BibTex format
@article{Han:2025:10.1111/irv.70089,
author = {Han, SM and Shiino, T and Masuda, S and Furuse, Y and Yasaka, T and Kanda, S and Komori, K and Saito, N and Kubo, Y and Smith, C and Endo, A and Robert, A and Baguelin, M and Ariyoshi, K},
doi = {10.1111/irv.70089},
journal = {Influenza Other Respir Viruses},
title = {Phylogenetic Study of Local Patterns Influenza A(H3N2) Virus Transmission in a Semi-Isolated Population in a Remote Island in Japan Between 2011 and 2013.},
url = {http://dx.doi.org/10.1111/irv.70089},
volume = {19},
year = {2025}
}
RIS format (EndNote, RefMan)
TY - JOUR
AB - BACKGROUND: Influenza A outbreak risk is impacted by the potential for importation and local transmission. Reconstructing transmission history with phylogenetic analysis of genetic sequences can help assess outbreak risk but relies on regular collection of genetic sequences. Few influenza genetic sequences are collected in Japan, which makes phylogenetic analysis challenging, especially in rural, remote settings. We generated influenza A genetic sequences from nasopharyngeal swabs (NPS) samples collected using rapid influenza diagnostic tests and used them to analyze the transmission dynamics of influenza in a remote island in Japan. METHODS: We generated 229 whole genome sequences of influenza A/H3N2 collected during 2011/12 and 2012/13 influenza seasons in Kamigoto Island, Japan, of which 178 sequences passed the quality check. We built time-resolved phylogenetic trees from hemagglutinin sequences to classify the circulating clades by comparing the Kamigoto sequences to global sequences. Spatiotemporal transmission patterns were then analyzed for the largest local clusters. RESULTS: Using a time-resolved phylogenetic tree, we showed that the sequences clustered in six independent transmission groups (1 in 2011/12, 5 in 2012/13). Sequences were closely related to strains from mainland Japan. All 2011/12 strains were identified as clade 3C.2 (n = 29), while 2012/13 strains fell into two clades: clade 3C.2 (n = 129) and 3C.3a (n = 20). Clusters reported in 2012/13 circulated simultaneously in the same regions. The spatiotemporal analysis of the largest cluster revealed that while the first sequences were reported in the busiest district of Kamigoto, the later sequences were scattered across the island. CONCLUSION: Kamigoto Island was exposed to repeated importations of Influenza A(H3N2), mostly from mainland Japan, sometimes leading to local transmission and ultimately outbreaks. As independent groups of sequences overlapped
AU - Han,SM
AU - Shiino,T
AU - Masuda,S
AU - Furuse,Y
AU - Yasaka,T
AU - Kanda,S
AU - Komori,K
AU - Saito,N
AU - Kubo,Y
AU - Smith,C
AU - Endo,A
AU - Robert,A
AU - Baguelin,M
AU - Ariyoshi,K
DO - 10.1111/irv.70089
PY - 2025///
TI - Phylogenetic Study of Local Patterns Influenza A(H3N2) Virus Transmission in a Semi-Isolated Population in a Remote Island in Japan Between 2011 and 2013.
T2 - Influenza Other Respir Viruses
UR - http://dx.doi.org/10.1111/irv.70089
UR - https://www.ncbi.nlm.nih.gov/pubmed/40065520
VL - 19
ER -