Phylogenetic and full-length genome mutation analysis of SARS-CoV-2 in Indonesia prior to COVID-19 vaccination program in 2021.
Phylogenetic and full-length genome mutation analysis of SARS-CoV-2 in Indonesia prior to COVID-19 vaccination program in 2021.
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DOI：
10.1186/s42269-021-00657-0
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发表时间：
2021
影响因子：
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通讯作者：
Nidom CA
中科院分区：
文献类型：
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作者：
Nidom RV;Indrasari S;Normalina I;Nidom AN;Afifah B;Dewi L;Putra AK;Ansori ANM;Kusala MKJ;Alamudi MY;Nidom CA
由于COVID-19的爆发及快速传播不仅危及印尼，亦危及全球健康及经济，印尼自二零二一年一月十三日起启动COVID-19疫苗接种计划的大型项目，向印尼总统接种第一针疫苗。本研究旨在调查截至2021年1月12日166株印度尼西亚SARS-CoV-2分离株的全长基因组突变分析。 所有分离株的数据均提取自共享所有流感数据全球倡议（GISAID）EpiCoV数据库。采用CoVsurver平台对所有分离株进行全长基因组突变分析。本研究还对印度尼西亚SARS-CoV-2分离株S蛋白突变进行了遗传学分析。根据CoVsurver默认值，将源自中国武汉的WIV 04分离株用作病毒参考。结果表明，成功构建了166株印尼SARS-CoV-2分离株的全长基因组突变分析。利用BioRender平台对S蛋白中的每一个突变进行了描述和可视化。此外，还发现103株印度尼西亚SARS-CoV-2分离株中出现D 614 G突变。总之，这项研究有助于观察COVID-19传播的传播。然而，其亦建议可改善印尼COVID-19大流行的流行病学监测及基因组学研究。在线版本包含补充材料，可通过10.1186/s42269-021-00657-0获得。
Indonesia has started the big project of COVID-19 vaccination program since 13 January 2021 by employing the first shot of vaccine to the President of Indonesia as the outbreak and rapid transmission of COVID-19 have endangered not only Indonesian but the global health and economy. This study aimed to investigate the full-length genome mutation analysis of 166 Indonesian SARS-CoV-2 isolates as of 12 January 2021. All data of the isolates were extracted from the Global Initiative on Sharing All Influenza Data (GISAID) EpiCoV database. CoVsurver platform was employed to investigate the full-length genome mutation analysis of all isolates. This study also focused on the phylogeny analysis in unlocking the mutation of S protein in Indonesian SARS-CoV-2 isolates. WIV04 isolate that was originated from Wuhan, China was used as the virus reference according to the CoVsurver default. The result showed that a full-length genome mutation analysis of 166 Indonesian SARS-CoV-2 isolates was successfully generated. Every single mutation in S protein was described and then visualized by utilizing BioRender platform. Furthermore, it also found that D614G mutation appeared in 103 Indonesian SARS-CoV-2 isolates. To sum up, this study helped to observe the spread of COVID-19 transmission. However, it also proposed that the epidemiological surveillance and genomics studies might be improved on COVID-19 pandemic in Indonesia. The online version contains supplementary material available at 10.1186/s42269-021-00657-0.