Table 1.
Epidemiological data for the sequenced samples.
Table 2.
Sequencing statistics for the 11 new obtained sequences.
Fig 1.
Molecular clock phylogeny of the CHIKV circulating in Rio de Janeiro state.
Molecular clock phylogeny obtained using 11 new CHIKV near-complete genomic sequences from the 2016–2018 epidemic in Rio de Janeiro, including 48 publicly available Brazilian CHIKV-ECSA lineage sequences. Numbers along branches represent clade posterior probability >0.90. Colours represent different locations.
Fig 2.
Map of the state of Rio de Janeiro.
The state of Rio de Janeiro is located in south-eastern region of Brazil and its municipalities, where samples from this study were collected, are coloured in the map (see legend). Red circles indicate sampling locations of the isolates generated in this study. Map was generated by QGIS v3 software.
Fig 3.
Weekly notified Chikungunya fever cases in the north-eastern and south-eastern regions of Brazil, 2015–2018.
Number of chikungunya fever cases by epidemiological week registered in the north-eastern and south-eastern regions of Brazil between 2015 and 2018. Epidemic curves are coloured according to geographical region (see legend). Number of cases from the state of Rio de Janeiro alone is represented by the green curve and it is not computed in the curve from southeast. Chart was generated by R software.