Phylogenetic and Molecular Clock Analysis of Dengue Serotype 1 and 3 from New Delhi, India
Phylogenetic and Molecular Clock Analysis of Dengue Serotype 1 and 3 from New Delhi, India
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DOI：
10.1371/journal.pone.0141628
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发表时间：
2015-11-04
期刊：
影响因子：
3.7
通讯作者：
Parveen, Shama
中科院分区：
文献类型：
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作者：
Afreen, Nazia;Naqvi, Irshad H.;Parveen, Shama
登革热是世界热带和亚热带地区最流行的虫媒病毒性疾病。本报告描述了从印度新德里收集的急性期血液样本中登革热病毒的分子检测和血清分型。同时对登革病毒血清1型和血清3型进行了系统发育和分子钟分析。2011 ~ 2014年，在604份样本中检测到登革病毒感染的比例为68.87%。登革热1型阳性率为25.48%，2型阳性率为79.56%，3型阳性率为11.29%。未检出血清4型登革热。18.26%的样本同时感染一种以上登革热血清型。对29株DENV-1和14株DENV-3的包膜基因进行了测序。所有DENV-1毒株均属于美洲-非洲基因型。所有DENV-3株均为基因型III。本研究测定了登革1型和3型病毒的核苷酸取代率。确定1型登革热病毒最近的共同祖先（TMRCA）的时间为132年。DENV-3病毒的TMRCA估计为149年。对印度DENV-1和DENV-3菌株构建贝叶斯天际线图，DENV-1菌株自2005年以来种群数量减少，而DENV-3菌株近年来没有变化。该研究还揭示了近年来印度德里主要血清型的变化。该研究将有助于制定疫情控制策略。此外，它还将协助跟踪这种新出现的病毒的运动和进化。
Dengue fever is the most prevalent arboviral disease in the tropical and sub-tropical regions of the world. The present report describes molecular detection and serotyping of dengue viruses in acute phase blood samples collected from New Delhi, India. Phylogenetic and molecular clock analysis of dengue virus serotype 1 and 3 strains were also investigated. Dengue virus infection was detected in 68.87% out of 604 samples tested by RT-PCR between 2011 & 2014. Dengue serotype 1 was detected in 25.48% samples, dengue serotype 2 in 79.56% samples and dengue serotype 3 in 11.29% samples. Dengue serotype 4 was not detected. Co-infection by more than one dengue serotype was detected in 18.26% samples. Envelope gene of 29 DENV-1 and 14 DENV-3 strains were sequenced in the study. All the DENV-1 strains grouped with the American African genotype. All DENV-3 strains were found to belong to Genotype III. Nucleotide substitution rates of dengue 1 and 3 viruses were determined in the study. Time to the most recent common ancestor (TMRCA) of dengue 1 viruses was determined to be 132 years. TMRCA of DENV-3 viruses was estimated to be 149 years. Bayesian skyline plots were constructed for Indian DENV-1 and 3 strains which showed a decrease in population size since 2005 in case of DENV-1 strains while no change was observed in recent years in case of DENV-3 strains. The study also revealed a change in the dominating serotype in Delhi, India in recent years. The study will be helpful in formulating control strategies for the outbreaks. In addition, it will also assist in tracking the movement and evolution of this emerging virus.