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zika Archives | Andersen Lab

Hidden Zika outbreak

By | Data

Summary: Using local and travel-associated case reporting from American and European public health systems, we identified an unreported Zika outbreak in Cuba during 2017. Virus sequencing from travelers revealed that the Zika outbreak in Cuba was sparked by multiple introductions of the virus from elsewhere in the Caribbean and Central America during 2016 that persisted into 2017. The recent Zika virus…

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Zika genomics commentary in Cell

By | Publications

The emergence and spread of Zika virus in the Americas continues to challenge our disease surveillance systems. Virus genome sequencing during the epidemic uncovered the timescale of Zika virus transmission and spread. Yet, we are only beginning to explore how genomics can enhance our responses to emerging viruses. Together with our colleagues Nuno Faria and Oliver Pybus at the University…

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PAHO Zika numbers

By | Data, News

Data here. Permanent Andersen Lab project link is here. Most epidemiological investigations of Zika virus during the current epidemic in the Americas requires temporal human case data. The only place to gather this information is is from the Pan American Health Organization (PAHO), an arm of the World Health Organization. They present Zika virus case numbers in two ways: spreadsheets of…

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Zika papers in Nature

By | Publications

In a series of papers in the journals Nature and Nature Protocols, we used Zika virus sequencing from patients and mosquitos to show how the virus has spread across South America and into Florida. This work was performed as a large (huge!) collaboration of national and international institutions, which was made possible because of open science and open data.

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Zika sequences from Miami mosquitoes

By | Data, News

Data here. Protocol here. Three pools of Aedes aegypti mosquitoes collected in Miami Beach on August 22nd and 23rd, 2016, were found to be infected with Zika virus. Through our collaborators, Scott Michael and Sharon Isern from Florida Gulf Coast University, we recently received samples of these mosquitoes for sequencing using our amplicon-based protocol for MiSeq.

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Zika sequence from local Florida transmission

By | Data, News

Data here. Protocol here. In collaboration with Dr. Diogo Magnani in the Watkins Laboratory in the Dept. of Pathology at the University of Miami’s Miller School of Medicine, we recently received plasma and saliva from two people with Zika virus infections living in the Miami area. Using our amplicon-based approach previously used to sequence Zika virus from travel-related Zika virus cases in…

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Travel-related Zika cases in Florida

By | Data, Protocols

Data here. Protocol here. In a collaboration with Scott Michael and Sharon Isern from Florida Gulf Coast University and Florida Department of Health, we have recently received several travel-related cases detected across Florida. We have now managed to sequence Zika virus genomes from three of these case and the data and analyses can be accessed here.

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MiSeq protocol for Zika virus sequencing

By | Data, Protocols

Amplicon-based protocol for Zika virus sequencing on the Illumina MiSeq The protocol can be found here. Sequencing Zika virus from the ongoing epidemic in the Americas is of critical importance. Data from the viral genome will help us determine how the virus is spreading, changes to viral population sizes, and if the virus is adapting to local conditions.

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