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Distinct genetic clades of enterovirus D68 detected in 2010, 2013, and 2015 in Osaka City, Japan.
PLoS One. 2017; 12(9):e0184335.Plos

Abstract

The first upsurge of enterovirus D68 (EV-D68), a causative agent of acute respiratory infections (ARIs), in Japan was reported in Osaka City in 2010. In this study, which began in 2010, we surveyed EV-D68 in children with ARIs and analyzed sequences of EV-D68 strains detected. Real-time PCR of 19 respiratory viruses or subtypes of viruses, including enterovirus, was performed on 2,215 specimens from ARI patients (<10 years of age) collected between November 2010 and December 2015 in Osaka City, Japan. EV-D68 was identified in 18 enterovirus-positive specimens (n = 4 in 2013, n = 1 in 2014, and n = 13 in 2015) by analysis of viral protein 1 (VP1) or VP4 sequences, followed by a BLAST search for similar sequences. All EV-D68 strains were detected between June and October (summer to autumn), except for one strain detected in 2014. A phylogenetic analysis of available VP1 sequences revealed that the Osaka strains detected in 2010, 2013, and 2015 belonged to distinct clusters (Clades C, A, and B [Subclade B3], respectively). Comparison of the 5' untranslated regions of these viruses showed that Osaka strains in Clades A, B (Subclade B3), and C commonly had deletions at nucleotide positions 681-703 corresponding to the prototype Fermon strain. Clades B and C had deletions from nucleotide positions 713-724. Since the EV-D68 epidemic in 2010, EV-D68 re-emerged in Osaka City, Japan, in 2013 and 2015. Results of this study indicate that distinct clades of EV-D68 contributed to re-emergences of this virus in 2010, 2013, and 2015 in this limited region.

Authors+Show Affiliations

Division of Microbiology, Osaka Institute of Public Health, Osaka, Japan.Division of Microbiology, Osaka Institute of Public Health, Osaka, Japan.Division of Microbiology, Osaka Institute of Public Health, Osaka, Japan.Division of Microbiology, Osaka Institute of Public Health, Osaka, Japan.Division of Microbiology, Osaka Institute of Public Health, Osaka, Japan.Osaka City General Hospital, Osaka, Japan.Osaka City General Hospital, Osaka, Japan.Nakano Children's Hospital, Osaka, Japan.Osaka Police Hospital, Osaka, Japan.Aizenbashi Hospital, Osaka, Japan.Asai Children's Clinic, Osaka, Japan.Influenza Virus Research Center, National Institute of Infectious Diseases, Tokyo, Japan.Division of Microbiology, Osaka Institute of Public Health, Osaka, Japan.

Pub Type(s)

Journal Article

Language

eng

PubMed ID

28902862

Citation

Kaida, Atsushi, et al. "Distinct Genetic Clades of Enterovirus D68 Detected in 2010, 2013, and 2015 in Osaka City, Japan." PloS One, vol. 12, no. 9, 2017, pp. e0184335.
Kaida A, Iritani N, Yamamoto SP, et al. Distinct genetic clades of enterovirus D68 detected in 2010, 2013, and 2015 in Osaka City, Japan. PLoS One. 2017;12(9):e0184335.
Kaida, A., Iritani, N., Yamamoto, S. P., Kanbayashi, D., Hirai, Y., Togawa, M., Amo, K., Kohdera, U., Nishigaki, T., Shiomi, M., Asai, S., Kageyama, T., & Kubo, H. (2017). Distinct genetic clades of enterovirus D68 detected in 2010, 2013, and 2015 in Osaka City, Japan. PloS One, 12(9), e0184335. https://doi.org/10.1371/journal.pone.0184335
Kaida A, et al. Distinct Genetic Clades of Enterovirus D68 Detected in 2010, 2013, and 2015 in Osaka City, Japan. PLoS One. 2017;12(9):e0184335. PubMed PMID: 28902862.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Distinct genetic clades of enterovirus D68 detected in 2010, 2013, and 2015 in Osaka City, Japan. AU - Kaida,Atsushi, AU - Iritani,Nobuhiro, AU - Yamamoto,Seiji P, AU - Kanbayashi,Daiki, AU - Hirai,Yuki, AU - Togawa,Masao, AU - Amo,Kiyoko, AU - Kohdera,Urara, AU - Nishigaki,Toshinori, AU - Shiomi,Masashi, AU - Asai,Sadasaburo, AU - Kageyama,Tsutomu, AU - Kubo,Hideyuki, Y1 - 2017/09/13/ PY - 2016/11/02/received PY - 2017/08/22/accepted PY - 2017/9/14/entrez PY - 2017/9/14/pubmed PY - 2017/11/1/medline SP - e0184335 EP - e0184335 JF - PloS one JO - PLoS One VL - 12 IS - 9 N2 - The first upsurge of enterovirus D68 (EV-D68), a causative agent of acute respiratory infections (ARIs), in Japan was reported in Osaka City in 2010. In this study, which began in 2010, we surveyed EV-D68 in children with ARIs and analyzed sequences of EV-D68 strains detected. Real-time PCR of 19 respiratory viruses or subtypes of viruses, including enterovirus, was performed on 2,215 specimens from ARI patients (<10 years of age) collected between November 2010 and December 2015 in Osaka City, Japan. EV-D68 was identified in 18 enterovirus-positive specimens (n = 4 in 2013, n = 1 in 2014, and n = 13 in 2015) by analysis of viral protein 1 (VP1) or VP4 sequences, followed by a BLAST search for similar sequences. All EV-D68 strains were detected between June and October (summer to autumn), except for one strain detected in 2014. A phylogenetic analysis of available VP1 sequences revealed that the Osaka strains detected in 2010, 2013, and 2015 belonged to distinct clusters (Clades C, A, and B [Subclade B3], respectively). Comparison of the 5' untranslated regions of these viruses showed that Osaka strains in Clades A, B (Subclade B3), and C commonly had deletions at nucleotide positions 681-703 corresponding to the prototype Fermon strain. Clades B and C had deletions from nucleotide positions 713-724. Since the EV-D68 epidemic in 2010, EV-D68 re-emerged in Osaka City, Japan, in 2013 and 2015. Results of this study indicate that distinct clades of EV-D68 contributed to re-emergences of this virus in 2010, 2013, and 2015 in this limited region. SN - 1932-6203 UR - https://www.unboundmedicine.com/medline/citation/28902862/Distinct_genetic_clades_of_enterovirus_D68_detected_in_2010_2013_and_2015_in_Osaka_City_Japan_ L2 - https://dx.plos.org/10.1371/journal.pone.0184335 DB - PRIME DP - Unbound Medicine ER -