Molecular evolution of the fusion protein gene in human respiratory syncytial virus subgroup A

Kimura, Hirokazu; Nagasawa, Kinzo; Tsukagoshi, Hiroyuki; Matsushima, Yuki; Fujita, Kiyotaka; Yoshida, Lay‐Myint; Tanaka, Ryota; Ishii, Haruyuki; Shimojo, Naoki; Kuroda, Makoto; Ryo, Akihide

doi:10.1016/j.meegid.2016.06.019

Cited by 19 publications

(18 citation statements)

References 43 publications

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“…Our findings for the predicted evolutionary rate of the F gene of HRV3 (9.40 × 10 −4 substitutions/site/year) were identical to those of other RNA viruses, which were predicted to have a nucleotide substitution rate of approximately 10 −3 -10 −4 (Karron and Collins, 2013). Furthermore, previous reports show similar rates for the HRSV-A and HRSV-B F gene (7.59 × 10 −4 substitutions/site/year and 7.14 × 10 −4 substitutions/site/year, respectively) (Kimura et al, 2016(Kimura et al, , 2017. These results suggest that the HRV3 F gene evolved in a manner similar to other respiratory viruses such as HRSV.…”

Section: Discussionsupporting

confidence: 78%

Molecular Evolution of the Fusion Protein (F) Gene in Human Respirovirus 3

et al. 2020

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To elucidate the evolution of human respirovirus 3 (HRV3), we performed detailed genetic analyses of the F gene (full-length) detected from hundreds of HRV3 strains obtained from various geographic regions. First, we performed time-scaled evolutionary analyses using the Bayesian Markov chain Monte Carlo method. Then, we performed analyses of phylodynamics, similarity, phylogenetic distance, selective pressure, and conformational B-cell epitope with the F-protein structural analyses. Time-scaled phylogenetic tree showed that the common ancestor of HRV3 and bovine respirovirus 3 diverged over 300 years ago and subdivided it into three major clusters and four subclusters during the most recent 100 years. The overall evolutionary rate was approximately 10 −3 substitutions/site/year. Indigenous similarity was seen in the present strains, and the mean phylogenetic distance were 0.033. Many negative selection sites were seen in the ectodomain. The conformational epitopes did not correspond to the neutralizing antibody binding sites. These results suggest that the HRV3 F gene is relatively conserved and restricted in this diversity to preserve the protein function, although these strains form many branches on the phylogenetic tree. Furthermore, HRV3 reinfection may be responsible for discordances between the conformational epitopes and the neutralizing antibody binding sites of the F protein. These findings contribute to a better understanding of HRV3 virology.

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Section: Discussionsupporting

confidence: 78%

Molecular Evolution of the Fusion Protein (F) Gene in Human Respirovirus 3

et al. 2020

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“…Нуклеотидная последовательность F-гена 19 из 24 охарактеризованных изолятов была близка к таковой референс-штамма ON67-1210A современного генотипа ON1/GA2 и значительно отличалась от вирусов-прародителей Long и А2. Пять штаммов, выделенных в 2014 г., составили отдельную группу, не укладывающуюся в рамки классификации Кимуры [5]. Следует отметить, что по данным секвенирования G-гена эти 5 штаммов подобно остальным изолятам из Санкт-Петербурга относились к современному генотипу ON1/GA2.…”

Section: Discussionunclassified

“…Они не имели нуклеотидной вставки, т. е. относились к другому генотипу. Эти данные подтверждают концепцию о независимой эволюции F-и G-генов РСВ [5].…”

Section: Discussionunclassified

“…По данным ОТ-ПЦР, все вирусы принадлежали к РСВ-А, референс-штаммами которого являются Long (изолирован в 1956 г. в США) и А2 (выделен в Австралии в 1961 г.). В соответствии с критериями, предложенными Кимурой [5], по структу-DOI: http://dx.doi.org/ 10.18821/0507-4088-2017-62- Следует отметить, что помимо F-гена у 20 из 24 рассмотренных изолятов, в том числе у 5 штаммов без замены в 276-м положении, было проведено секвенирование G-гена. По структуре G-гена все эти вирусы относились к генотипу ON1/GA2 [3].…”

Section: результатыunclassified

“…Наиболее полная филогенетическая характеристика РСВ по F-гену дана в работах Н. Кимуры и соавт. [5,6], в которых авторы приходят к выводу о независимой эволюции F-и G-генов РСВ. С учётом того, что F-белок является основным индуктором синтеза вируснейтрализующих протективных антител (АТ) [7], становится понятной необходимость дальнейшего изучения изменчивости не только G-, но и F-гена, а также антигенной вариабельности F-белка современных циркулирующих РСВ.…”

Section: Introductionunclassified

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Genetic and Antigenic Characteristics of Respiratory Syncytial Virus Strains Isolated in St. Petersburg in 2013-2016

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Sintsova

Петрова

et al. 2017

Problems of Virology

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Antigenic and genetic characteristics of Russian RSV isolates are presented for the first time. Of the 69 strains isolated in St. Petersburg, 93% belonged to the RSV-A antigenic group. The antigenic variations in the F-protein RSV were analyzed using a panel from 6 monoclonal antibodies by the method of micro-cultural ELISA. Depending on the decrease in the effectiveness of interaction with monoclonal antibodies (relative to the reference strain Long), RSV-A isolates were divided into 4 antigenic subgroups. The results of 24 isolates sequencing showed that more than 60% of them had substitutions in significant F-protein sites compared to the ON67-1210A reference strain of the current RSV genotype ON1/GA2. The most variable were the signal peptide and antigenic site II. When comparing the results of ELISA and sequencing, it was not possible to identify any specific key substitutions in the amino acid sequence of the F-protein that affect the interaction of the virus with antibodies. The nucleotide sequence of the F-gene from 19 of the 24 characterized isolates was close to that of ON67-1210A reference virus and was significantly different from RSV-A Long and A2 viruses. A separate group consisted of 5 strains, in which the F-protein structure was approximated to RSV Long.

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