Japanese Red List Genome Assembly Catalog

Japanese Red List Genome Assembly Catalog combines Red List data with NCBI genome assembly records to provide a searchable inventory of genome assembly availability for species listed in the Japanese Red List, highlighting gaps between biodiversity conservation needs and genomic resources.

Key Features:

• Searchable Inventory: The catalog provides a searchable inventory of genome assembly availability for species listed in the Japanese Red List.
• Regular Updates: The catalog is regularly updated to maintain current information on genome assembly availability.
• Data Integration: The catalog combines Red List data with NCBI genome assembly records to tabulate assembly availability.
• Taxonomic Coverage Analysis: The catalog reveals low percentage (2.1%) of whole genome sequence data availability for Japanese Red List taxa and identifies strong bias towards mammals and birds in Animalia and vascular plants in Plantae.

Scientific Applications:

• Conservation Genomics Planning: The catalog highlights potential systematic limitations in genome sequencing and instructs future policies including which taxon needs more effort for genome sequencing.
• Biodiversity Monitoring: The catalog assists identification of gaps in genomic resources needed for monitoring intraspecific genetic diversity in threatened species.
• Research Priority Setting: The catalog identifies budget-related limitations for sequencing large genomes such as those of amphibians to guide future sequencing efforts.

Methodology:

The catalog combines data from the Japanese national Red List with records of genome assembly in NCBI and tabulates the assembly availability of the species in the list.