{ "type": "genome", "identifier": "GCF_900101875.1", "organism": "Mucilaginibacter pineti", "title": "Mucilaginibacter pineti", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900101875.1", "bioproject": "PRJNA224116", "biosample": "SAMN05216464", "wgs_master": "FNAI00000000.1", "refseq_category": "reference genome", "taxid": "1391627", "species_taxid": "1391627", "organism_name": "Mucilaginibacter pineti", "infraspecific_name": "strain=47C3B", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/10/21", "asm_name": "IMG-taxon 2671180113 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900101875.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/101/875/GCF_900101875.1_IMG-taxon_2671180113_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": "7206603", "genome_size_ungapped": "7206603", "gc_percent": "43.000000", "replicon_count": "0", "scaffold_count": "52", "contig_count": "52", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900101875.1-RS_2024_10_22", "annotation_date": "2024-10-22", "total_gene_count": "6274", "protein_coding_gene_count": "6182", "non_coding_gene_count": "52", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-10-21", "dateModified": "2016-10-21", "datePublished": "2016-10-21", "_annotation": { "sample_count": 1, "sample_organism": [ "Mucilaginibacter pineti" ], "sample_taxid": [ "1391627" ], "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": "2.040 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)": "7206603", "Number of Sequences": "52", "Longest Sequences (bp)": "1082568", "N50 (bp)": "365061", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "42.9", "Number of CDSs": "6078", "Average Protein Length": "343.9", "Coding Ratio (%)": "87.0", "Number of rRNAs": "3", "Number of tRNAs": "46", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Mucilaginibacter pineti", "strain": "strain=47C3B", "accession": "GCA_900101875.1", "taxid": 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"total_fragments": 2374, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mucilaginibacter mallensis", "strain": "strain=MP1X4", "accession": "GCA_900105165.1", "taxid": 652787, "species_taxid": 652787, "relation_to_type": "type", "validated": true, "ani": 78.0418, "matched_fragments": 440, "total_fragments": 2374, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mucilaginibacter conchicola", "strain": "strain=MYSH2", "accession": "GCA_003432115.1", "taxid": 2303333, "species_taxid": 2303333, "relation_to_type": "type", "validated": true, "ani": 78.0212, "matched_fragments": 391, "total_fragments": 2374, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mucilaginibacter gilvus", "strain": "strain=F01003", "accession": "GCA_004054195.1", "taxid": 2305909, "species_taxid": 2305909, "relation_to_type": "type", "validated": true, "ani": 77.9662, "matched_fragments": 441, "total_fragments": 2374, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mucilaginibacter xinganensis", "strain": "strain=BJC16-A31", "accession": "GCA_002257585.1", "taxid": 1234841, "species_taxid": 1234841, "relation_to_type": "type", "validated": true, "ani": 77.8615, "matched_fragments": 404, "total_fragments": 2374, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mucilaginibacter agri", "strain": "strain=R11", "accession": "GCA_009928685.1", "taxid": 2695265, "species_taxid": 2695265, "relation_to_type": "type", "validated": true, "ani": 77.458, "matched_fragments": 281, "total_fragments": 2374, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mucilaginibacter roseus", "strain": "strain=LMG 28454", "accession": "GCA_021215455.1", "taxid": 1528868, "species_taxid": 1528868, "relation_to_type": "type", "validated": true, "ani": 77.4412, "matched_fragments": 287, "total_fragments": 2374, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { 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"min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_900100945.1", "gtdb_species": "s__Mucilaginibacter gossypii", "ani": 78.7411, "matched_fragments": 701, "total_fragments": 2374, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Sphingobacteriales;f__Sphingobacteriaceae;g__Mucilaginibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.19", "min_intra_species_ani": "95.83", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.84", "num_clustered_genomes": 10, "status": "-" }, { "accession": "GCF_014200495.1", "gtdb_species": "s__Mucilaginibacter sp014200495", "ani": 77.9565, "matched_fragments": 467, "total_fragments": 2374, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Sphingobacteriales;f__Sphingobacteriaceae;g__Mucilaginibacter", "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": -0.382, "cell_length": 0.217, "doubling_h": null, "growth_tmp": 30.0, "optimum_tmp": 26.0, "optimum_ph": 6.449, "genome_size": 7206603.0, "gc_content": 43.045, "coding_genes": 5407.0, "rRNA16S_genes": 2.0, "tRNA_genes": 47.0, "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": [ "Mucilaginibacter", "pineti" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }