{
  "schemaVersion": 1,
  "description": "Canonical MapleOmics species metadata and module availability.",
  "species": [
    {
      "code": "Atru",
      "name": "Acer truncatum",
      "shortName": "A. truncatum",
      "group": "acer",
      "collection": "focal",
      "assemblySizeMb": 633.3,
      "proteinCodingGenes": 28214,
      "assemblyLevel": "Chromosome",
      "nuclearAccession": "Figshare 10.6084/m9.figshare.12986237",
      "nuclearSourceUrl": "https://doi.org/10.6084/m9.figshare.12986237",
      "nuclearDownloads": [
        {
          "label": "FASTA (172 MB)",
          "url": "https://ndownloader.figshare.com/files/24743837"
        },
        {
          "label": "GFF3 (3.4 MB)",
          "url": "https://ndownloader.figshare.com/files/24743855"
        },
        {
          "label": "CDS (9.4 MB)",
          "url": "https://ndownloader.figshare.com/files/24743858"
        },
        {
          "label": "Protein (6.3 MB)",
          "url": "https://ndownloader.figshare.com/files/24743861"
        }
      ],
      "chloroplastAccession": "NC_037211.1",
      "mitochondrialAccession": "MZ318049.1",
      "reference": "Ma et al., 2020, Plant Journal",
      "dataAccess": "public",
      "capabilities": {
        "search": true,
        "orthology": true,
        "synteny": true,
        "expression": true,
        "blast": true
      }
    },
    {
      "code": "Apal",
      "name": "Acer palmatum",
      "shortName": "A. palmatum",
      "group": "acer",
      "collection": "focal",
      "assemblySizeMb": 745.8,
      "proteinCodingGenes": 28559,
      "assemblyLevel": "Chromosome",
      "nuclearAccession": "BioProject PRJNA850663",
      "chloroplastAccession": "MK578668.1",
      "mitochondrialAccession": null,
      "reference": "Chen et al., 2023, International Journal of Biological Macromolecules",
      "dataAccess": "metadata",
      "capabilities": {
        "search": true,
        "orthology": true,
        "synteny": true,
        "expression": true,
        "blast": true
      },
      "nuclearBioProject": "PRJNA850663",
      "nuclearSourceType": "BioProject",
      "nuclearSourceUrl": "https://www.ncbi.nlm.nih.gov/bioproject/PRJNA850663",
      "sourceNote": "Published study BioProject; not a versioned assembly accession or a verified download of the local assembly."
    },
    {
      "code": "Abue",
      "name": "Acer buergerianum",
      "shortName": "A. buergerianum",
      "group": "acer",
      "collection": "focal",
      "assemblySizeMb": 731.7,
      "proteinCodingGenes": 30982,
      "assemblyLevel": "Scaffold",
      "nuclearAccession": "GWHHHRJ00000000.1",
      "nuclearSourceUrl": "https://ngdc.cncb.ac.cn/gwh/Assembly/106674/show",
      "nuclearDownloads": [
        {
          "label": "FASTA (211 MB)",
          "url": "https://download.cncb.ac.cn/gwh/Plants/Acer_buergerianum_Abue.genome.fa_GWHHHRJ00000000.1/GWHHHRJ00000000.1.genome.fasta.gz"
        }
      ],
      "chloroplastAccession": "NC_034744.1",
      "mitochondrialAccession": null,
      "reference": "Ma et al., 2026, Genome Biology, doi:10.1186/s13059-026-04058-2",
      "dataAccess": "public",
      "capabilities": {
        "search": true,
        "orthology": true,
        "synteny": true,
        "expression": true,
        "blast": true
      }
    },
    {
      "code": "Aele",
      "name": "Acer elegantulum",
      "shortName": "A. elegantulum",
      "group": "acer",
      "collection": "focal",
      "assemblySizeMb": 781.6,
      "proteinCodingGenes": 31158,
      "assemblyLevel": "Scaffold",
      "nuclearAccession": "GWHHHRI00000000.1",
      "nuclearSourceUrl": "https://ngdc.cncb.ac.cn/gwh/Assembly/106673/show",
      "nuclearDownloads": [
        {
          "label": "FASTA (223 MB)",
          "url": "https://download.cncb.ac.cn/gwh/Plants/Acer_elegantulum_Aele.genome.fa_GWHHHRI00000000.1/GWHHHRI00000000.1.genome.fasta.gz"
        }
      ],
      "chloroplastAccession": "NC_056210.1",
      "mitochondrialAccession": null,
      "reference": "Ma et al., 2026, Genome Biology, doi:10.1186/s13059-026-04058-2",
      "dataAccess": "public",
      "capabilities": {
        "search": true,
        "orthology": true,
        "synteny": true,
        "expression": true,
        "blast": true
      }
    },
    {
      "code": "Agri",
      "name": "Acer griseum",
      "shortName": "A. griseum",
      "group": "acer",
      "collection": "focal",
      "assemblySizeMb": 763.6,
      "proteinCodingGenes": 33665,
      "assemblyLevel": "Scaffold",
      "nuclearAccession": "GWHHHRH00000000.1",
      "nuclearSourceUrl": "https://ngdc.cncb.ac.cn/gwh/Assembly/106672/show",
      "nuclearDownloads": [
        {
          "label": "FASTA (218 MB)",
          "url": "https://download.cncb.ac.cn/gwh/Plants/Acer_griseum_Agri.genome.fa_GWHHHRH00000000.1/GWHHHRH00000000.1.genome.fasta.gz"
        }
      ],
      "chloroplastAccession": "NC_034346.1",
      "mitochondrialAccession": null,
      "reference": "Ma et al., 2026, Genome Biology, doi:10.1186/s13059-026-04058-2",
      "dataAccess": "public",
      "capabilities": {
        "search": true,
        "orthology": true,
        "synteny": true,
        "expression": true,
        "blast": true
      }
    },
    {
      "code": "Ahen",
      "name": "Acer henryi",
      "shortName": "A. henryi",
      "group": "acer",
      "collection": "focal",
      "assemblySizeMb": 543.4,
      "proteinCodingGenes": 27376,
      "assemblyLevel": "Scaffold",
      "nuclearAccession": "GWHHHRG00000000.1",
      "nuclearSourceUrl": "https://ngdc.cncb.ac.cn/gwh/Assembly/106671/show",
      "nuclearDownloads": [
        {
          "label": "FASTA (156 MB)",
          "url": "https://download.cncb.ac.cn/gwh/Plants/Acer_henryi_Ahen.genome.fa_GWHHHRG00000000.1/GWHHHRG00000000.1.genome.fasta.gz"
        }
      ],
      "chloroplastAccession": "NC_049163.1",
      "mitochondrialAccession": null,
      "reference": "Ma et al., 2026, Genome Biology, doi:10.1186/s13059-026-04058-2",
      "dataAccess": "public",
      "capabilities": {
        "search": true,
        "orthology": true,
        "synteny": true,
        "expression": true,
        "blast": true
      }
    },
    {
      "code": "Aneg",
      "name": "Acer negundo",
      "shortName": "A. negundo",
      "group": "acer",
      "collection": "focal",
      "assemblySizeMb": 442.4,
      "proteinCodingGenes": 29291,
      "assemblyLevel": "Chromosome",
      "nuclearAccession": "GCA_025594385.1",
      "nuclearSourceUrl": "https://www.ncbi.nlm.nih.gov/datasets/genome/GCA_025594385.1/",
      "nuclearDownloads": [
        {
          "label": "FASTA",
          "url": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/025/594/385/GCA_025594385.1_ASM2559438v1/GCA_025594385.1_ASM2559438v1_genomic.fna.gz"
        },
        {
          "label": "GFF3",
          "url": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/025/594/385/GCA_025594385.1_ASM2559438v1/GCA_025594385.1_ASM2559438v1_genomic.gff.gz"
        },
        {
          "label": "CDS",
          "url": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/025/594/385/GCA_025594385.1_ASM2559438v1/GCA_025594385.1_ASM2559438v1_cds_from_genomic.fna.gz"
        },
        {
          "label": "Protein",
          "url": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/025/594/385/GCA_025594385.1_ASM2559438v1/GCA_025594385.1_ASM2559438v1_protein.faa.gz"
        },
        {
          "label": "RNA",
          "url": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/025/594/385/GCA_025594385.1_ASM2559438v1/GCA_025594385.1_ASM2559438v1_rna_from_genomic.fna.gz"
        }
      ],
      "chloroplastAccession": "NC_051957.1",
      "mitochondrialAccession": null,
      "reference": "McEvoy et al., 2022, Plant Journal",
      "dataAccess": "public",
      "capabilities": {
        "search": true,
        "orthology": true,
        "synteny": true,
        "expression": true,
        "blast": true
      }
    },
    {
      "code": "Apen",
      "name": "Acer pentaphyllum",
      "shortName": "A. pentaphyllum",
      "group": "acer",
      "collection": "focal",
      "assemblySizeMb": 647.1,
      "proteinCodingGenes": 30123,
      "assemblyLevel": "Scaffold",
      "nuclearAccession": "GWHHHRF00000000.1",
      "nuclearSourceUrl": "https://ngdc.cncb.ac.cn/gwh/Assembly/106670/show",
      "nuclearDownloads": [
        {
          "label": "FASTA (187 MB)",
          "url": "https://download.cncb.ac.cn/gwh/Plants/Acer_pentaphyllum_Apen.genome.fa_GWHHHRF00000000.1/GWHHHRF00000000.1.genome.fasta.gz"
        }
      ],
      "chloroplastAccession": "NC_049167.1",
      "mitochondrialAccession": null,
      "reference": "Ma et al., 2026, Genome Biology, doi:10.1186/s13059-026-04058-2",
      "dataAccess": "public",
      "capabilities": {
        "search": true,
        "orthology": true,
        "synteny": true,
        "expression": true,
        "blast": true
      }
    },
    {
      "code": "Ateg",
      "name": "Acer tegmentosum",
      "shortName": "A. tegmentosum",
      "group": "acer",
      "collection": "focal",
      "assemblySizeMb": 1070.7,
      "proteinCodingGenes": 34965,
      "assemblyLevel": "Scaffold",
      "nuclearAccession": "GWHHHRE00000000.1",
      "nuclearSourceUrl": "https://ngdc.cncb.ac.cn/gwh/Assembly/106669/show",
      "nuclearDownloads": [
        {
          "label": "FASTA (292 MB)",
          "url": "https://download.cncb.ac.cn/gwh/Plants/Acer_tegmentosum_Ateg.genome.fa_GWHHHRE00000000.1/GWHHHRE00000000.1.genome.fasta.gz"
        }
      ],
      "chloroplastAccession": "NC_056233.1",
      "mitochondrialAccession": null,
      "reference": "Ma et al., 2026, Genome Biology, doi:10.1186/s13059-026-04058-2",
      "dataAccess": "public",
      "capabilities": {
        "search": true,
        "orthology": true,
        "synteny": true,
        "expression": true,
        "blast": true
      }
    },
    {
      "code": "Ayan",
      "name": "Acer yangbiense",
      "shortName": "A. yangbiense",
      "group": "acer",
      "collection": "focal",
      "assemblySizeMb": 665.9,
      "proteinCodingGenes": 28307,
      "assemblyLevel": "Scaffold",
      "nuclearAccession": "GCA_008009225.1",
      "nuclearSourceUrl": "https://www.ncbi.nlm.nih.gov/datasets/genome/GCA_008009225.1/",
      "nuclearDownloads": [
        {
          "label": "ZIP package (214 MB)",
          "url": "https://api.ncbi.nlm.nih.gov/datasets/v2/genome/accession/GCA_008009225.1/download?include_annotation_type=GENOME_FASTA&include_annotation_type=GENOME_GFF&include_annotation_type=PROT_FASTA&include_annotation_type=RNA_FASTA&include_annotation_type=CDS_FASTA&filename=GCA_008009225.1.zip"
        }
      ],
      "chloroplastAccession": "NC_050351.1",
      "mitochondrialAccession": "NC_059858.1",
      "reference": "Yang et al., 2019, GigaScience",
      "dataAccess": "public",
      "capabilities": {
        "search": true,
        "orthology": true,
        "synteny": true,
        "expression": true,
        "blast": true
      }
    },
    {
      "code": "Apse",
      "name": "Acer pseudosieboldianum",
      "shortName": "A. pseudosieboldianum",
      "group": "acer",
      "collection": "focal",
      "assemblySizeMb": 690.4,
      "proteinCodingGenes": 29679,
      "assemblyLevel": "Scaffold",
      "nuclearAccession": "GWHBECT00000000",
      "nuclearSourceUrl": "https://ngdc.cncb.ac.cn/gwh/Assembly/21846/show",
      "nuclearDownloads": [
        {
          "label": "FASTA (198 MB)",
          "url": "https://download.cncb.ac.cn/gwh/Plants/Acer_pseudosieboldianum_Apse_genome_GWHBECT00000000/GWHBECT00000000.genome.fasta.gz"
        },
        {
          "label": "GFF3 (13.7 MB)",
          "url": "https://download.cncb.ac.cn/gwh/Plants/Acer_pseudosieboldianum_Apse_genome_GWHBECT00000000/GWHBECT00000000.gff.gz"
        },
        {
          "label": "CDS (12.5 MB)",
          "url": "https://download.cncb.ac.cn/gwh/Plants/Acer_pseudosieboldianum_Apse_genome_GWHBECT00000000/GWHBECT00000000.CDS.fasta.gz"
        },
        {
          "label": "Protein (8.8 MB)",
          "url": "https://download.cncb.ac.cn/gwh/Plants/Acer_pseudosieboldianum_Apse_genome_GWHBECT00000000/GWHBECT00000000.Protein.faa.gz"
        },
        {
          "label": "RNA (15.0 MB)",
          "url": "https://download.cncb.ac.cn/gwh/Plants/Acer_pseudosieboldianum_Apse_genome_GWHBECT00000000/GWHBECT00000000.RNA.fasta.gz"
        }
      ],
      "chloroplastAccession": "NC_046487.1",
      "mitochondrialAccession": null,
      "reference": "Li et al., 2022, Frontiers in Plant Science",
      "dataAccess": "public",
      "capabilities": {
        "search": true,
        "orthology": true,
        "synteny": true,
        "expression": true,
        "blast": true
      }
    },
    {
      "code": "Dipdye",
      "name": "Dipteronia dyeriana",
      "shortName": "D. dyeriana",
      "group": "dip",
      "collection": "focal",
      "assemblySizeMb": 914.8,
      "proteinCodingGenes": 32825,
      "assemblyLevel": "Chromosome",
      "nuclearAccession": "GCA_032871835.1",
      "nuclearSourceUrl": "https://www.ncbi.nlm.nih.gov/datasets/genome/GCA_032871835.1/",
      "nuclearDownloads": [
        {
          "label": "ZIP package (297 MB)",
          "url": "https://api.ncbi.nlm.nih.gov/datasets/v2/genome/accession/GCA_032871835.1/download?include_annotation_type=GENOME_FASTA&include_annotation_type=GENOME_GFF&include_annotation_type=PROT_FASTA&include_annotation_type=RNA_FASTA&include_annotation_type=CDS_FASTA&filename=GCA_032871835.1.zip"
        }
      ],
      "chloroplastAccession": "NC_031899.1",
      "mitochondrialAccession": null,
      "reference": "Feng et al., 2023, Plant Journal",
      "dataAccess": "public",
      "capabilities": {
        "search": true,
        "orthology": true,
        "synteny": true,
        "expression": true,
        "blast": true
      }
    },
    {
      "code": "Dipsin",
      "name": "Dipteronia sinensis",
      "shortName": "D. sinensis",
      "group": "dip",
      "collection": "focal",
      "assemblySizeMb": 711.5,
      "proteinCodingGenes": 33257,
      "assemblyLevel": "Chromosome",
      "nuclearAccession": "GCA_033220585.1",
      "nuclearSourceUrl": "https://www.ncbi.nlm.nih.gov/datasets/genome/GCA_033220585.1/",
      "nuclearDownloads": [
        {
          "label": "ZIP package (230 MB)",
          "url": "https://api.ncbi.nlm.nih.gov/datasets/v2/genome/accession/GCA_033220585.1/download?include_annotation_type=GENOME_FASTA&include_annotation_type=GENOME_GFF&include_annotation_type=PROT_FASTA&include_annotation_type=RNA_FASTA&include_annotation_type=CDS_FASTA&filename=GCA_033220585.1.zip"
        }
      ],
      "chloroplastAccession": "NC_029338.1",
      "mitochondrialAccession": null,
      "reference": "Feng et al., 2023, Plant Journal",
      "dataAccess": "public",
      "capabilities": {
        "search": true,
        "orthology": true,
        "synteny": true,
        "expression": true,
        "blast": true
      }
    },
    {
      "code": "Arubr",
      "name": "Acer rubrum",
      "shortName": "A. rubrum",
      "group": "acer",
      "collection": "focal",
      "assemblySizeMb": 1687.0,
      "proteinCodingGenes": 64644,
      "assemblyLevel": "Chromosome",
      "nuclearAccession": "BioProject PRJNA741546",
      "chloroplastAccession": null,
      "mitochondrialAccession": null,
      "reference": "Lu et al., 2022, Plant Physiology and Biochemistry",
      "dataAccess": "metadata",
      "capabilities": {
        "search": true,
        "orthology": false,
        "synteny": false,
        "expression": false,
        "blast": true
      },
      "nuclearBioProject": "PRJNA741546",
      "nuclearSourceType": "BioProject",
      "nuclearSourceUrl": "https://www.ncbi.nlm.nih.gov/bioproject/PRJNA741546",
      "sourceNote": "Published study BioProject; not a versioned assembly accession or a verified download of the local assembly."
    },
    {
      "code": "Apaxi",
      "name": "Acer paxii",
      "shortName": "A. paxii",
      "group": "acer",
      "collection": "focal",
      "assemblySizeMb": 748.1,
      "proteinCodingGenes": 30041,
      "assemblyLevel": "Scaffold",
      "nuclearAccession": null,
      "chloroplastAccession": null,
      "mitochondrialAccession": null,
      "reference": "This study; manuscript in preparation",
      "dataAccess": "restricted",
      "capabilities": {
        "search": true,
        "orthology": false,
        "synteny": false,
        "expression": false,
        "blast": true
      }
    },
    {
      "code": "Citsin",
      "name": "Citrus sinensis",
      "shortName": "C. sinensis",
      "group": "outgroup",
      "collection": "outgroup",
      "assemblySizeMb": null,
      "proteinCodingGenes": 24414,
      "assemblyLevel": "Chromosome",
      "nuclearAccession": "GCF_000317415.1",
      "nuclearSourceUrl": "https://www.ncbi.nlm.nih.gov/datasets/genome/GCF_000317415.1/",
      "nuclearDownloads": [
        {
          "label": "ZIP package (140 MB)",
          "url": "https://api.ncbi.nlm.nih.gov/datasets/v2/genome/accession/GCF_000317415.1/download?include_annotation_type=GENOME_FASTA&include_annotation_type=GENOME_GFF&include_annotation_type=PROT_FASTA&include_annotation_type=RNA_FASTA&include_annotation_type=CDS_FASTA&filename=GCF_000317415.1.zip"
        }
      ],
      "chloroplastAccession": "NC_008334.1",
      "mitochondrialAccession": "NC_037463.1",
      "reference": "Xu et al., 2013, Nature Genetics",
      "dataAccess": "public",
      "capabilities": {
        "search": true,
        "orthology": true,
        "synteny": false,
        "expression": false,
        "blast": true
      }
    }
  ]
}
