{ "type": "genome", "identifier": "GCF_000723165.1", "organism": "Janthinobacterium agaricidamnosum NBRC 102515 = DSM 9628", "title": "Janthinobacterium agaricidamnosum NBRC 102515 = DSM 9628", "description": "na", "data type": "Genome sequencing and assembly", "organization": "HKI", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000723165.1", "bioproject": "PRJNA224116", "biosample": "SAMEA3139017", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "1349767", "species_taxid": "55508", "organism_name": "Janthinobacterium agaricidamnosum NBRC 102515 = DSM 9628", "infraspecific_name": "strain=DSM 9628", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2014/01/06", "asm_name": "JAG1", "asm_submitter": "HKI", "gbrs_paired_asm": "GCA_000723165.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/723/165/GCF_000723165.1_JAG1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5949001", "genome_size_ungapped": "5949001", "gc_percent": "61.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000723165.1-RS_2024_04_06", "annotation_date": "2024-04-06", "total_gene_count": "5281", "protein_coding_gene_count": "5116", "non_coding_gene_count": "85", "pubmed_id": "25883287" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2014-01-06", "dateModified": "2014-01-06", "datePublished": "2014-01-06", "_annotation": { "sample_count": 1, "sample_organism": [ "Janthinobacterium agaricidamnosum NBRC 102515 = DSM 9628" ], "sample_taxid": [ "1349767" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.636 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5949001", "Number of Sequences": "1", "Longest Sequences (bp)": "5949001", "N50 (bp)": "5949001", "Gap Ratio (%)": "0.027853", "GCcontent (%)": "61.1", "Number of CDSs": "5198", "Average Protein Length": "338.5", "Coding Ratio (%)": "88.7", "Number of rRNAs": "2", "Number of tRNAs": "81", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Janthinobacterium agaricidamnosum", "strain": "strain=DSM 9628", "accession": "GCA_000723165.1", "taxid": 55508, 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"relation_to_type": "type", "validated": true, "ani": 82.4689, "matched_fragments": 1177, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Janthinobacterium lividum", "strain": "strain=NCTC9796", "accession": "GCA_900451145.1", "taxid": 29581, "species_taxid": 29581, "relation_to_type": "suspected-type", "validated": true, "ani": 82.4056, "matched_fragments": 1190, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Janthinobacterium lividum", "strain": "strain=H-24", "accession": "GCA_001758635.1", "taxid": 29581, "species_taxid": 29581, "relation_to_type": "suspected-type", "validated": true, "ani": 82.3898, "matched_fragments": 1162, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Janthinobacterium lividum", "strain": "strain=ATCC 12473", "accession": "GCA_020858175.1", "taxid": 29581, "species_taxid": 29581, "relation_to_type": "suspected-type", "validated": true, "ani": 82.3525, "matched_fragments": 1190, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Janthinobacterium tructae", "strain": "strain=SNU WT3", "accession": "GCA_006517255.1", "taxid": 2590869, "species_taxid": 2590869, "relation_to_type": "type", "validated": true, "ani": 82.3481, "matched_fragments": 1147, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Duganella aceris", "strain": "strain=SAP-35", "accession": "GCA_011090165.1", "taxid": 2703883, "species_taxid": 2703883, "relation_to_type": "type", "validated": true, "ani": 81.2411, "matched_fragments": 1033, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rugamonas brunnea", "strain": "strain=LX20W", "accession": "GCA_014042345.1", "taxid": 2758569, "species_taxid": 2758569, "relation_to_type": "type", "validated": true, "ani": 80.8755, "matched_fragments": 910, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rugamonas apoptosis", "strain": "strain=LX47W", "accession": "GCA_014042355.1", "taxid": 2758570, "species_taxid": 2758570, "relation_to_type": "type", "validated": true, "ani": 80.7912, "matched_fragments": 931, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rugamonas fusca", "strain": "strain=FT3S", "accession": "GCA_014042365.1", "taxid": 2758568, "species_taxid": 2758568, "relation_to_type": "type", "validated": true, "ani": 80.722, "matched_fragments": 936, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia cavernae", "strain": "strain=K1S02-61", "accession": "GCA_003590855.1", "taxid": 2320864, "species_taxid": 2320864, "relation_to_type": "type", "validated": true, "ani": 80.3962, "matched_fragments": 685, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chelatococcus composti", "strain": "strain=DSM 101465", "accession": "GCA_018398355.1", "taxid": 1743235, "species_taxid": 1743235, "relation_to_type": "type", "validated": true, "ani": 75.1856, "matched_fragments": 72, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chelatococcus composti", "strain": "strain=DSM 101465", "accession": "GCA_014201415.1", "taxid": 1743235, "species_taxid": 1743235, "relation_to_type": "type", "validated": true, "ani": 75.1579, "matched_fragments": 71, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chelatococcus caeni", "strain": "strain=DSM 103737", "accession": "GCA_014196925.1", "taxid": 1348468, "species_taxid": 1348468, "relation_to_type": "type", "validated": true, "ani": 75.086, "matched_fragments": 106, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chelatococcus sambhunathii", "strain": "strain=DSM 18167", "accession": "GCA_001517345.1", "taxid": 363953, "species_taxid": 363953, "relation_to_type": "type", "validated": true, "ani": 75.0065, "matched_fragments": 86, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chelatococcus sambhunathii", "strain": "strain=DSM 18167", "accession": "GCA_001418005.1", "taxid": 363953, "species_taxid": 363953, "relation_to_type": "type", "validated": true, "ani": 75.0065, "matched_fragments": 86, "total_fragments": 1983, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000723165.1", "gtdb_species": "s__Janthinobacterium agaricidamnosum", "ani": 100.0, "matched_fragments": 1983, "total_fragments": 1983, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Janthinobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_014200675.1", "gtdb_species": "s__Janthinobacterium sp014200675", "ani": 82.7976, "matched_fragments": 1205, "total_fragments": 1983, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Janthinobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000344615.1", "gtdb_species": "s__Janthinobacterium sp000344615", "ani": 82.76, "matched_fragments": 1104, "total_fragments": 1983, 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"vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Janthinobacterium", "agaricidamnosum", "NBRC", "102515", "=", "DSM", "9628" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }