Phylogenetic and cluster analysis of human rhinovirus species A (HRV-A) isolated from children with acute respiratory infections in Yamagata, Japan

Mizuta, Katsumi; Hirata, Asumi; Suto, Asuka; Aoki, Yoko; Ahiko, Tadayuki; Itagaki, Tsutomu; Tsukagoshi, Hiroyuki; Morita, Yukio; Obuchi, Masatsugu; Akiyama, Miho; Okabe, Nobuhiko; Noda, Masahiro; Tashiro, Masato; Kimura, Hirokazu

doi:10.1016/j.virusres.2009.11.011

Cited by 23 publications

(34 citation statements)

References 27 publications

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“…Stocks of RV14 (a major-group RV) and RV2 (a minorgroup RV) (6,11,12) were prepared from a patient with a common cold by infecting human embryonic fibroblast cells as previously described (22,34). Stocks of RV15 (a major-group RV) (39) were also prepared as previously described (18). We used RV stocks that had been passaged 3 to 5 times.…”

Section: Methodsmentioning

confidence: 99%

Levofloxacin Inhibits Rhinovirus Infection in Primary Cultures of Human Tracheal Epithelial Cells

Yamaya

Nishimura²,

Hatachi

et al. 2012

Antimicrob Agents Chemother

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ABSTRACTRespiratory virus infections, including infections with rhinoviruses (RVs), are related to exacerbations of chronic obstructive pulmonary disease (COPD). A new quinolone antibiotic, levofloxacin (LVFX), has been used to treat bacterial infections that cause COPD exacerbations as well as bacterial infections that are secondary to viral infection in COPD patients. However, the inhibitory effects of LVFX on RV infection and RV infection-induced airway inflammation have not been studied. We examined the effects of LVFX on type 14 rhinovirus (RV14) (a major human RV) infection of human tracheal epithelial cells pretreated with LVFX. LVFX pretreatment reduced the RV14 titer, the level of cytokines in the supernatant, the amount of RV14 RNA in the cells after RV14 infection, and the cells' susceptibility to RV14 infection. LVFX pretreatment decreased the mRNA level of intercellular adhesion molecule 1 (ICAM-1), a receptor for RV14, in the cells and the concentration of the soluble form of ICAM-1 in the supernatant before RV14 infection. LVFX pretreatment also decreased the number and the fluorescence intensity of the acidic endosomes from which RV14 RNA enters the cytoplasm. LVFX pretreatment inhibited the activation of nuclear factor κB proteins, including p50 and p65, in nuclear extracts. LVFX pretreatment did not reduce the titers of RV2 (a minor human RV) but reduced the titers of RV15 (a major human RV). These results suggest that LVFX inhibits major-group rhinovirus infections in part by reducing ICAM-1 expression levels and the number of acidic endosomes. LVFX may also modulate airway inflammation in rhinoviral infections.

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Section: Methodsmentioning

confidence: 99%

Levofloxacin Inhibits Rhinovirus Infection in Primary Cultures of Human Tracheal Epithelial Cells

Yamaya

Nishimura²,

Hatachi

et al. 2012

Antimicrob Agents Chemother

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“…HRV-A and -C may have a wide genetic divergence (Mizuta et al, 2010;Wisdom et al, 2009). Indeed, our previous report indicated that HRV-A strains isolated from Japanese people with various ARIs showed .30 % divergence based on sequences of the VP4/VP2 coding region and were classified into many clusters by phylogenetic analysis (Mizuta et al, 2010).…”

Section: Introductionmentioning

confidence: 99%

Molecular epidemiological study of human rhinovirus species A, B and C from patients with acute respiratory illnesses in Japan

Arakawa

Okamoto-Nakagawa²,

Toda³

et al. 2012

Journal of Medical Microbiology

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Recent studies suggest that human rhinovirus species A, B and C (HRV-ABCs) may be associated with both the common cold and severe acute respiratory illnesses (ARIs) such as bronchiolitis, wheezy bronchiolitis and pneumonia. However, the state and molecular epidemiology of these viruses in Japan is not fully understood. This study detected the genomes of HRV-ABCs from Japanese patients (92 cases, 0-36 years old, mean±SD 3.5±5.0 years) with various ARIs including upper respiratory infection, bronchiolitis, wheezy bronchiolitis, croup and pneumonia between January and December 2010. HRV-ABCs were provisionally type assigned from the pairwise distances among the strains. On phylogenetic trees based on the nucleotide sequences of the VP4/VP2 coding region, HRV-A, -B and -C were provisionally assigned to 14, 2 and 12 types, respectively. The present HRV-A and -C strains had a wide genetic diversity (.30 % divergence). The interspecies distances were 0.230±0.063 (mean±SD, HRV-A), 0.218±0.048 (HRV-B) and 0.281±0.105 (HRV-C), based on nucleotide sequences, and 0.075±0.036 (HRV-A), 0.049±0.022 (HRV-B) and 0.141±0.064 (HRV-C) at the deduced amino acid level. Furthermore, HRV-A and -C were the predominant species and were detected throughout the seasons. The results suggested that HRV-A and -C strains have a wide genetic divergence and are associated with various ARIs in Japan.3These authors contributed equally to this work.Abbreviations: ARI, acute respiratory illness; HRV-ABCs, human rhinovirus species A, B and C; NPS, nasopharyngeal swab; URI, upper respiratory infection.

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“…The reliability of the tree was estimated using 1000 bootstrap replications. In addition, the pairwise distances for the present strains were calculated to assess the frequency distribution, as previously described (13). We detected other respiratory viruses in the present samples using (RT)-PCR methods for RSV (14), human parainfluenza viruses type 1-3 (HPIV1-3) (15), human rhinoviruses (HRV) (16,17), and human bocaviruses (HBoV) (18).…”

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Molecular Epidemiology of Human Metapneumovirus from 2009 to 2011 in Okinawa, Japan

et al. 2012

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SUMMARY:To clarify the molecular epidemiology of human metapneumovirus (HMPV) in Okinawa Prefecture, located in a subtropical region of Japan, we performed genetic analysis of the F gene in HMPV from patients with acute respiratory infection from January 2009 to December 2011. HMPV was detected in 18 of 485 throat swabs (3.7z). Phylogenetic analysis showed that 17 strains belonged to subgroup A2 and 1 strain belonged to subgroup B1. We did not observe seasonal prevalence of HMPV during the investigation period. A high level of sequence identity was observed in the strains belonging to subgroup A2 (À95z), and no amino acid substitution was found compared with other strains detected in Japan and other countries. The pairwise distance values among the present strains belonging to subgroup A2 were short. Our results suggest that the predominant HMPV strains belonging to A2 are highly homologous and seasonal epidemics were not seen in Okinawa during the investigation period.

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Phylogenetic and cluster analysis of human rhinovirus species A (HRV-A) isolated from children with acute respiratory infections in Yamagata, Japan

Cited by 23 publications

References 27 publications

Levofloxacin Inhibits Rhinovirus Infection in Primary Cultures of Human Tracheal Epithelial Cells

Levofloxacin Inhibits Rhinovirus Infection in Primary Cultures of Human Tracheal Epithelial Cells

Molecular epidemiological study of human rhinovirus species A, B and C from patients with acute respiratory illnesses in Japan

Molecular Epidemiology of Human Metapneumovirus from 2009 to 2011 in Okinawa, Japan

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