This site needs JavaScript to work properly. Please enable it to take advantage of the complete set of features!
Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

NIH NLM Logo
Log in
Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
Comparative Study
. 2017 Jun;112(6):447-451.
doi: 10.1590/0074-02760170134.

Genome analysis of yellow fever virus of the ongoing outbreak in Brazil reveals polymorphisms

Affiliations
Comparative Study

Genome analysis of yellow fever virus of the ongoing outbreak in Brazil reveals polymorphisms

Myrna C Bonaldo et al. Mem Inst Oswaldo Cruz. 2017 Jun.

Abstract

The current yellow fever outbreak in Brazil is the most severe one in the country in recent times. It has rapidly spread to areas where YF virus (YFV) activity has not been observed for more than 70 years and vaccine coverage is almost null. Here, we sequenced the whole YFV genome of two naturally infected howler-monkeys (Alouatta clamitans) obtained from the Municipality of Domingos Martins, state of Espírito Santo, Brazil. These two ongoing-outbreak genome sequences are identical. They clustered in the 1E sub-clade (South America genotype I) along with the Brazilian and Venezuelan strains recently characterised from infections in humans and non-human primates that have been described in the last 20 years. However, we detected eight unique amino acid changes in the viral proteins, including the structural capsid protein (one change), and the components of the viral replicase complex, the NS3 (two changes) and NS5 (five changes) proteins, that could impact the capacity of viral infection in vertebrate and/or invertebrate hosts and spreading of the ongoing outbreak.

PubMed Disclaimer

Figures

Fig. 1
Fig. 1. : detection of genomic RNA of yellow fever virus (YFV) by reverse transcriptase polymerase chain reaction (RT-PCR) analysis in plasma samples of howler monkeys from Velho Rio farm, in Areinha, Espírito Santo, Brazil. The numbered lanes refer to (1) positive control of the reaction that was performed with the YFV strain BeAn754036 obtained from insect C6/36 cell cultures; (2) YF RNA (strain ES-504/BRA/2017) and (3) YF RNA (strain ES-505/BRA/2017) that were extracted from howler-monkey plasma samples; and (4) a negative control of amplification. The size marker migration is indicated on the left of the figures, and the size of YFV amplicon is on the right.
Fig. 2
Fig. 2. : phylogenetic analysis based on the prM/E junction region of yellow fever virus (YFV) strains analysed in the current study and 71 YFV sequences retrieved from the National Centre for Biotechnology Information (NCBI). Only bootstrap values up to 80% are shown. YFV genotypes are shown at the right side of the figure. The scale bar at the bottom represents 0.1 substitutions per nucleotide position (nt. subst./site). YFV first described in the current study are marked with a filled triangle. Accession numbers of the strains belonging to the South America genotype II are AY161929, AY161931-32, AY161934-35, AY161941-42, AY161944-45, AY161947-48, AY161950-51, AY540433-35, AY540446, and AY540457.
Fig. 3
Fig. 3. : amino acid (aa) differences revealed by the alignment of the precursor polyproteins of 16 Brazilian and Venezuelan yellow fever (YF) viruses detected since 1980. On the left of the alignment data, the identification of clades and yellow fever virus (YFV) sequences are supplied. On the top of the alignment, the YF viral proteins positions are indicated along with the aa positions of aa differences. The set of aa residues highlighted in blue indicate a related-clade pattern. The orange-highlighted aa indicate the position of the current YF sequences compared to the other YF sequences. For simplicity, only the ES-505/BRA/2017 strain sequence data were included in this figure.

References

    1. Auguste AJ, Lemey P, Bergren NA, Giambalvo D, Moncada M, Morón D, et al. Enzootic transmission of yellow fever virus, Venezuela. Emerg Infect Dis. 2015;21(1):99–102. - PMC - PubMed
    1. Bryant JE, Holmes EC, Barrett AD. Out of Africa: a molecular perspective on the introduction of yellow fever virus into the Americas. e75PLoS Pathog. 2007;3(5) - PMC - PubMed
    1. COES - Febre Amarela Informe 32/2017. 2017. http://portalarquivos.saude.gov.br/images/pdf/2017/marco/16/COES-FEBRE-A....
    1. Souza RP, Foster PG, Sallum MA, Coimbra TL, Maeda AY, Silveira VR, et al. Detection of a new yellow fever virus lineage within the South American genotype I in Brazil. J Med Virol. 2010;82(1):175–185. - PubMed
    1. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution. 1985;39(4):783–791. - PubMed

Publication types

Full text links
Scientific Electronic Library Online full text link Scientific Electronic Library Online Free PMC article
Cite

AltStyle によって変換されたページ (->オリジナル) /