Fusarium oxysporum f. sp. lactucae Telomere-to-Telomere Genome Assemblies

Ningxiao Li published telomere-to-telomere genome assemblies for Fusarium oxysporum f. sp. lactucae races 1 and 4 on figshare in April 2026. The dataset includes 16 chromosomes for race 1 and 19 for race 4, with over 20,000 predicted genes per race. It provides FASTA, GB, and GFF3 files totaling 163.1 MB.

Use Cases

• Compare structural genome differences between fungal races based on described accessory chromosome counts and rearrangement events.
• Study the role of transposable elements in genome evolution as suggested by the description of them as drivers of change.
• Analyze Secreted in Xylem (SIX) effector gene profiles to differentiate between race 1 and races 2-4.
• Benchmark contig-level assemblies by comparing missing genomic content, as the description notes 17-23% of genome size was absent from Illumina assemblies.

Strengths

• Provides gapless, telomere-to-telomere assemblies, a high-quality standard for two fungal races.
• Includes specific counts: 16 chromosomes (5 accessory) for race 1 and 19 chromosomes (8 accessory) for race 4.
• Contains over 20,000 predicted genes per race, with 689 and 536 race-specific genes identified.
• Quantifies improvement over previous methods, noting that 17-23% of genome size was missing from Illumina assemblies.

Limitations

• Row count and column-level documentation are absent; field semantics must be inferred after download.
• The dataset is focused on two specific fungal races, limiting broader taxonomic comparisons.

Provenance

Source

Ningxiao Li via figshare

Collection Method

Developed an assembly workflow for generating T2T genome assemblies, followed by comparative genomics analysis.

Freshness

Last updated 2026-04-08 22:32:39; freshness should be verified.