| Title: | Evidence-based unification of potato gene models with the UniTato collaborative genome browser |
|---|
| Authors: | ID Zagorščak, Maja (Author)
ID Zrimec, Jan (Author)
ID Bleker, Carissa (Author)
ID Nolte, Nadja Francesca (Author)
ID Juteršek, Mojca (Author)
ID Ramšak, Živa (Author)
ID Gruden, Kristina (Author)
ID Petek, Marko (Author) |
|---|
| Files: |  URL - Source URL, visit https://doi.org/10.3389/fpls.2024.1352253
URL - Source URL, visit https://github.com/NIB-SI/unitato
 PDF - Presentation file, download (2,48 MB)
MD5: 49CA7FA1A00DF725169F3692885B82F7
|
|---|
| Language: | English |
|---|
| Typology: | 1.01 - Original Scientific Article |
|---|
| Organization: |  NIB - National Institute of Biology
|
|---|
| Abstract: | 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. |
|---|
| Keywords: | bioinformatics analysis, plant genome annotation, gene model annotations, Phureja group, GFF files, poTato genome model, UniTato |
|---|
| Publication status: | Published |
|---|
| Publication version: | Version of Record |
|---|
| Publication date: | 11.06.2024 |
|---|
| Year of publishing: | 2024 |
|---|
| Number of pages: | str. 1-10 |
|---|
| Numbering: | Vol. 15, [art. no.] ǂ1352253 |
|---|
| PID: | 20.500.12556/DiRROS-19101  |
|---|
| UDC: | 575.111 |
|---|
| ISSN on article: | 1664-462X |
|---|
| DOI: | 10.3389/fpls.2024.1352253 |
|---|
| COBISS.SI-ID: | 198532867 |
|---|
| Note: | Soavtorji: Jan Zrimec, Carissa Bleker, Nadja Nolte, Mojca Juteršek, Živa Ramšak, Kristina Gruden and Marko Petek;
Nasl. z nasl. zaslona;
Opis vira z dne 11. 6. 2024;
|
|---|
| Publication date in DiRROS: | 11.06.2024 |
|---|
| Views: | 377 |
|---|
| Downloads: | 332 |
|---|
| Metadata: |    |
|---|
|
:
|
Copy citation |
|---|
| | | | Share: |  |
|---|
Hover the mouse pointer over a document title to show the abstract or click
on the title to get all document metadata. |
