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Evidence-based unification of potato gene models with the UniTato collaborative genome browser [Elektronski vir]Zagorščak, Maja ...Potato (Solanum tuberosum) is the most popular tuber crop and a model organism. A variety of gene models for potato exist, and despite frequent updates, they are not unified. This hinders the ... comparison of gene models across versions, limits the ability to reuse experimental data without significant re-analysis, and leads to missing or wrongly annotated genes. Here, we unify the recent potato double monoploid v4 and v6 gene models by developing an automated merging protocol, resulting in a Unified poTato genome model (UniTato). We subsequently established an Apollo genome browser (unitato.nib.si) that enables public access to UniTato and further community-based curation. We demonstrate how the UniTato resource can help resolve problems with missing or misplaced genes and can be used to update or consolidate a wider set of gene models or genome information. The automated protocol, genome annotation files, and a comprehensive translation table are provided at github.com/NIB-SI/unitato.Source: Frontiers in plant science [Elektronski vir]. - ISSN 1664-462X (Vol. 15, [art. no.] 1352253, 2024, str. 1-10)Type of material - e-articlePublish date - 2024Language - englishCOBISS.SI-ID - 198532867
Digital content: dCOBISS
| Author | Zagorščak, Maja ... |
| Title | Evidence-based unification of potato gene models with the UniTato collaborative genome browser [Elektronski vir] |
| Publication date | 2024-06-11 |
| COBISS.SI-ID | 198532867 |
| Publication version in repository | Publisher's version |
| Publication licence | Creative Commons Attribution 4.0 International |
| Embargo | Immediate publication for public |
Project(s) from which the publication was funded
| Title | Acronym | Project ID | Funder |
|---|---|---|---|
| Accelerated Development of multiple-stress tolerAnt PoTato | ADAPT | 862858 |
European Commission |
| Long-TREC: The Long-Reads Transcriptomics European Consortium. The next generation transcriptome biology revealed by single molecule sequencing technologies | LongTREC | 101072892 |
European Commission |
| Biotehnologija in sistemska biologija rastlin | P4-0165-2022 |
Javna agencija za znanstvenoraziskovalno in inovacijsko dejavnost Republike Slovenije |
|
| Kmetijstvo naslednje generacije | P4-0431-2022 |
Javna agencija za znanstvenoraziskovalno in inovacijsko dejavnost Republike Slovenije |
|
| Sistemsko biološko podprto globoko učenje za interpretacijo načel regulacije rasti in obrambe rastlin | J2-3060-2021 |
Javna agencija za znanstvenoraziskovalno in inovacijsko dejavnost Republike Slovenije |
|
| Translacijska genomika in dinamično modeliranje za razumevanje odziva rastlin na stres | Z4-50146-2023 |
Javna agencija za znanstvenoraziskovalno in inovacijsko dejavnost Republike Slovenije |
Files that belong to the publication
https://doi.org/10.3389/fpls.2024.1352253
Costs of publication
| Cost type | Total cost | Payments |
|---|---|---|
| APC – Article Processing Charge | 2799.89 € |
