کد مقاله | کد نشریه | سال انتشار | مقاله انگلیسی | نسخه تمام متن |
---|---|---|---|---|
8647132 | 1570158 | 2016 | 10 صفحه PDF | دانلود رایگان |
عنوان انگلیسی مقاله ISI
Molecular evolution of respiratory syncytial virus subgroup A genotype NA1 and ON1 attachment glycoprotein (G) gene in central Vietnam
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کلمات کلیدی
EPSinternal fixed effects likelihoodIFELMCMCMEMESLACHighest Probability DensityTMRCAHPDRSVARIBSPESSMCCFEL - UPfixed effects likelihood - اثرات ثابت اثراتEffective population size - اندازه جمعیت قابل ملاحظهeffective sample size - اندازه نمونه موثرMolecular evolution - تکامل مولکولیMaximum likelihood - حداکثر احتمالmaximum clade credibility - حداکثر اعتبار کلاهTime to the most recent common ancestor - زمان به جدیدترین اجداد مشترکMarkov chain Monte Carlo - زنجیره مارکف مونت کارلوBayesian skyline plot - طرح خط افقی بیزیVietnam - ویتنام
موضوعات مرتبط
علوم زیستی و بیوفناوری
علوم کشاورزی و بیولوژیک
بوم شناسی، تکامل، رفتار و سامانه شناسی
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چکیده انگلیسی
We performed molecular evolutionary analyses of the G gene C-terminal 3rd hypervariable region of RSV-A genotypes NA1 and ON1 strains from the paediatric acute respiratory infection patients in central Vietnam during the 2010-2012 study period. Time-scaled phylogenetic analyses were performed using Bayesian Markov Chain Monte Carlo (MCMC) method, and pairwise distances (p-distances) were calculated. Bayesian Skyline Plot (BSP) was constructed to analyze the time-trend relative genetic diversity of central Vietnam RSV-A strains. We also estimated the N-glycosylation sites within G gene hypervariable region. Amino acid substitutions under positive and negative selection pressure were examined using Conservative Single Likelihood Ancestor Counting (SLAC), Fixed Effects Likelihood (FEL), Internal Fixed Effects Likelihood (IFEL) and Mixed Effects Model for Episodic Diversifying Selection (MEME) models. The majority of central Vietnam ON1 strains detected in 2012 were classified into lineage 1 with few positively selected substitutions. As for the Vietnamese NA1 strains, four lineages were circulating during the study period with a few positive selection sites. Shifting patterns of the predominantly circulating NA1 lineage were observed in each year during the investigation period. Median p-distance of central Vietnam NA1 strains was wider (p-distance = 0.028) than that of ON1 (p-distance = 0.012). The molecular evolutionary rate of central Vietnam ON1 strains was estimated to be 2.55 Ã 10â 2 (substitutions/site/year) and was faster than NA1 (7.12 Ã 10â 3 (substitutions/site/year)). Interestingly, the evolutionary rates of both genotypes ON1 and NA1 strains from central Vietnam were faster than the global strains respectively. Furthermore, the shifts of N-glycosylation pattern within the G gene 3rd hypervariable region of Vietnamese NA1 strains were observed in each year. BSP analysis indicated the rapid growth of RSV-A effective population size in early 2012. These results suggested that the molecular evolution of RSV-A G gene detected in central Vietnam was fast with unique evolutionary dynamics.
ناشر
Database: Elsevier - ScienceDirect (ساینس دایرکت)
Journal: Infection, Genetics and Evolution - Volume 45, November 2016, Pages 437-446
Journal: Infection, Genetics and Evolution - Volume 45, November 2016, Pages 437-446
نویسندگان
Keisuke Yoshihara, Minh Nhat Le, Koo Nagasawa, Hiroyuki Tsukagoshi, Hien Anh Nguyen, Michiko Toizumi, Hiroyuki Moriuchi, Masahiro Hashizume, Koya Ariyoshi, Duc Anh Dang, Hirokazu Kimura, Lay-Myint Yoshida,