Genome sequence and annotation of the medicinal plant Tropaeolum majus

Pucker, Boas; Friedhoff, Ronja; Wittstock, Ute

doi:10.24355/dbbs.084-202410230959-0

Research Data Wed Nov 6 2024 CC BY 4.0

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Genome sequence and annotation of the medicinal plant Tropaeolum majus

Pucker, Boas ; Friedhoff, Ronja ; Wittstock, Ute

A high quality genome sequence of Tropaeolum majus L. (Tropaeolaceae; Accession TRO1, ID 47139 from Genebank Gatersleben of the Leibniz Institute of Plant Genetics and Crop Plant Research, Germany) is presented together with predicted polypeptide sequences and a functional annoation. The genome sequence was assembled based on ONT long reads using NextDenvo. GeMoMa was used for the annotation of protein encoding genes.

Category

Date Created:: 04.09.2024
Date Created:: 21.10.2024
Date Issued:: 06.11.2024
DOI:: 10.24355/dbbs.084-202410230959-0
Language:: English
Type of Resource:: Text
DDC:: 580 Pflanzen (Botanik)
Hosting institution:: 02 - Life Sciences
Comment:: Genome sequence of the medicinal plant Tropaeolum majus provides insights into flavonoid biosynthesis. Ronja Friedhoff, Ute Wittstock, Boas Pucker, bioRxiv 2024.11.01.621629; doi: https://doi.org/10.1101/2024.11.01.621629 [Preprint]
Comment:: This work was supported by the BMBF-funded de.NBI Cloud within the German Network for Bioinformatics Infrastructure (de.NBI) (031A532B, 031A533A, 031A533B, 031A534A, 031A535A, 031A537A, 031A537B, 031A537C, 031A537D, 031A538A).

Data Origin:: Experiment and Measurements DNA was isolated from T. majus L., accession TRO1, ID 47139 (Genebank Gatersleben of the Leibniz Institute of Plant Genetics and Crop Plant Research, Germany). Long read sequencing data were generated on a MinION Mk1B using SQK-LSK109 for the library preparation. All sequencing data are available from the European Nucleotide Archive (PRJEB68329).
Methods/Processes:: Basecalling of the ONT sequencing data was done with Guppy v6.4.6 (ONT). The genome sequence was assembled with NextDenovo v2.5.2 (https://github.com/Nextomics/NextDenovo). Hints from several plant species were supplied to GeMoMa v1.9 (http://www.jstacs.de/index.php/GeMoMa) for the annotation of protein encoding genes.