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논문 기본 정보
- 자료유형
- 학술저널
- 저자정보
- 발행연도
- 2019.1
- 수록면
- 507 - 514 (8page)
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Background Chia (Salvia hispanica) is a flowering plant in the family Lamiaceae, which produces seeds that are a rich source of various nutritional compounds. Objective To identify a novel RNA virus potentially associated with chia. Methods Transcriptome data obtained from developing chia seeds were assembled into contigs. Sequence contigs containing an open reading frame (ORF) that showed amino acid identities with a viral RNA-dependent RNA polymerase (RdRp) were identified and analyzed. Results A genomic sequence of a novel plant RNA virus named Salvia hispanica RNA virus 1 (ShRV1) was identified in a chia seed transcriptome dataset. The ShRV1 genome sequence has two ORFs that showed high sequence identities with ORFs of known members of the genus Amalgavirus in the family Amalgaviridae. Amalgaviridae is a family of positivesense double-stranded non-segmented RNA viruses that infect plants, fungi, and animals. The ShRV1 genome encodes two proteins: a putative replication factory matrix-like protein from ORF1 and an RdRp from the fused ORF of ORF1 and ORF2 by a + 1 programmed ribosomal frameshifting (PRF) mechanism. A conserved + 1 PRF motif sequence UUU_CGU was found at the ORF1/ORF2 boundary. A comparison of 31 amalgavirus ORF1 + 2 fusion proteins revealed that only three positions were repeatedly used as a + 1 PRF site during amalgavirus evolution. Conclusion ShRV1 is a novel virus found to be associated with chia and may be useful for studying the molecular features of amalgaviruses.
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등록된 정보가 없습니다.
참고문헌 (35)
참고문헌 신청
Bankevich A / 2012 / SPAdes : a new genome assembly algorithm and its applications to single-cell sequencing / J Comput Biol 19:455~477
Crooks GE / 2004 / WebLogo : a sequence logo generator / Genome Res 14:1188~1190
Debat HJ / 2017 / Molecular identification and characterization of two Rubber dandelion amalgaviruses / bioRxiv:229443
Depierreux D / 2016 / Nucleotide sequence of Zygosaccharomyces bailii virus Z: evidence for + 1 programmed ribosomal frameshifting and for assignment to family Amalgaviridae / Virus Res 217:115~124
Edgar RC / 2004 / MUSCLE: multiple sequence alignment with high accuracy and high throughput / Nucleic Acids Res 32:1792~1797
Crooks GE / 2004 / WebLogo : a sequence logo generator / Genome Res 14:1188~1190
Debat HJ / 2017 / Molecular identification and characterization of two Rubber dandelion amalgaviruses / bioRxiv:229443
Depierreux D / 2016 / Nucleotide sequence of Zygosaccharomyces bailii virus Z: evidence for + 1 programmed ribosomal frameshifting and for assignment to family Amalgaviridae / Virus Res 217:115~124
Edgar RC / 2004 / MUSCLE: multiple sequence alignment with high accuracy and high throughput / Nucleic Acids Res 32:1792~1797
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