Complete Genome Sequences of Zika Virus Strains Isolated from the Blood of Patients in Thailand in 2014 and the Philippines in 2012

Overview

Journal Genome Announc

Publisher American Society for Microbiology

Date 2016 May 14

PMID 27174274

Citations 20

Authors

D W Ellison

J T Ladner

R Buathong

M T Alera

M R Wiley

L Hermann

W Rutvisuttinunt

C Klungthong

P Chinnawirotpisan

W Manasatienkij

M C Melendrez

I Maljkovic Berry

B Thaisomboonsuk

P Ong-Ajchaowlerd

W Kaneechit

J M Velasco

I A Tac-An

D Villa

C B Lago

V G Roque Jr

T Plipat

A Nisalak

A Srikiatkhachorn

S Fernandez

I K Yoon

A D Haddow

G F Palacios

R G Jarman

L R Macareo

Affiliations

Soon will be listed here.

Abstract

Here, we present the complete genome sequences of two Zika virus (ZIKV) strains, Zika virus/Homo sapiens-tc/THA/2014/SV0127-14 and Zika virus/H. sapiens-tc/PHL/2012/CPC-0740, isolated from the blood of patients collected in Thailand, 2014, and the Philippines, 2012, respectively. Sequencing and phylogenetic analysis showed that both strains belong to the Asian lineage.

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References

Kuno G, Chang G . Full-length sequencing and genomic characterization of Bagaza, Kedougou, and Zika viruses. Arch Virol. 2007; 152(4):687-96. DOI: 10.1007/s00705-006-0903-z. View

Langmead B, Salzberg S . Fast gapped-read alignment with Bowtie 2. Nat Methods. 2012; 9(4):357-9. PMC: 3322381. DOI: 10.1038/nmeth.1923. View

Boisvert S, Raymond F, Godzaridis E, Laviolette F, Corbeil J . Ray Meta: scalable de novo metagenome assembly and profiling. Genome Biol. 2012; 13(12):R122. PMC: 4056372. DOI: 10.1186/gb-2012-13-12-r122. View

Djikeng A, Halpin R, Kuzmickas R, DePasse J, Feldblyum J, Sengamalay N . Viral genome sequencing by random priming methods. BMC Genomics. 2008; 9:5. PMC: 2254600. DOI: 10.1186/1471-2164-9-5. View

Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N . The Sequence Alignment/Map format and SAMtools. Bioinformatics. 2009; 25(16):2078-9. PMC: 2723002. DOI: 10.1093/bioinformatics/btp352. View

Lanciotti R, Kosoy O, Laven J, Velez J, Lambert A, Johnson A . Genetic and serologic properties of Zika virus associated with an epidemic, Yap State, Micronesia, 2007. Emerg Infect Dis. 2008; 14(8):1232-9. PMC: 2600394. DOI: 10.3201/eid1408.080287. View

Ladner J, Beitzel B, Chain P, Davenport M, Donaldson E, Frieman M . Standards for sequencing viral genomes in the era of high-throughput sequencing. mBio. 2014; 5(3):e01360-14. PMC: 4068259. DOI: 10.1128/mBio.01360-14. View

Haddow A, Schuh A, Yasuda C, Kasper M, Heang V, Huy R . Genetic characterization of Zika virus strains: geographic expansion of the Asian lineage. PLoS Negl Trop Dis. 2012; 6(2):e1477. PMC: 3289602. DOI: 10.1371/journal.pntd.0001477. View

Leguia M, Loyola S, Rios J, Juarez D, Guevara C, Silva M . Full Genomic Characterization of a Saffold Virus Isolated in Peru. Pathogens. 2015; 4(4):816-25. PMC: 4693166. DOI: 10.3390/pathogens4040816. View

10.

Schmieder R, Edwards R . Quality control and preprocessing of metagenomic datasets. Bioinformatics. 2011; 27(6):863-4. PMC: 3051327. DOI: 10.1093/bioinformatics/btr026. View

11.

Alera M, Hermann L, Tac-An I, Klungthong C, Rutvisuttinunt W, Manasatienkij W . Zika virus infection, Philippines, 2012. Emerg Infect Dis. 2015; 21(4):722-4. PMC: 4378478. DOI: 10.3201/eid2104.141707. View

12.

Calvet G, Aguiar R, Melo A, Sampaio S, de Filippis I, Fabri A . Detection and sequencing of Zika virus from amniotic fluid of fetuses with microcephaly in Brazil: a case study. Lancet Infect Dis. 2016; 16(6):653-660. DOI: 10.1016/S1473-3099(16)00095-5. View

13.

Guindon S, Dufayard J, Lefort V, Anisimova M, Hordijk W, Gascuel O . New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. Syst Biol. 2010; 59(3):307-21. DOI: 10.1093/sysbio/syq010. View

14.

Buathong R, Hermann L, Thaisomboonsuk B, Rutvisuttinunt W, Klungthong C, Chinnawirotpisan P . Detection of Zika Virus Infection in Thailand, 2012-2014. Am J Trop Med Hyg. 2015; 93(2):380-383. PMC: 4530765. DOI: 10.4269/ajtmh.15-0022. View