{ "type": "genome", "identifier": "GCF_900107795.1", "organism": "Chitinophaga terrae (ex Kim and Jung 2007)", "title": "Chitinophaga terrae (ex Kim and Jung 2007)", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900107795.1", "bioproject": "PRJNA224116", "biosample": "SAMN05660909", "wgs_master": "FNRL00000000.1", "refseq_category": "reference genome", "taxid": "408074", "species_taxid": "408074", "organism_name": "Chitinophaga terrae (ex Kim and Jung 2007)", "infraspecific_name": "strain=DSM 23920", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/10/22", "asm_name": "IMG-taxon 2599185217 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900107795.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/107/795/GCF_900107795.1_IMG-taxon_2599185217_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": "6630860", "genome_size_ungapped": "6627397", "gc_percent": "46.000000", "replicon_count": "0", "scaffold_count": "64", "contig_count": "64", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900107795.1-RS_2024_12_22", "annotation_date": "2024-12-22", "total_gene_count": "5598", "protein_coding_gene_count": "5475", "non_coding_gene_count": "70", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-10-22", "dateModified": "2016-10-22", "datePublished": "2016-10-22", "_annotation": { "sample_count": 1, "sample_organism": [ "Chitinophaga terrae (ex Kim and Jung 2007)" ], "sample_taxid": [ "408074" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.888 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)": "6630860", "Number of Sequences": "64", "Longest Sequences (bp)": "521927", "N50 (bp)": "201348", "Gap Ratio (%)": "0.052226", "GCcontent (%)": "45.8", "Number of CDSs": "5432", "Average Protein Length": "359.4", "Coding Ratio (%)": "88.3", "Number of rRNAs": "1", "Number of tRNAs": "64", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Chitinophaga terrae (ex Kim and Jung 2007)", "strain": "strain=DSM 23920", "accession": "GCA_900107795.1", "taxid": 408074, "species_taxid": 408074, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2175, "total_fragments": 2180, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Chitinophaga silvatica", "strain": "strain=GDMCC 1.1288", "accession": "GCA_003419895.1", "taxid": 2282649, "species_taxid": 2282649, "relation_to_type": "type", "validated": true, "ani": 80.6452, "matched_fragments": 909, "total_fragments": 2180, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga ginsengisegetis", "strain": "strain=DSM 18108", "accession": "GCA_900168065.1", "taxid": 393003, "species_taxid": 393003, "relation_to_type": "type", "validated": true, "ani": 79.3533, "matched_fragments": 763, "total_fragments": 2180, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga arvensicola", "strain": "strain=DSM 3695", "accession": "GCA_900110835.1", "taxid": 29529, "species_taxid": 29529, "relation_to_type": "type", "validated": true, "ani": 79.3425, "matched_fragments": 761, "total_fragments": 2180, "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": 79.0596, "matched_fragments": 598, "total_fragments": 2180, "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": 79.0483, "matched_fragments": 730, "total_fragments": 2180, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga flava", "strain": "strain=GDMCC 1.1325", "accession": "GCA_003308995.1", "taxid": 2259036, "species_taxid": 2259036, "relation_to_type": "type", "validated": true, "ani": 78.8835, "matched_fragments": 504, "total_fragments": 2180, "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": 78.7431, "matched_fragments": 573, "total_fragments": 2180, "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": 78.6457, "matched_fragments": 521, "total_fragments": 2180, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga eiseniae", "strain": "strain=DSM 22224", "accession": "GCA_900167135.1", "taxid": 634771, "species_taxid": 634771, "relation_to_type": "type", "validated": true, "ani": 78.62, "matched_fragments": 560, "total_fragments": 2180, "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": 78.4825, "matched_fragments": 547, "total_fragments": 2180, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga agri", "strain": "strain=H33E-04", "accession": "GCA_010093065.1", "taxid": 2703787, "species_taxid": 2703787, "relation_to_type": "type", "validated": true, "ani": 77.4427, "matched_fragments": 267, "total_fragments": 2180, "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": 77.3492, "matched_fragments": 237, "total_fragments": 2180, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900107795.1", "gtdb_species": "s__Chitinophaga terrae", "ani": 100.0, "matched_fragments": 2175, "total_fragments": 2180, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Chitinophaga", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_003419895.1", "gtdb_species": "s__Chitinophaga sp003419895", "ani": 80.6412, "matched_fragments": 910, "total_fragments": 2180, "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_902150045.1", "gtdb_species": "s__Chitinophaga polysaccharea_A", "ani": 79.3879, "matched_fragments": 744, "total_fragments": 2180, "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", "min_intra_species_ani": "96.96", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900168065.1", "gtdb_species": "s__Chitinophaga ginsengisegetis", "ani": 79.3604, "matched_fragments": 763, "total_fragments": 2180, "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": "-" }, { "accession": "GCF_900110835.1", "gtdb_species": "s__Chitinophaga arvensicola", "ani": 79.3363, "matched_fragments": 762, "total_fragments": 2180, "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": 79.2906, "matched_fragments": 699, "total_fragments": 2180, "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_012726295.1", "gtdb_species": "s__Chitinophaga sp012726295", "ani": 79.2904, "matched_fragments": 708, "total_fragments": 2180, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Chitinophaga", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.43", "min_intra_species_ani": "99.43", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_007829335.1", "gtdb_species": "s__Chitinophaga polysaccharea_B", "ani": 79.2193, "matched_fragments": 711, "total_fragments": 2180, "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_004363865.1", "gtdb_species": "s__Chitinophaga sp004363865", "ani": 79.1326, "matched_fragments": 704, "total_fragments": 2180, "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_018224885.1", "gtdb_species": "s__Chitinophaga sp018224885", "ani": 79.0606, "matched_fragments": 728, "total_fragments": 2180, "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_003308995.1", "gtdb_species": "s__Chitinophaga flava", "ani": 78.879, "matched_fragments": 505, "total_fragments": 2180, "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_012516355.1", "gtdb_species": "s__Chitinophaga sp012516355", "ani": 78.7682, "matched_fragments": 580, "total_fragments": 2180, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Chitinophaga", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.48", "min_intra_species_ani": "99.48", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_019219075.1", "gtdb_species": "s__Chitinophaga sp019219075", "ani": 78.7327, "matched_fragments": 464, "total_fragments": 2180, "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_014529945.1", "gtdb_species": "s__Chitinophaga varians", "ani": 78.6367, "matched_fragments": 522, "total_fragments": 2180, "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_012927205.1", "gtdb_species": "s__Chitinophaga fulva", "ani": 78.4824, "matched_fragments": 548, "total_fragments": 2180, "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": -0.308, "cell_length": 0.473, "doubling_h": null, "growth_tmp": 28.733, "optimum_tmp": 26.937, "optimum_ph": 7.0, "genome_size": 7579043.287, "gc_content": 45.2, "coding_genes": 7126.333, "rRNA16S_genes": 6.0, "tRNA_genes": 72.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.181, "range_salinity": null, "facultative_respiration": 0.058, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.941, "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", "terrae", "(ex", "Kim", "and", "Jung", "2007)" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }