Functional evolution of Zika virus in the Americas

Summary

To assess the functional evolution of ZIKV, we're generating a library of infectious clones that span the recent ZIKV outbreak in the Americas. We're introducing mutations into the the Pariaba_01 strain to represent the 10 major American ZIKV clades which are defined by amino acid changes. We've also included three clades (also defined by amino acid changes) which pre-date the American outbreak. We will use replicative and competitive fitness assays in mosquitoes and various cell lines to map the phenotypes of these clones.

Zika virus Infectious Clones

Clade ZIKV Genome Locus Gene AA location Ancestor AA Mutant AA Comments
AM-A 3534 NS1 349 M V
AM-B (Paraiba_01) No Changes
AM-C 8631 NS5 322 I V
10301 NS5 878 D E
AM-D 8631 NS5 322 I V
10090 NS5 808 T I In progress...
10301 NS5 878 D E
AM-E 3534 NS1 349 M V
2788 NS1 100 G A
6327 NS3 572 M L
9240 NS5 525 R C In progress...
AM-F 3534 NS1 349 M V
428 C 107 D E
AM-G 3534 NS1 349 M V
428 C 107 D E
3459 NS1 324 R W
10164 NS5 833 T A
AM-H 345 C 80 I T
3534 NS1 349 M V
AM-I 345 C 80 I T
3534 NS1 349 M V
8467 NS5 267 V A
AM-J 3534 NS1 349 M V
2788 NS1 100 G A
6327 NS3 572 M L
4731 NS3 40 V I
9240 NS5 525 R C
Pre-AM-1 3534 NS1 349 M V
8007 NS5 114 M V
Pre-AM-2 3534 NS1 349 M V
523 prM 17 S N
6363 NS3 584 Y H
8007 NS5 114 M V
Pre-AM-3 3534 NS1 349 M V
8007 NS5 114 M V
523 prM 17 S N
6363 NS3 584 Y H
3070 NS1 194 V A

Disclaimer. Please note that this data is still based on work in progress and should be considered preliminary. If you intend to include any of these data in publications, please let us know – otherwise please feel free to download and use without restrictions. We have shared this data with the hope that people will download and use it, as well as scrutinize it so we can improve our methods and analyses. Please contact us if you have any questions or comments – we’ll buy beers for #ResearchParasites that spot flaws and faults in the data and come up with improvements!


Andersen Lab
The Scripps Research Institute
La Jolla, CA, USA
[email protected]

People

GitHub Commits

  • Update README.md
    Source: zika-functional-evolution2019-01-18
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    Source: zika-functional-evolution2019-01-17
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    Source: zika-functional-evolution2019-01-17
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    Source: zika-functional-evolution2019-01-17
  • update
    Source: zika-functional-evolution2019-01-17

Data

Collaborators

Nate Grubaugh
Yale School of Public Health

Greg Ebel
Colorado State University

Funding

niaid