Decoding poxvirus genome
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Citation: Yang, Z. L., & Moss, B. (2015). Decoding poxvirus genome. Oncotarget, 6(30), 28513-28514. doi:10.18632/oncotarget.5892
Deciphering the information encoded in genomic sequences is a key step in modern biomedical research. Recent findings indicate that this endeavor can be far more complex than anticipated, even for relatively small viral genomes. Vaccinia virus, the prototypic member of the poxvirus family, was initially annotated to have approximately 200 open reading frames (ORFs) of 65 or more amino acids within its 200 kbp double-stranded DNA genome. This annotation has framed the molecular biological studies of vaccinia virus since then. To further decode information in the vaccinia virus genome, we carried out systematic genome-wide ribosome profiling recently published in the Journal of Virology [1]. In ribosome profiling, only the mRNA fragments bound and protected by ribosomes are analyzed by next generation sequencing, which can quantify active protein translation with superb sensitivity, resolution and clarity [2]. We confirmed that the majority mRNAs of previously annotated ORFs are actively translated, although at greatly different frequencies. In addition, even though the long transcripts made during the late stages of infection read through adjacent ORFs, only the first is translated.
Deciphering the information encoded in genomic sequences is a key step in modern biomedical research. Recent findings indicate that this endeavor can be far more complex than anticipated, even for relatively small viral genomes. Vaccinia virus, the prototypic member of the poxvirus family, was initially annotated to have approximately 200 open reading frames (ORFs) of 65 or more amino acids within its 200 kbp double-stranded DNA genome. This annotation has framed the molecular biological studies of vaccinia virus since then. To further decode information in the vaccinia virus genome, we carried out systematic genome-wide ribosome profiling recently published in the Journal of Virology [1]. In ribosome profiling, only the mRNA fragments bound and protected by ribosomes are analyzed by next generation sequencing, which can quantify active protein translation with superb sensitivity, resolution and clarity [2]. We confirmed that the majority mRNAs of previously annotated ORFs are actively translated, although at greatly different frequencies. In addition, even though the long transcripts made during the late stages of infection read through adjacent ORFs, only the first is translated.
Keywords
Poxvirus, Vaccinia Virus, Translatome, Rnas, Oncology, Cell Biology
