DiscMycoVir: a user-friendly platform for discovering mycoviruses in fungal transcriptomes

Agorakis Bompotas; Nikitas-Rigas Kalogeropoulos; Maria Giachali; Ioly Kotta-Loizou; Christos Makris

doi:10.1186/s12859-025-06196-z

DiscMycoVir: a user-friendly platform for discovering mycoviruses in fungal transcriptomes

Agorakis Bompotas
, Nikitas-Rigas Kalogeropoulos
, Maria Giachali
, Ioly Kotta-Loizou
, Christos Makris

Research output: Contribution to journal › Article › peer-review

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Abstract

Purpose: The article presents DiscMycoVir, an elegant and user-friendly platform for discovering mycoviruses in fungal transcriptomes. DiscMycoVir is a pipeline of established tools for next-generation sequencing analysis and database searching, incorporated in an interface that facilitates accessibility even for users that have no programming skills and expertise. A comprehensive and detailed result report enhances user experience. DiscMycoVir can be accessed online for reviewing purposes at: https://discmycovir.imslab.gr:8000 and the source code is located at https://github.com/abompotas/DiscMycoVir. We recommend using the GitHub repository, as the online platform may lack the necessary resources to ensure uninterrupted service especially on large files.

Methods–results: We employed state-of-the-art technologies in the design and implementation phase of the platform. We present the application of the platform in screening RNA-seq data from the yeast Candida auris for mycoviruses, demonstrating its efficiency and simplicity in use.

Conclusions: DiscMycoVir serves as a user-friendly platform for identifying mycoviruses in RNA-seq data. Our tool was successfully implemented to discover mycoviruses in a C. auris isolate and could be adapted to detect viruses in transcriptomes from other organisms as well.

Original language	English
Article number	169
Number of pages	14
Journal	BMC Bioinformatics
Volume	26
Issue number	1
Early online date	7 Jul 2025
DOIs	https://doi.org/10.1186/s12859-025-06196-z
Publication status	Published - 7 Jul 2025

Keywords

Docker
Pipeline
Mycovirus discovery
Sequence analysis

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10.1186/s12859-025-06196-zLicence: CC BY

Final_Version
© The Author(s) 2025. Open Access This article is licensed under a Creative Commons Attribution 4.0 International License. Please visit: https://creativecommons.org/licenses/by/4.0/
Final published version, 3.63 MBLicence: CC BY

Cite this

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abstract = "Purpose: The article presents DiscMycoVir, an elegant and user-friendly platform for discovering mycoviruses in fungal transcriptomes. DiscMycoVir is a pipeline of established tools for next-generation sequencing analysis and database searching, incorporated in an interface that facilitates accessibility even for users that have no programming skills and expertise. A comprehensive and detailed result report enhances user experience. DiscMycoVir can be accessed online for reviewing purposes at: https://discmycovir.imslab.gr:8000 and the source code is located at https://github.com/abompotas/DiscMycoVir. We recommend using the GitHub repository, as the online platform may lack the necessary resources to ensure uninterrupted service especially on large files. Methods–results: We employed state-of-the-art technologies in the design and implementation phase of the platform. We present the application of the platform in screening RNA-seq data from the yeast Candida auris for mycoviruses, demonstrating its efficiency and simplicity in use. Conclusions: DiscMycoVir serves as a user-friendly platform for identifying mycoviruses in RNA-seq data. Our tool was successfully implemented to discover mycoviruses in a C. auris isolate and could be adapted to detect viruses in transcriptomes from other organisms as well.",

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AU - Bompotas, Agorakis

AU - Kalogeropoulos, Nikitas-Rigas

AU - Giachali, Maria

AU - Kotta-Loizou, Ioly

AU - Makris, Christos

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KW - Docker

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KW - Mycovirus discovery

KW - Sequence analysis

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ER -

DiscMycoVir: a user-friendly platform for discovering mycoviruses in fungal transcriptomes

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Keywords

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