Zika virus produces noncoding RNAs using a multi-pseudoknot structure that confounds a cellular exonuclease

Akiyama, Benjamin M.; Laurence, Hannah M.; Massey, Aaron R.; Costantino, David A.; Xie, Xuping; Yang, Yujiao; Shi, Pei-Yong -Y.; Nix, Jay C.; Beckham, J. David; Kieft, Jeffrey S.

doi:10.1126/science.aah3963

Zika virus produces noncoding RNAs using a multi-pseudoknot structure that confounds a cellular exonuclease

Journal Article · Thu Nov 10 00:00:00 EST 2016 · Science

DOI:https://doi.org/10.1126/science.aah3963· OSTI ID:1411558

Akiyama, Benjamin M. ^[1]; Laurence, Hannah M. ^[2]; Massey, Aaron R. ^[3]; Costantino, David A. ^[1]; Xie, Xuping ^[4]; Yang, Yujiao ^[4]; Shi, Pei-Yong -Y. ^[4]; Nix, Jay C. ^[5]; Beckham, J. David ^[3]; Kieft, Jeffrey S. ^[6]

Univ. of Colorado, Aurora, CO (United States). Denver School of Medicine, Dept. of Biochemistry and Molecular Genetics
Univ. of Colorado, Aurora, CO (United States). Denver School of Medicine, Dept. of Biochemistry and Molecular Genetics; Univ. of Colorado, Aurora, CO (United States). Denver School of Medicine, Howard Hughes Medical Inst. (HHMI); Univ. of California, Davis, CA (United States). School of Veterinary Medicine
Univ. of Colorado, Aurora, CO (United States). Denver School of Medicine, Dept. Medicine, Division of Infectious Diseases
Univ. of Texas, Galveston, TX (United States). Medical Branch, Dept. of Biochemistry and Molecular Biology
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Advanced Light Source (ALS), Molecular Biology Consortium
Univ. of Colorado, Aurora, CO (United States). Denver School of Medicine, Dept. of Biochemistry and Molecular Genetics; Univ. of Colorado, Aurora, CO (United States). Denver School of Medicine, RNA BioScience Initiative

The outbreak of Zika virus (ZIKV) and associated fetal microcephaly mandates efforts to understand the molecular processes of infection. Related flaviviruses produce noncoding subgenomic flaviviral RNAs (sfRNAs) that are linked to pathogenicity in fetal mice. These viruses make sfRNAs by co-opting a cellular exonuclease via structured RNAs called xrRNAs. We found that ZIKV-infected monkey and human epithelial cells, mouse neurons, and mosquito cells produce sfRNAs. The RNA structure that is responsible for ZIKV sfRNA production forms a complex fold that is likely found in many pathogenic flaviviruses. Mutations that disrupt the structure affect exonuclease resistance in vitro and sfRNA formation during infection. The complete ZIKV xrRNA structure clarifies the mechanism of exonuclease resistance and identifies features that may modulate function in diverse flaviviruses.

View Accepted Manuscript (DOE)

Research Organization:: Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Basic Energy Sciences (BES) (SC-22)

Grant/Contract Number:: AC02-05CH11231

OSTI ID:: 1411558

Journal Information:: Science, Journal Name: Science Journal Issue: 6316 Vol. 354; ISSN 0036-8075

Publisher:: AAASCopyright Statement

Country of Publication:: United States

Language:: English

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Characterization of cis -Acting RNA Elements of Zika Virus by Using a Self-Splicing Ribozyme-Dependent Infectious Clone Liu, Zhong-Yu; Yu, Jiu-Yang; Huang, Xing-Yao Journal of Virology, Vol. 91, Issue 21 https://doi.org/10.1128/jvi.00484-17	journal	August 2017
COMRADES determines in vivo RNA structures and interactions. Ziv, Omer; Gabryelska, Marta M.; Lun, Aaron Apollo - University of Cambridge Repository https://doi.org/10.17863/cam.27268	text	January 2018
Circularization of flavivirus genomic RNA inhibits de novo translation initiation. Sanford, Thomas; Mears, Harriet; Fajardo, Teodoro Apollo - University of Cambridge Repository https://doi.org/10.17863/cam.42161	text	January 2019
Functional RNA Structures in the 3'UTR of Tick-Borne, Insect-Specific and No-Known-Vector Flaviviruses Ochsenreiter, Roman; Hofacker, Ivo L.; Wolfinger, Michael T. Viruses https://doi.org/10.20944/preprints201903.0041.v1	journal	March 2019
Evolution of Subgenomic RNA Shapes Dengue Virus Adaptation and Epidemiological Fitness Finol, Esteban; Ooi, Eng Eong SSRN Electronic Journal https://doi.org/10.2139/ssrn.3295648	journal	January 2018
The 5′ and 3′ Untranslated Regions of the Flaviviral Genome Ng, Wy; Soto-Acosta, Ruben; Bradrick, Shelton Viruses, Vol. 9, Issue 6 https://doi.org/10.3390/v9060137	journal	June 2017

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