{ "type": "genome", "identifier": "GCF_900168065.1", "organism": "Chitinophaga ginsengisegetis", "title": "Chitinophaga ginsengisegetis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900168065.1", "bioproject": "PRJNA224116", "biosample": "SAMN05660461", "wgs_master": "FUZZ00000000.1", "refseq_category": "reference genome", "taxid": "393003", "species_taxid": "393003", "organism_name": "Chitinophaga ginsengisegetis", "infraspecific_name": "strain=DSM 18108", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/03/09", "asm_name": "IMG-taxon 2595698247 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900168065.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/168/065/GCF_900168065.1_IMG-taxon_2595698247_annotated_assembly", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "7934943", "genome_size_ungapped": "7933678", "gc_percent": "46.500000", "replicon_count": "0", "scaffold_count": "9", "contig_count": "9", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900168065.1-RS_2024_10_22", "annotation_date": "2024-10-22", "total_gene_count": "6389", "protein_coding_gene_count": "6306", "non_coding_gene_count": "69", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-03-09", "dateModified": "2017-03-09", "datePublished": "2017-03-09", "_annotation": { "sample_count": 1, "sample_organism": [ "Chitinophaga ginsengisegetis" ], "sample_taxid": [ "393003" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea" ], "sample_host_location_id": [], "data_size": "2.246 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)": "7934943", "Number of Sequences": "9", "Longest Sequences (bp)": "3474743", "N50 (bp)": "1166127", "Gap Ratio (%)": "0.015942", "GCcontent (%)": "46.6", "Number of CDSs": "6286", "Average Protein Length": "376.3", "Coding Ratio (%)": "89.4", "Number of rRNAs": "2", "Number of tRNAs": "63", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Chitinophaga ginsengisegetis", "strain": "strain=DSM 18108", "accession": "GCA_900168065.1", "taxid": 393003, "species_taxid": 393003, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2639, "total_fragments": 2640, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Chitinophaga arvensicola", "strain": "strain=DSM 3695", "accession": "GCA_900110835.1", "taxid": 29529, "species_taxid": 29529, "relation_to_type": "type", "validated": true, "ani": 84.0894, "matched_fragments": 1636, "total_fragments": 2640, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga hostae", "strain": "strain=2R12", "accession": "GCA_018224885.1", "taxid": 2831022, "species_taxid": 2831022, "relation_to_type": "type", "validated": true, "ani": 82.4617, "matched_fragments": 1574, "total_fragments": 2640, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga niastensis", "strain": "strain=DSM 24859", "accession": "GCA_003014755.1", "taxid": 536980, "species_taxid": 536980, "relation_to_type": "type", "validated": true, "ani": 81.5877, "matched_fragments": 1101, "total_fragments": 2640, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga solisilvae", "strain": "strain=O9", "accession": "GCA_009928525.1", "taxid": 1233460, "species_taxid": 1233460, "relation_to_type": "type", "validated": true, "ani": 79.6598, "matched_fragments": 861, "total_fragments": 2640, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga varians", "strain": "strain=KACC 19415", "accession": "GCA_014529945.1", "taxid": 2202339, "species_taxid": 2202339, "relation_to_type": "type", "validated": true, "ani": 79.4173, "matched_fragments": 849, "total_fragments": 2640, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga oryzae", "strain": "strain=1303", "accession": "GCA_012516375.2", "taxid": 2725414, "species_taxid": 2725414, "relation_to_type": "type", "validated": true, "ani": 79.3599, "matched_fragments": 878, "total_fragments": 2640, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga fulva", "strain": "strain=G-6-1-13", "accession": "GCA_012927205.1", "taxid": 2728842, "species_taxid": 2728842, "relation_to_type": "type", "validated": true, "ani": 79.2989, "matched_fragments": 862, "total_fragments": 2640, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga rhizophila", "strain": "strain=B61", "accession": "GCA_019492185.1", "taxid": 2866212, "species_taxid": 2866212, "relation_to_type": "type", "validated": true, "ani": 77.0074, "matched_fragments": 283, "total_fragments": 2640, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pinibacter aurantiacus", "strain": "strain=MAH-26", "accession": "GCA_019130065.1", "taxid": 2851599, "species_taxid": 2851599, "relation_to_type": "type", "validated": true, "ani": 75.8992, "matched_fragments": 63, "total_fragments": 2640, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900168065.1", "gtdb_species": "s__Chitinophaga ginsengisegetis", "ani": 100.0, "matched_fragments": 2639, "total_fragments": 2640, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Chitinophaga", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.27", "min_intra_species_ani": "98.27", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCF_902150045.1", "gtdb_species": "s__Chitinophaga polysaccharea_A", "ani": 85.8522, "matched_fragments": 1854, "total_fragments": 2640, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Chitinophaga", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.96", 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"mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_018224885.1", "gtdb_species": "s__Chitinophaga sp018224885", "ani": 82.4547, "matched_fragments": 1576, "total_fragments": 2640, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Chitinophaga", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_017745275.1", "gtdb_species": "s__Chitinophaga sp017745275", "ani": 81.8681, "matched_fragments": 1344, "total_fragments": 2640, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Chitinophaga", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_012641265.1", "gtdb_species": "s__Chitinophaga eiseniae_A", "ani": 81.4059, "matched_fragments": 1326, "total_fragments": 2640, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Chitinophaga", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.302, "cell_length": 0.079, "doubling_h": null, "growth_tmp": 30.0, "optimum_tmp": 23.0, "optimum_ph": 7.0, "genome_size": 7934943.0, "gc_content": 45.2, "coding_genes": 7126.333, "rRNA16S_genes": 6.0, "tRNA_genes": 72.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Chitinophaga", "ginsengisegetis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }