Open AccessJournal Article
Estabelecimento e transmissão crítica do vírus Zika no Brasil e nas Américas/Establishment and cryptic transmission of Zika virus in Brazil and the Americas
Nuno R. Faria,Josh Quick,Ingra Morales Claro,Julien Thézé,J G de Jesus,Marta Giovanetti,Moritz U. G. Kraemer,Sarah C. Hill,Allison Black,A. C. da Costa,L. C Franco,Sandro Patroca da Silva,C.-H Wu,Jayna Raghwani,Simon Cauchemez,L. du Plessis,M. P Verotti,W. K. de Oliveira,Eduardo Hage Carmo,Giovanini E. Coelho,A. C. F. S Santelli,L. C Vinhal,Cláudio Maierovitch Pessanha Henriques,Jared T. Simpson,M Loose,Kristian G. Andersen,Nathan D. Grubaugh,Sneha Somasekar,Charles Y. Chiu,José Esteban Muñoz-Medina,César González-Bonilla,Carlos F. Arias,Lia Laura Lewis-Ximenez,Sally A. Baylis,Alexandre Otavio Chieppe,Shirlei Ferreira Aguiar,Carlos Fernandes,Poliana da Silva Lemos,B. L. S Nascimento,Hamilton Antônio de Oliveira Monteiro,Isadora Cristina de Siqueira,M. G. de Queiroz,T. R. de Souza,João Felipe Bezerra,M. R Lemos,Gavin Pereira,D Loudal,L. C Moura,Rafael Dhalia,Rafael F. O. França,T Magalhães,E. T Marques Júnior,Thomas Jaenisch,Gabriel Luz Wallau,M. C. de Lima,Nascimento,E. M. de Cerqueira,M. M. de Lima,D. L Mascarenhas,J. P Moura Neto,Anna S. Levin,Tania Regina Tozetto-Mendoza,Silvia Nunes Szente Fonseca,Maria Cassia Mendes-Correa,Flavio Augusto de Pádua Milagres,Aluísio Augusto Cotrim Segurado,Edward C. Holmes,Andrew Rambaut,Trevor Bedford,Márcio Roberto Teixeira Nunes,Ester Cerdeira Sabino,Luiz Carlos Junior Alcantara,Nicholas J. Loman,Oliver G. Pybus +73 more
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TLDR
Analyses of viral genomes with ecological and epidemiological data yield an estimate that ZikV was present in northeast Brazil by February 2014 and is likely to have disseminated from there, nationally and internationally, before the first detection of ZIKV in the Americas.About:
This article is published in Nature.The article was published on 2017-01-01 and is currently open access. It has received 333 citations till now. The article focuses on the topics: Zika virus.read more
Citations
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Journal ArticleDOI
Nextstrain: real-time tracking of pathogen evolution.
James Hadfield,Colin Megill,Sidney M Bell,Sidney M Bell,John Huddleston,John Huddleston,Barney Potter,Charlton Callender,Pavel Sagulenko,Trevor Bedford,Richard A. Neher,Richard A. Neher,Richard A. Neher +12 more
TL;DR: Nextstrain consists of a database of viral genomes, a bioinformatics pipeline for phylodynamics analysis, and an interactive visualization platform that presents a real-time view into the evolution and spread of a range of viral pathogens of high public health importance.
Journal ArticleDOI
Field-deployable viral diagnostics using CRISPR-Cas13
Cameron Myhrvold,Cameron Myhrvold,Catherine A. Freije,Catherine A. Freije,Jonathan S. Gootenberg,Omar O. Abudayyeh,Hayden C. Metsky,Ann Durbin,Ann Durbin,Max J. Kellner,Amanda L Tan,Lauren M. Paul,Leda Parham,Kimberly García,Kayla G. Barnes,Kayla G. Barnes,Bridget Chak,Bridget Chak,Adriano Mondini,Maurício Lacerda Nogueira,Sharon Isern,Scott F. Michael,Ivette Lorenzana,Nathan L. Yozwiak,Nathan L. Yozwiak,Bronwyn MacInnis,Bronwyn MacInnis,Irene Bosch,Irene Bosch,Lee Gehrke,Lee Gehrke,Feng Zhang,Pardis C. Sabeti +32 more
TL;DR: The Cas13-based SHERLOCK platform can detect Zika virus and dengue virus in patient samples at concentrations as low as 1 copy per microliter and can distinguish the four DENV serotypes, as well as region-specific strains of ZIKV from the 2015–2016 pandemic.
Journal ArticleDOI
Multiplex PCR method for MinION and Illumina sequencing of Zika and other virus genomes directly from clinical samples
Joshua Quick,Nathan D. Grubaugh,Steven T. Pullan,Ingra Morales Claro,Andrew D. Smith,Karthik Gangavarapu,Glenn Oliveira,Refugio Robles-Sikisaka,Thomas F. Rogers,Thomas F. Rogers,Nathan Beutler,Dennis R. Burton,Lia Laura Lewis-Ximenez,Jaqueline Goes de Jesus,Marta Giovanetti,Marta Giovanetti,Sarah C. Hill,Allison Black,Allison Black,Trevor Bedford,Miles W. Carroll,Márcio Roberto Teixeira Nunes,Luiz Carlos Junior Alcantara,Ester Cerdeira Sabino,Sally A. Baylis,Nuno R. Faria,Matthew Loose,Jared T. Simpson,Oliver G. Pybus,Kristian G. Andersen,Kristian G. Andersen,Nicholas J. Loman +31 more
TL;DR: A protocol for generating coding-sequence-complete genomes, comprising an online primer design tool, a novel multiplex PCR enrichment protocol, optimized library preparation methods for the portable MinION sequencer and the Illumina range of instruments, and a bioinformatics pipeline for generating consensus sequences.
Journal ArticleDOI
An amplicon-based sequencing framework for accurately measuring intrahost virus diversity using PrimalSeq and iVar
Nathan D. Grubaugh,Nathan D. Grubaugh,Karthik Gangavarapu,Joshua Quick,Nathaniel L. Matteson,Jaqueline Goes de Jesus,Jaqueline Goes de Jesus,Bradley J. Main,Amanda L Tan,Lauren M. Paul,Doug E. Brackney,Saran Grewal,Nikos Gurfield,Koen K. A. Van Rompay,Sharon Isern,Scott F. Michael,Lark L. Coffey,Nicholas J. Loman,Kristian G. Andersen,Kristian G. Andersen +19 more
TL;DR: The utility of PrimalSeq is demonstrated by measuring Zika and West Nile virus diversity from varied sample types and the accumulation of genetic diversity is influenced by experimental and biological systems.
Journal ArticleDOI
Past and future spread of the arbovirus vectors Aedes aegypti and Aedes albopictus.
Moritz U. G. Kraemer,Moritz U. G. Kraemer,Moritz U. G. Kraemer,Robert C. Reiner,Oliver J. Brady,Jane P. Messina,Marius Gilbert,David M. Pigott,Dingdong Yi,Kimberly J. Johnson,Lucas Earl,Laurie B. Marczak,Shreya Shirude,Nicole Davis Weaver,Donal Bisanzio,Donal Bisanzio,T. Alex Perkins,Shengjie Lai,Shengjie Lai,Xin Lu,Xin Lu,Xin Lu,Peter A. Jones,Giovanini E. Coelho,Roberta G. Carvalho,Wim Van Bortel,Wim Van Bortel,Cedric Marsboom,Guy Hendrickx,Francis Schaffner,Chester G. Moore,Heinrich H. Nax,Linus Bengtsson,Erik Wetter,Andrew J. Tatem,John S. Brownstein,John S. Brownstein,David L. Smith,Louis Lambrechts,Simon Cauchemez,Catherine Linard,Catherine Linard,Nuno R. Faria,Oliver G. Pybus,Thomas W. Scott,Qiyong Liu,Hongjie Yu,G. R. William Wint,Simon I. Hay,Nick Golding +49 more
TL;DR: It is shown that human movement patterns explain the spread of both Aedes aegypti and Aedes albopictus in Europe and the United States following their introduction and predicted the future distributions of both species in response to accelerating urbanization, connectivity and climate change.
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