Directional and reoccurring sequence change in zoonotic RNA virus genomes visualized by time-series word count.
Directional and reoccurring sequence change in zoonotic RNA virus genomes visualized by time-series word count.
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DOI：
10.1038/srep36197
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发表时间：
2016-11-03
影响因子：
4.6
通讯作者：
Ikemura T
中科院分区：
文献类型：
--
作者：
Wada Y;Wada K;Iwasaki Y;Kanaya S;Ikemura T
埃博拉病毒、中东呼吸综合征冠状病毒和流感病毒都是人畜共患的RNA病毒，它们变异非常迅速。病毒的生长取决于许多宿主因素，但人类细胞可能无法为从非人类宿主入侵的病毒提供理想的生长条件。目前对这些基因组中短核苷酸和长核苷酸组成的时间序列分析显示，在非人类宿主入侵后，它们的组成发生了方向性变化，这种变化被认为在未来入侵后会再次发生。在最近的西非埃博拉疫情中，在三个地理区域观察到广泛的共同寡核苷酸的方向性时间序列变化，并且在最近始于中东的中东呼吸综合征冠状病毒流行中也观察到方向性变化。此外，观察到人类甲型流感病毒的三种亚型的共同方向性变化，它们的流行是独立开始的。在三种亚型中观察到的具有明显方向性变化的长寡核苷酸与一些甲型流感sirna相对应，其活性已被实验证实。预测寡核苷酸组成的方向性和重复性变化对于设计诊断性RT-PCR引物和长期有效的治疗性寡核苷酸至关重要。
Ebolavirus, MERS coronavirus and influenza virus are zoonotic RNA viruses, which mutate very rapidly. Viral growth depends on many host factors, but human cells may not provide the ideal growth conditions for viruses invading from nonhuman hosts. The present time-series analyses of short and long oligonucleotide compositions in these genomes showed directional changes in their composition after invasion from a nonhuman host, which are thought to recur after future invasions. In the recent West Africa Ebola outbreak, directional time-series changes in a wide range of oligonucleotides were observed in common for three geographic areas, and the directional changes were observed also for the recent MERS coronavirus epidemics starting in the Middle East. In addition, common directional changes in human influenza A viruses were observed for three subtypes, whose epidemics started independently. Long oligonucleotides that showed an evident directional change observed in common for the three subtypes corresponded to some of influenza A siRNAs, whose activities have been experimentally proven. Predicting directional and reoccurring changes in oligonucleotide composition should become important for designing diagnostic RT-PCR primers and therapeutic oligonucleotides with long effectiveness.
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DOI：
10.1056/nejmoa1411100
发表时间：
2014-10-16
期刊：
The New England journal of medicine
影响因子：
--
作者：
WHO Ebola Response Team;Aylward B;Barboza P;Bawo L;Bertherat E;Bilivogui P;Blake I;Brennan R;Briand S;Chakauya JM;Chitala K;Conteh RM;Cori A;Croisier A;Dangou JM;Diallo B;Donnelly CA;Dye C;Eckmanns T;Ferguson NM;Formenty P;Fuhrer C;Fukuda K;Garske T;Gasasira A;Gbanyan S;Graaff P;Heleze E;Jambai A;Jombart T;Kasolo F;Kadiobo AM;Keita S;Kertesz D;Koné M;Lane C;Markoff J;Massaquoi M;Mills H;Mulba JM;Musa E;Myhre J;Nasidi A;Nilles E;Nouvellet P;Nshimirimana D;Nuttall I;Nyenswah T;Olu O;Pendergast S;Perea W;Polonsky J;Riley S;Ronveaux O;Sakoba K;Santhana Gopala Krishnan R;Senga M;Shuaib F;Van Kerkhove MD;Vaz R;Wijekoon Kannangarage N;Yoti Z
通讯作者：
Yoti Z
影响因子：
14.9
作者：
Thakur N;Qureshi A;Kumar M
通讯作者：
Kumar M
影响因子：
5.4
作者：
Jimenez-Baranda, Sonia;Greenbaum, Benjamin;Bhardwaj, Nina
通讯作者：
Bhardwaj, Nina
影响因子：
64.8
作者：
Neumann, Gabriele;Noda, Takeshi;Kawaoka, Yoshihiro
通讯作者：
Kawaoka, Yoshihiro
影响因子：
64.5
作者：
Park DJ;Dudas G;Wohl S;Goba A;Whitmer SL;Andersen KG;Sealfon RS;Ladner JT;Kugelman JR;Matranga CB;Winnicki SM;Qu J;Gire SK;Gladden-Young A;Jalloh S;Nosamiefan D;Yozwiak NL;Moses LM;Jiang PP;Lin AE;Schaffner SF;Bird B;Towner J;Mamoh M;Gbakie M;Kanneh L;Kargbo D;Massally JL;Kamara FK;Konuwa E;Sellu J;Jalloh AA;Mustapha I;Foday M;Yillah M;Erickson BR;Sealy T;Blau D;Paddock C;Brault A;Amman B;Basile J;Bearden S;Belser J;Bergeron E;Campbell S;Chakrabarti A;Dodd K;Flint M;Gibbons A;Goodman C;Klena J;McMullan L;Morgan L;Russell B;Salzer J;Sanchez A;Wang D;Jungreis I;Tomkins-Tinch C;Kislyuk A;Lin MF;Chapman S;MacInnis B;Matthews A;Bochicchio J;Hensley LE;Kuhn JH;Nusbaum C;Schieffelin JS;Birren BW;Forget M;Nichol ST;Palacios GF;Ndiaye D;Happi C;Gevao SM;Vandi MA;Kargbo B;Holmes EC;Bedford T;Gnirke A;Ströher U;Rambaut A;Garry RF;Sabeti PC
通讯作者：
Sabeti PC