Table 1 Overview of all data files/data sets

Data file 1

Table 1 Species with their protein sequences used for gene prediction

Table (.xlsx)

Figshare, https://doi.org/10.6084/m9.figshare.24303265.v1 [30]

Data file 2

Raw WGS short reads

Fastq file (.fastq)

NCBI Sequence Read Archive,

https://identifiers.org/ncbi/insdc.sra:SRR26105794 [32]

Data file 3

Raw WGS long reads

Fastq file (.fastq)

NCBI Sequence Read Archive,

https://identifiers.org/ncbi/insdc.sra:SRR26143820 [33]

Data file 4

Raw WGS long reads

Fastq file (.fastq)

NCBI Sequence Read Archive,

https://identifiers.org/ncbi/insdc.sra:SRR26143821 [34]

Data file 5

Raw WGS long reads

Fastq file (.fastq)

NCBI Sequence Read Archive,

https://identifiers.org/ncbi/insdc.sra:SRR26143822 [35]

Data file 6

Raw WGS long reads

Fastq file (.fastq)

NCBI Sequence Read Archive,

https://identifiers.org/ncbi/insdc.sra:SRR26152992 [36]

Data file 7

Raw WGS long reads

Fastq file (.fastq)

NCBI Sequence Read Archive,

https://identifiers.org/ncbi/ insdc.sra:SRR26152993 [37]

Data file 8

Raw RNA reads of leaf tissues

Fastq file (.fastq)

NCBI Sequence Read Archive,

https://identifiers.org/ncbi/insdc.sra:SRR26075053 [38]

Data file 9

Assembled genome

Fasta file (.fasta)

NCBI Nucleotide,

https://identifiers.org/nucleotide:JAVQMF000000000.1 [39]

Data file 10

BUSCO assessment of the assembly

Text (.txt)

Figshare, https://doi.org/10.6084/m9.figshare.24303397.v1 [40]

Data file 11

Repetitive sequences predicted by RED

Text file (.bed)

Figshare, https://doi.org/10.6084/m9.figshare.24304657.v1 [41]

Data file 12

Repetitive sequences predicted by EDTA

Gff3 file (.gff3)

Figshare, https://doi.org/10.6084/m9.figshare.24303487.v1 [42]

Data file 13

Repetitive sequences combined by RED and EDTA

Text file (.bed)

Figshare, https://doi.org/10.6084/m9.figshare.24305008.v1 [43]

Data file 14

Predicted gene

Gff3 file (.gff3)

Figshare, https://doi.org/10.6084/m9.figshare.24305032.v1 [44]

Data file 15

Predicted genes - nucleotide sequences

Fasta file (.fasta)

Figshare, https://doi.org/10.6084/m9.figshare.24305245.v1 [45]

Data file 16

Predicted genes - translated sequences

Fasta file (.fasta)

Figshare, https://doi.org/10.6084/m9.figshare.24305251.v1 [46]

Data file 17

Gene annotation using GO, Pfam, interPro and UniProt, dbCAN, MEROPS and SignalP databases

Text (.txt)

Figshare, https://doi.org/10.6084/m9.figshare.24305284.v1 [47]

Data file 18

Gene annotation from eggNOG-mapper analysis

Text (.txt)

Figshare, https://doi.org/10.6084/m9.figshare.24305290.v1 [48]