Data for "Sex chromosome evolution mediated by a large inversion and a possible switch of the sex determination gene"

This dataset contains the genomic assembly and annotation of Salix herbacea, supporting the findings of the paper: "Sex chromosome evolution mediated by a large inversion and a possible switch of the sex determination gene". Description Leveraging the long-read capabilities of PacBio HiFi sequencing and the high-resolution chromosome conformation capture provided by Hi-C, we assembled the genome of a female individual of Salix herbacea. We generated the initial draft assembly using PacBio HiFi long reads. Both haplotypes were anchored by Hi-C physical mapping, which showed a well-organised pattern of contact interactions along the diagonals within pseudo-chromosomes. Data Records The following files are organised in the repository: - Salix_herbacea_Genome_assembly/ - Sherbacea_final.h1.fasta: Genome assembly of Haplotype 1 of Salix herbacea (containing W-haplotype) - Sherbacea_final.h2.fasta: Genome assembly of Haplotype 2 of Salix herbacea (containing Z-haplotype) - Salix_herbacea_Genome_annotation/ - Sherbacea_final.h1.gene.gff3: Gene structure annotation of Haplotype 1 of Salix herbacea - Sherbacea_final.h1.repeat.gff3: Repeat annotation of Haplotype 1 of Salix herbacea - Sherbacea_final.h1.pro.fasta: Annotated protein sequences of Haplotype 1 of Salix herbacea - Sherbacea_final.h1.cds.fasta: Annotated coding sequences of Haplotype 1 of Salix herbacea - Sherbacea_final.h2.gene.gff: Gene structure annotation of Haplotype 2 of Salix herbacea - Sherbacea_final.h2.repeat.gff3: Repeat annotation of Haplotype 2 of Salix herbacea - Sherbacea_final.h2.pro.fasta: Annotated protein sequences of Haplotype 2 of Salix herbacea - Sherbacea_final.h2.cds.fasta: Annotated coding sequences of Haplotype 3 of Salix herbacea - Gene_function_annotation/ - Sherbacea_final.h1.gene_function_araport11.gff3: Gene function annotation based on sequence identity with the gene database of Arabidopsis thaliana using BLAST v2.16.0 - Sherbacea_final.h1.gene_function_emapper.gff3: Gene function annotation based on the homologous genes using EGGNOG-MAPPER - Sherbacea_final.h1.gene_function_interproscan.gff3: Gene function annotation based on domain similarities using InterProScan v5.62-94.0 - Sherbacea_final.h2.gene_function_araport11.gff3 - Sherbacea_final.h2.gene_function_interproscan.gff3