Mutation Analysis of 2009 Pandemic Influenza A(H1N1) Viruses Collected in Japan during the Peak Phase of the Pandemic

Morlighem, Jean-Étienne; Aoki, Shintaro; Kishima, Mami; Hanami, Mitsue; Ogawa, Chihiro; Jalloh, Amadu; Takahashi, Yukari; Kawai, Yosuke; Saga, Satomi; Hayashi, Eiji; Ban, Toshiaki; Izumi, Shinyu; Wada, Akira; Mano, Masayuki; Fukunaga, Masao; Kijima, Yoshiyuki; Shiomi, Masashi; Inoue, Kaoru; Hata, Takeshi; Koretsune, Yukihiro; Kudo, Kohsuke; Himeno, Yuji; Hirai, Aizan; Takahashi, Kazuo; Sakai‐Tagawa, Yuko; Iwatsuki‐Horimoto, Kiyoko; Kawaoka, Yoshihiro; Hayashizaki, Yoshihide; Ishikawa, Toshihisa

doi:10.1371/journal.pone.0018956

Cited by 41 publications

(43 citation statements)

References 42 publications

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“…Some isolates identified in the present study also had low amino acid substitution rates (6.3z-18.8z) at positions I5R, L105W, N228D, V234L, V272I, T277A, K443E, S451N, and V527I, and a considerably high amino acid substitution rate (93.8z) at position E374K (Fig. 2, Table 2 H275Y and N295S mutations responsible for resistance to NA inhibitors (38,39) were not detected in any of the 16 isolates analyzed in this study (Table 1). (6).…”

Section: Resultssupporting

confidence: 51%

“…Infections with oseltamivir-resistant strains have been reported in both sporadic cases and a limited number of clusters during the post-pandemic period in several studies (36,37). Oseltamivir resistance-related mutations, such as NA-H275Y and NA-N295S, have been reported elswhere (38,39). To date, reports have indicated that only a limited number of influenza A(H1N1)pdm09 strains (º1z) showed resistance to neuraminidase inhibitors (40).…”

Section: Resultsmentioning

confidence: 99%

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Monitoring Genetic Diversity of Influenza A(H1N1)pdm09 Virus Circulating during the Post-Pandemic Period in Turkey

Güldemir¹,

Kalaycioglu²,

Altaş³

et al. 2013

Jpn J Infect Dis

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SUMMARY:The aimes of the present study were to monitor genetic alterations in the hemagglutin (HA) gene and oseltamivir resistance-related alterations in the neuraminidase (NA) gene of influenza A(H1N1)pdm09 viral isolates detected during the post-pandemic period in Turkey. A total of 2601 clinical specimens obtained from suspected cases of influenza A(H1N1)pdm09 viral infections were analyzed by real-time reverse transcription polymerase chain reaction. Viral RNA was detected in 233 (9z) clinical specimens. Sequence analysis of the HA gene in 16 random isolates showed À98.7z homology among each other and with the A/California/07/2009 vaccine strain. These 16 isolates had common (75z-100z) amino acid substitiutions at positions P83S, D97N, S203T, R205K, I216V, V249L, I321V, and E374K in the HA gene. In addition, two additional rare mutations were also observed at positions S162N (addition of a glycosylation site, 6.25z) and A186T (receptor binding region, 6.25z). On the basis of amino acid substitutions in the HA1 domain, majority of the Turkish isolates were classified in the genetic group v and others in the genetic groups ii, iii, and vi. In the present study, we observed an increase in the variety and ratio of mutations detected in the HA1 and HA2 domains of the HA gene; however, these alterations have not yet resulted in vaccine escape mutants in Turkey. In addition, analysis of the NA regions of the isolates revealed that oseltamivir resistance was not an issue in Turkey.

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Section: Resultssupporting

confidence: 51%

Section: Resultsmentioning

confidence: 99%

Monitoring Genetic Diversity of Influenza A(H1N1)pdm09 Virus Circulating during the Post-Pandemic Period in Turkey

Güldemir¹,

Kalaycioglu²,

Altaş³

et al. 2013

Jpn J Infect Dis

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“…HA-Asn185 is located in the Ca antigenic site [6], [21], being found in the HA protein of the reported sequences of the 1918 influenza viruses [22]–[23]. There was no mutation associated with oseltamivir-resistance in the NA segment in this patient (data not shown).…”

Section: Resultsmentioning

confidence: 69%

“…LAMP is mainly used for pathogen detection with rapid and accurate detection [32], whereas SmartAmp is a particularly useful method for SNP and mutation detection [16], [18]. It is well known that the His-to-Tyr substitution at amino acid residue 275 confers the 2009 pdm influenza A(H1N1) virus oseltamivir-resistance, and this mutation was detected in patients infected with 2009 pdm influenza A(H1N1) viruses in our clinical study [6]. It has been reported that the oseltamivir-resistant 2009 pdm influenza A(H1N1) viruses were as pathogenic and transmittable as their drug-sensitive counterparts [14].…”

Section: Discussionmentioning

confidence: 72%

One-Step Detection of the 2009 Pandemic Influenza A(H1N1) Virus by the RT-SmartAmp Assay and Its Clinical Validation

et al. 2012

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BackgroundIn 2009, a pandemic (pdm) influenza A(H1N1) virus infection quickly circulated globally resulting in about 18,000 deaths around the world. In Japan, infected patients accounted for 16% of the total population. The possibility of human-to-human transmission of highly pathogenic novel influenza viruses is becoming a fear for human health and society.MethodologyTo address the clinical need for rapid diagnosis, we have developed a new method, the “RT-SmartAmp assay”, to rapidly detect the 2009 pandemic influenza A(H1N1) virus from patient swab samples. The RT-SmartAmp assay comprises both reverse transcriptase (RT) and isothermal DNA amplification reactions in one step, where RNA extraction and PCR reaction are not required. We used an exciton-controlled hybridization-sensitive fluorescent primer to specifically detect the HA segment of the 2009 pdm influenza A(H1N1) virus within 40 minutes without cross-reacting with the seasonal A(H1N1), A(H3N2), or B-type (Victoria) viruses.Results and ConclusionsWe evaluated the RT-SmartAmp method in clinical research carried out in Japan during a pandemic period of October 2009 to January 2010. A total of 255 swab samples were collected from outpatients with influenza-like illness at three hospitals and eleven clinics located in the Tokyo and Chiba areas in Japan. The 2009 pdm influenza A(H1N1) virus was detected by the RT-SmartAmp assay, and the detection results were subsequently compared with data of current influenza diagnostic tests (lateral flow immuno-chromatographic tests) and viral genome sequence analysis. In conclusion, by the RT-SmartAmp assay we could detect the 2009 pdm influenza A(H1N1) virus in patients' swab samples even in early stages after the initial onset of influenza symptoms. Thus, the RT-SmartAmp assay is considered to provide a simple and practical tool to rapidly detect the 2009 pdm influenza A(H1N1) virus.

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“…According to Indian health officials, the pH1N1 strain has not changed much from the first strain that emerged in 2009 [20]. The phylogenetic analysis based on partial HA1 gene sequences of study strains revealed the presence of 2 mutations (S220T and S202T) in HA1 gene of all study strains which are specific to clade 7 genotype of pH1N1 [6,10,[21][22][23].…”

Section: Discussionmentioning

confidence: 99%

Changes in Hemagglutinin and Neuraminidase Genes of pH1N1 Influenza Virus Strains Collected from a North Indian Tertiary Care Hospital during 2015

2017

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Objective: The study was conducted to analyze changes in HA and NA genes of pandemic pH1N1 strains, collected from North Indian tertiary care hospital during 2015 and studied the nucleotide change since 2009. Differences in clinical features of cases positive and negative for influenza viruses were also studied. Methods: All samples referred for H1N1 testing, were tested for influenza viruses. Randomly selected 25 strains of pH1N1 were studied for nucleotide sequences of HA & NA gene. The nucleotide changes occurring since 2009 were studied by mutational and phylogenetic analysis. Clinical details of cases were recorded and analysed. Results: A total of 3319 cases of acute respiratory infections (ILI/SARI) were tested for influenza viruses during Jan to April 2015, of which 815 cases tested positive for pH1N1. Nucleotide variation of 2015 strains, from influenza A/California/07/2009 strain at HA1 and NA1 gene was 1.9% and 3.8% respectively. Both HA1 and NA1 coding sequence showed eight mutations. Four of HA1(K180Q, S202T, S220T, and A273T) and NA1 (N200S, V241I, N248D, and N270K) mutations were observed in all pH1N1 study strains. Conclusions: Strains of pH1N1 isolated during year 2015 diverged from previously circulating strains. Their association with severity of illness needs to be further studied.

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Mutation Analysis of 2009 Pandemic Influenza A(H1N1) Viruses Collected in Japan during the Peak Phase of the Pandemic

Cited by 41 publications

References 42 publications

Monitoring Genetic Diversity of Influenza A(H1N1)pdm09 Virus Circulating during the Post-Pandemic Period in Turkey

Monitoring Genetic Diversity of Influenza A(H1N1)pdm09 Virus Circulating during the Post-Pandemic Period in Turkey

One-Step Detection of the 2009 Pandemic Influenza A(H1N1) Virus by the RT-SmartAmp Assay and Its Clinical Validation

Changes in Hemagglutinin and Neuraminidase Genes of pH1N1 Influenza Virus Strains Collected from a North Indian Tertiary Care Hospital during 2015

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