mduchoslav/Genome_annotations_ultramafic_Brassicaceae: v1.1_submission

Annotation of ultramafic Brassicaceae genomes Miloš Duchoslav 2026-02 This dataset is a persistent copy of GitHub repository https://github.com/mduchoslav/Genome_annotations_ultramafic_Brassicaceae. The repository contains scripts and data for annotation of the newly assembled genomes of Aethionema saxatile, Cardamine glauca, Erysimum linariifolium, Noccaea praecox, and Odontarrhena muralis for the following publication: Mahnaz Nezamivand-Chegini, Miloš Duchoslav, Raúl Wijfjes, Gabriela Šrámková, Jana Nosková, Vít Bureš, Tereza Koberová, Terezie Mandáková, Tomica Mišljenović, Ksenija Jakovljević, Panayiotis G. Dimitrakopoulos, Stanislav Španiel, Bruno Huettel, Martin A. Lysak, Levi Yant, Korbinian Schneeberger, Filip Kolář: Chromosome-level reference genome assemblies of five Brassicaceae species inhabiting challenging ultramafic substrates, 2026 (under review) The final_files folder for each species contains: Soft-masked reference genome (*_masked.fa.gz) This is version used for annotation, note that the version in GenBank database has different scaffold names. Genome annotation (*.gff.gz) The genome annotation contains protein-coding genes (gene feature with transcript as a child feature) and non-coding RNA genes (ncrna_gene feature with ncrna as a child feature). The non-coding RNA genes are derived from assembled transcripts that don't have any overlap with predicted protein-coding genes. Coding sequences (CDS) for protein-coding genes (*_cds.fasta.gz) Protein sequences for protein-coding genes (*_proteins.fasta.gz) Table with external evidence for protein-coding genes (*_protein_coding_genes_support.tsv) Table shows for each gene if there is overlap with transcripts assembled from RNA-seq data used for annotation or with aligned protein sequences from Arabidopsis thaliana, Arabidopsis lyrata and Brassica rapa). You can find more details in the README.md file.