Spread of a Novel Indian Ocean Lineage Carrying E1‐K211E/E2‐V264A of Chikungunya Virus East/Central/South African Genotype across the Indian Subcontinent, Southeast Asia, and Eastern Africa
Issued Date
2022-02-01
Resource Type
eISSN
20762607
Scopus ID
2-s2.0-85123834042
Journal Title
Microorganisms
Volume
10
Issue
2
Rights Holder(s)
SCOPUS
Bibliographic Citation
Microorganisms Vol.10 No.2 (2022)
Suggested Citation
Phadungsombat J., Imad H.A., Nakayama E.E., Leaungwutiwong P., Ramasoota P., Nguitragool W., Matsee W., Piyaphanee W., Shioda T. Spread of a Novel Indian Ocean Lineage Carrying E1‐K211E/E2‐V264A of Chikungunya Virus East/Central/South African Genotype across the Indian Subcontinent, Southeast Asia, and Eastern Africa. Microorganisms Vol.10 No.2 (2022). doi:10.3390/microorganisms10020354 Retrieved from: https://repository.li.mahidol.ac.th/handle/20.500.14594/85024
Title
Spread of a Novel Indian Ocean Lineage Carrying E1‐K211E/E2‐V264A of Chikungunya Virus East/Central/South African Genotype across the Indian Subcontinent, Southeast Asia, and Eastern Africa
Other Contributor(s)
Abstract
The Indian Ocean Lineage (IOL) of the chikungunya virus (CHIKV) East/Central/South African (ECSA) genotype, which originated in Kenya, spread to the Indian ocean and the Indian subcontinent, and then expanded through Southeast Asia in the previous decade. It carried an adaptive mutation E1‐A226V, which enhances CHIKV replication in Aedes albopictus. However, the IOL CHIKV of the most recent outbreaks during 2016–2020 in India, Pakistan, Bangladesh, the Maldives, Myanmar, Thailand, and Kenya lacked E1‐A226V but carried E1‐K211E and E2‐V264A. Recent CHIKV genome sequences of the Maldives and Thailand were determined, and their phylogenetic relationships were further investigated together with IOL sequences reported in 2004–2020 in the database. The results showed that the ancestral IOLs diverged to a sub‐lineage E1‐K211E/E2‐V264A, probably in India around 2008, and caused sporadic outbreaks in India during 2010–2015 and in Kenya in 2016. The massive expansion of this new sub‐lineage occurred after the acquisition of E1‐ I317V in other neighboring and remote regions in 2014–2020. Additionally, the phylogenetic tree indicated that independent clades formed according to the geographical regions and introduction timing. The present results using all available partial or full sequences of the recent CHIKVs emphasized the dynamics of the IOL sub‐lineages in the Indian subcontinent, Southeast Asia, and Eastern Africa.