ViralPlaque: a Fiji macro for automated assessment of viral plaque statistics
laque assay has been used for a long time to determine infectious titers and characterize prokaryotic and eukaryotic viruses forming plaques. Indeed, plaque morphology and dimensions can provide information regarding the replication kinetics and the virulence of a particular virus. In this work, we...
| Main Authors: | , , |
|---|---|
| Format: | Artículo |
| Language: | Inglés |
| Published: |
PeerJ
2019
|
| Subjects: | |
| Online Access: | https://peerj.com/articles/7729/ http://hdl.handle.net/20.500.12123/6233 https://doi.org/10.7717/peerj.7729 |
| _version_ | 1855483773102063616 |
|---|---|
| author | Cacciabue, Marco Polo Curra, Anabella Paola Gismondi, Maria Ines |
| author_browse | Cacciabue, Marco Polo Curra, Anabella Paola Gismondi, Maria Ines |
| author_facet | Cacciabue, Marco Polo Curra, Anabella Paola Gismondi, Maria Ines |
| author_sort | Cacciabue, Marco Polo |
| collection | INTA Digital |
| description | laque assay has been used for a long time to determine infectious titers and characterize prokaryotic and eukaryotic viruses forming plaques. Indeed, plaque morphology and dimensions can provide information regarding the replication kinetics and the virulence of a particular virus. In this work, we present ViralPlaque, a fast, open-source and versatile ImageJ macro for the automated determination of viral plaque dimensions from digital images. Also, a machine learning plugin is integrated in the analysis algorithm for adaptation of ViralPlaque to the user’s needs and experimental conditions. A high correlation between manual and automated measurements of plaque dimensions was demonstrated. This macro will facilitate reliable and reproducible characterization of cytolytic viruses with an increased processing speed. |
| format | Artículo |
| id | INTA6233 |
| institution | Instituto Nacional de Tecnología Agropecuaria (INTA -Argentina) |
| language | Inglés |
| publishDate | 2019 |
| publishDateRange | 2019 |
| publishDateSort | 2019 |
| publisher | PeerJ |
| publisherStr | PeerJ |
| record_format | dspace |
| spelling | INTA62332019-10-29T18:02:33Z ViralPlaque: a Fiji macro for automated assessment of viral plaque statistics Cacciabue, Marco Polo Curra, Anabella Paola Gismondi, Maria Ines Machine Learning Bioinformatics Automation Virology Aprendizaje Electrónico Bioinformática Automatización Prokaryotae Eukaryota Virología Plaque Assay Plaque Size Cytopathic Effect laque assay has been used for a long time to determine infectious titers and characterize prokaryotic and eukaryotic viruses forming plaques. Indeed, plaque morphology and dimensions can provide information regarding the replication kinetics and the virulence of a particular virus. In this work, we present ViralPlaque, a fast, open-source and versatile ImageJ macro for the automated determination of viral plaque dimensions from digital images. Also, a machine learning plugin is integrated in the analysis algorithm for adaptation of ViralPlaque to the user’s needs and experimental conditions. A high correlation between manual and automated measurements of plaque dimensions was demonstrated. This macro will facilitate reliable and reproducible characterization of cytolytic viruses with an increased processing speed. Instituto de Biotecnología Fil: Cacciabue, Marco Polo. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina Fil: Curra, Anabella Paola. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina Fil: Gismondi, Maria Ines. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina 2019-10-29T17:53:09Z 2019-10-29T17:53:09Z 2019-09 info:ar-repo/semantics/artículo info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion https://peerj.com/articles/7729/ http://hdl.handle.net/20.500.12123/6233 2167-8359 https://doi.org/10.7717/peerj.7729 eng info:eu-repo/semantics/openAccess http://creativecommons.org/licenses/by-nc-sa/4.0/ Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0) application/pdf PeerJ PeerJ 7: e7729. (Septiembre 2019) |
| spellingShingle | Machine Learning Bioinformatics Automation Virology Aprendizaje Electrónico Bioinformática Automatización Prokaryotae Eukaryota Virología Plaque Assay Plaque Size Cytopathic Effect Cacciabue, Marco Polo Curra, Anabella Paola Gismondi, Maria Ines ViralPlaque: a Fiji macro for automated assessment of viral plaque statistics |
| title | ViralPlaque: a Fiji macro for automated assessment of viral plaque statistics |
| title_full | ViralPlaque: a Fiji macro for automated assessment of viral plaque statistics |
| title_fullStr | ViralPlaque: a Fiji macro for automated assessment of viral plaque statistics |
| title_full_unstemmed | ViralPlaque: a Fiji macro for automated assessment of viral plaque statistics |
| title_short | ViralPlaque: a Fiji macro for automated assessment of viral plaque statistics |
| title_sort | viralplaque a fiji macro for automated assessment of viral plaque statistics |
| topic | Machine Learning Bioinformatics Automation Virology Aprendizaje Electrónico Bioinformática Automatización Prokaryotae Eukaryota Virología Plaque Assay Plaque Size Cytopathic Effect |
| url | https://peerj.com/articles/7729/ http://hdl.handle.net/20.500.12123/6233 https://doi.org/10.7717/peerj.7729 |
| work_keys_str_mv | AT cacciabuemarcopolo viralplaqueafijimacroforautomatedassessmentofviralplaquestatistics AT curraanabellapaola viralplaqueafijimacroforautomatedassessmentofviralplaquestatistics AT gismondimariaines viralplaqueafijimacroforautomatedassessmentofviralplaquestatistics |