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Literature DB >> 34751403

ViroidDB: a database of viroids and viroid-like circular RNAs.

Benjamin D Lee^1,2, Uri Neri³, Caleb J Oh⁴, Peter Simmonds², Eugene V Koonin¹.

Abstract

We introduce ViroidDB, a value-added database that attempts to collect all known viroid and viroid-like circular RNA sequences into a single resource. Spanning about 10 000 unique sequences, ViroidDB includes viroids, retroviroid-like elements, small circular satellite RNAs, ribozyviruses, and retrozymes. Each sequence's secondary structure, ribozyme content, and cluster membership are predicted via a custom pipeline optimized for handling circular RNAs. The data can be explored via a purpose-built user interface that features visualizations, multiple sequence alignments, and a portal for downloading bulk data. Users can browse the data by sequence type, taxon, or typo-tolerant search of metadata fields. The database is freely accessible at https://viroids.org. Published by Oxford University Press on behalf of Nucleic Acids Research 2021.

Entities: Chemical

Mesh：

Substances：

Year: 2022 PMID： 34751403 PMCID： PMC8728161 DOI： 10.1093/nar/gkab974

Source DB: PubMed Journal: Nucleic Acids Res ISSN： 0305-1048 Impact factor: 16.971

32 in total

Review 1. Viroids: an Ariadne's thread into the RNA labyrinth.

Authors: José-Antonio Daròs; Santiago F Elena; Ricardo Flores
Journal: EMBO Rep Date: 2006-06 Impact factor: 8.807

2. The viroid and viroid-like RNA database.

Authors: D A Lafontaine; S Mercure; V Poisson; J P Perreault
Journal: Nucleic Acids Res Date: 1998-01-01 Impact factor: 16.971

Review 3. A replication cycle for viroids and other small infectious RNA's.

Authors: A D Branch; H D Robertson
Journal: Science Date: 1984-02-03 Impact factor: 47.728

4. The DNA of a plant retroviroid-like element is fused to different sites in the genome of a plant pararetrovirus and shows multiple forms with sequence deletions.

Authors: A Vera; J A Daròs; R Flores; C Hernández
Journal: J Virol Date: 2000-11 Impact factor: 5.103

Review 5. Current view and perspectives in viroid replication.

Authors: Ying Wang
Journal: Curr Opin Virol Date: 2021-01-15 Impact factor: 7.090

6. Virus Variation Resource - improved response to emergent viral outbreaks.

Authors: Eneida L Hatcher; Sergey A Zhdanov; Yiming Bao; Olga Blinkova; Eric P Nawrocki; Yuri Ostapchuck; Alejandro A Schäffer; J Rodney Brister
Journal: Nucleic Acids Res Date: 2016-11-28 Impact factor: 16.971

7. MARS: improving multiple circular sequence alignment using refined sequences.

Authors: Lorraine A K Ayad; Solon P Pissis
Journal: BMC Genomics Date: 2017-01-14 Impact factor: 3.969

8. Diversification of mammalian deltaviruses by host shifting.

Authors: Laura M Bergner; Richard J Orton; Alice Broos; Carlos Tello; Daniel J Becker; Jorge E Carrera; Arvind H Patel; Roman Biek; Daniel G Streicker
Journal: Proc Natl Acad Sci U S A Date: 2021-01-19 Impact factor: 11.205

9. The Subviral RNA Database: a toolbox for viroids, the hepatitis delta virus and satellite RNAs research.

Authors: Lynda Rocheleau; Martin Pelchat
Journal: BMC Microbiol Date: 2006-03-06 Impact factor: 3.605

10. Mammalian deltavirus without hepadnavirus coinfection in the neotropical rodent Proechimys semispinosus.

Authors: Sofia Paraskevopoulou; Fabian Pirzer; Nora Goldmann; Julian Schmid; Victor Max Corman; Lina Theresa Gottula; Simon Schroeder; Andrea Rasche; Doreen Muth; Jan Felix Drexler; Alexander Christoph Heni; Georg Joachim Eibner; Rachel A Page; Terry C Jones; Marcel A Müller; Simone Sommer; Dieter Glebe; Christian Drosten
Journal: Proc Natl Acad Sci U S A Date: 2020-07-10 Impact factor: 11.205

3 in total