Directional and reoccurring sequence change in zoonotic RNA virus genomes visualized by time-series word count

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 ol...

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Published inScientific reports Vol. 6; no. 1; p. 36197
Main Authors Wada, Yoshiko, Wada, Kennosuke, Iwasaki, Yuki, Kanaya, Shigehiko, Ikemura, Toshimichi
Format Journal Article
LanguageEnglish
Published London Nature Publishing Group UK 03.11.2016
Nature Publishing Group
Subjects
631/114/2164
631/181/735
631/326/596/1578
631/326/596/2042
Coronaviridae
Coronaviruses
Epidemics
Genomes
Growth conditions
Humanities and Social Sciences
Influenza
Influenza A
multidisciplinary
Nucleotide sequence
Oligonucleotides
Polymerase chain reaction
Primers
RNA viruses
Science
siRNA
Viruses
Zoonoses
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Summary: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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ISSN:2045-2322
2045-2322
DOI:10.1038/srep36197