Sequence analysis of double-strand RNA6 and RNA9 from the fungus Sclerotium hydrophilum

Sequence analysis of double-strand RNA6 and RNA9 from the fungus Sclerotium hydrophilum We have recently reported the identification of 10 double-strand RNA segments from Sclerotium hydrophilum [HZ11] mycelia and of virus-like particles isolated from the mycelia, as well as the sequences of dsRNA2 and dsRNA7. Phylogenetic analysis revealed that dsRNA2 and dsRNA7 belong to a group of unclassified viruses. In this report, we cloned and sequenced dsRNA6 and dsRNA9 from the 10 dsRNAs. We tentatively named the putative virus “Sclerotium hydrophilum virus 1”, with isolates being abbreviated to ShV1, with dsRNA6 and dsRNA9 corresponding to dsRNA1 and dsRNA2, respectively, of ShV1. dsRNA1 was 1975 bp in length and encoded a putative RNA-dependent RNA polymerase (RdRp). dsRNA2 was 1728 bp and encoded a putative coat protein (CP). Phylogenetic analysis showed that the proteins encoded by dsRNA1 and dsRNA2 were highly related to known viral RdRps and CP, respectively, of viruses classified within the genus Alphapartitivirus of the family Partitiviridae. These members include Rhizoctonia solani dsRNA virus 2, Diuris pendunculata cryptic virus, and Heterobasidion partitivirus. The 5′- and 3′-untranslated regions (UTRs) of the two dsRNAs showed a high sequence identity. The 5′-UTR contained conserved sequences 5′-GAAGCAUCACUU(/G) G(/U)AGU(/A)UCGC(/U)CCA(/G) CAAUAACGAA-3′ and 5′-AAAUUGAUCUUACCUCUCAC-3′. The 3′-UTR contained the conserved sequence 5′-UUGUUUU-3′ and 5′-UUUA(/U)A(/C) UUAU-3′. These results indicate that dsRNA1 and dsRNA2 are phylogenetically related to members of the genus Alphapartitivirus of family Partitiviridae. We therefore propose that dsRNA1 and dsRNA2 are the genome sequences of a new partitivirus, ShV1. http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png Archives of Virology Springer Journals

Sequence analysis of double-strand RNA6 and RNA9 from the fungus Sclerotium hydrophilum

Loading next page...
 
/lp/springer_journal/sequence-analysis-of-double-strand-rna6-and-rna9-from-the-fungus-xg4IqAqyCj
Publisher
Springer Vienna
Copyright
Copyright © 2017 by Springer-Verlag Wien
Subject
Biomedicine; Virology; Medical Microbiology; Infectious Diseases
ISSN
0304-8608
eISSN
1432-8798
D.O.I.
10.1007/s00705-017-3430-1
Publisher site
See Article on Publisher Site

Abstract

We have recently reported the identification of 10 double-strand RNA segments from Sclerotium hydrophilum [HZ11] mycelia and of virus-like particles isolated from the mycelia, as well as the sequences of dsRNA2 and dsRNA7. Phylogenetic analysis revealed that dsRNA2 and dsRNA7 belong to a group of unclassified viruses. In this report, we cloned and sequenced dsRNA6 and dsRNA9 from the 10 dsRNAs. We tentatively named the putative virus “Sclerotium hydrophilum virus 1”, with isolates being abbreviated to ShV1, with dsRNA6 and dsRNA9 corresponding to dsRNA1 and dsRNA2, respectively, of ShV1. dsRNA1 was 1975 bp in length and encoded a putative RNA-dependent RNA polymerase (RdRp). dsRNA2 was 1728 bp and encoded a putative coat protein (CP). Phylogenetic analysis showed that the proteins encoded by dsRNA1 and dsRNA2 were highly related to known viral RdRps and CP, respectively, of viruses classified within the genus Alphapartitivirus of the family Partitiviridae. These members include Rhizoctonia solani dsRNA virus 2, Diuris pendunculata cryptic virus, and Heterobasidion partitivirus. The 5′- and 3′-untranslated regions (UTRs) of the two dsRNAs showed a high sequence identity. The 5′-UTR contained conserved sequences 5′-GAAGCAUCACUU(/G) G(/U)AGU(/A)UCGC(/U)CCA(/G) CAAUAACGAA-3′ and 5′-AAAUUGAUCUUACCUCUCAC-3′. The 3′-UTR contained the conserved sequence 5′-UUGUUUU-3′ and 5′-UUUA(/U)A(/C) UUAU-3′. These results indicate that dsRNA1 and dsRNA2 are phylogenetically related to members of the genus Alphapartitivirus of family Partitiviridae. We therefore propose that dsRNA1 and dsRNA2 are the genome sequences of a new partitivirus, ShV1.

Journal

Archives of VirologySpringer Journals

Published: Jun 2, 2017

References

You’re reading a free preview. Subscribe to read the entire article.


DeepDyve is your
personal research library

It’s your single place to instantly
discover and read the research
that matters to you.

Enjoy affordable access to
over 18 million articles from more than
15,000 peer-reviewed journals.

All for just $49/month

Explore the DeepDyve Library

Search

Query the DeepDyve database, plus search all of PubMed and Google Scholar seamlessly

Organize

Save any article or search result from DeepDyve, PubMed, and Google Scholar... all in one place.

Access

Get unlimited, online access to over 18 million full-text articles from more than 15,000 scientific journals.

Your journals are on DeepDyve

Read from thousands of the leading scholarly journals from SpringerNature, Elsevier, Wiley-Blackwell, Oxford University Press and more.

All the latest content is available, no embargo periods.

See the journals in your area

DeepDyve

Freelancer

DeepDyve

Pro

Price

FREE

$49/month
$360/year

Save searches from
Google Scholar,
PubMed

Create lists to
organize your research

Export lists, citations

Read DeepDyve articles

Abstract access only

Unlimited access to over
18 million full-text articles

Print

20 pages / month

PDF Discount

20% off