brazil as well as in the Americas. Epidemiological data revealed a reduction in the number of reported cases over 2018–2020, likely as a consequence of a gradual accumulation of herd-immunity. Phylogeographic reconstructions revealed that at least two independent introductions of the ECSA lineage occurred in MT from a dispersion event originating in the northeastern region and suggest that the midwestern Brazilian region appears to have acted as a source of virus transmission towards Paraguay, a bordering South American country. Our results show a complex dynamic of transmission between epidemic seasons and suggest a possible role of Brazil as a source for international dispersion of the CHIKV-ECSA genotype to other countries in the Americas. Since its introduction into Brazil in 2014, chikungunya virus (CHIKV) has presented sustained transmission, although much is unknown about its circulation in the midwestern states. Here, using a combined strategy of a mobile sequencing mission through this region, with genomic and epidemiological analysis we generated 24 novel partial and near complete CHIKV genome sequences by means of portable nanopore sequencing of chikungunya virus isolates obtained directly from clinical samples. Our findings reinforce that continued genomic surveillance strategies are needed to assist in the monitoring and understanding of arbovirus epidemics, which might help to attenuate public health impact of infectious diseases.
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DOI：
10.1093/bioinformatics/bty695
发表时间：
2019-03-01
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Vilsker M;Moosa Y;Nooij S;Fonseca V;Ghysens Y;Dumon K;Pauwels R;Alcantara LC;Vanden Eynden E;Vandamme AM;Deforche K;de Oliveira T
通讯作者：
de Oliveira T
影响因子：
30.3
作者：
Theze, Julien;Li, Tony;Pybus, Oliver G.
通讯作者：
Pybus, Oliver G.
影响因子：
13.2
作者：
Pereira Gusmao Maia, Zuinara;Mota Pereira, Felicidade;Giovanetti, Marta
通讯作者：
Giovanetti, Marta
影响因子：
10.7
作者：
Nguyen LT;Schmidt HA;von Haeseler A;Minh BQ
通讯作者：
Minh BQ
影响因子：
5.4
作者：
Carrillo, Fausto Bustos;Collado, Damaris;Harris, Eva
通讯作者：
Harris, Eva