{ "type": "genome", "identifier": "GCF_018128025.1", "organism": "Proteiniclasticum sediminis", "title": "Proteiniclasticum sediminis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Proteiniclasticum sedimins BAD-10", "publication": [ {} ], "properties": { "assembly_accession": "GCF_018128025.1", "bioproject": "PRJNA224116", "biosample": "SAMN18747353", "wgs_master": "JAGSCS000000000.1", "refseq_category": "reference genome", "taxid": "2804028", "species_taxid": "2804028", "organism_name": "Proteiniclasticum sediminis", "infraspecific_name": "strain=BAD-10", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/04/22", "asm_name": "ASM1812802v1", "asm_submitter": "Proteiniclasticum sedimins BAD-10", "gbrs_paired_asm": "GCA_018128025.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/018/128/025/GCF_018128025.1_ASM1812802v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2985436", "genome_size_ungapped": "2983986", "gc_percent": "51.500000", "replicon_count": "0", "scaffold_count": "83", "contig_count": "83", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_018128025.1-RS_2024_12_11", "annotation_date": "2024-12-11", "total_gene_count": "2945", "protein_coding_gene_count": "2847", "non_coding_gene_count": "67", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-04-22", "dateModified": "2021-04-22", "datePublished": "2021-04-22", "_annotation": { "sample_count": 1, "sample_organism": [ "Proteiniclasticum sediminis" ], "sample_taxid": [ "2804028" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Kunshan City, Jiangsu Province" ], "sample_host_location_id": [], "data_size": "0.846 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 88.68, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "2985436", "Number of Sequences": "83", "Longest Sequences (bp)": "347418", "N50 (bp)": "129379", "Gap Ratio (%)": "0.048569", "GCcontent (%)": "51.4", "Number of CDSs": "2833", "Average Protein Length": "304.3", "Coding Ratio (%)": "86.6", "Number of rRNAs": "2", "Number of tRNAs": "52", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Proteiniclasticum sediminis", "strain": "strain=BAD-10", "accession": "GCA_018128025.1", "taxid": 2804028, "species_taxid": 2804028, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 952, "total_fragments": 957, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Proteiniclasticum aestuarii", "strain": "strain=SCR006", "accession": "GCA_017368455.1", "taxid": 2817862, "species_taxid": 2817862, "relation_to_type": "type", "validated": true, "ani": 77.5206, "matched_fragments": 193, "total_fragments": 957, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 88.68, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_018128025.1", "gtdb_species": "s__Proteiniclasticum sp018128025", "ani": 100.0, "matched_fragments": 952, "total_fragments": 957, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Proteiniclasticum", "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": "conclusive" }, { "accession": "GCF_000701905.1", "gtdb_species": "s__Proteiniclasticum ruminis", "ani": 78.5467, "matched_fragments": 135, "total_fragments": 957, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Proteiniclasticum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.65", "min_intra_species_ani": "96.61", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.86", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_900115135.1", "gtdb_species": "s__Proteiniclasticum ruminis_A", "ani": 77.7187, "matched_fragments": 140, "total_fragments": 957, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Proteiniclasticum", "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_017368455.1", "gtdb_species": "s__Proteiniclasticum sp017368455", "ani": 77.5206, "matched_fragments": 193, "total_fragments": 957, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Proteiniclasticum", "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_003514505.1", "gtdb_species": "s__Proteiniclasticum sp003514505", "ani": 77.369, "matched_fragments": 110, "total_fragments": 957, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Proteiniclasticum", "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_009930125.1", "gtdb_species": "s__Proteiniclasticum sp009930125", "ani": 77.0501, "matched_fragments": 134, "total_fragments": 957, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Proteiniclasticum", "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": -0.222, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 38.5, "optimum_ph": 7.15, "genome_size": 3136916.667, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "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": [ "Proteiniclasticum", "sediminis" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }