{ "type": "genome", "identifier": "GCF_014645555.1", "organism": "Silvimonas amylolytica", "title": "Silvimonas amylolytica", "description": "na", "data type": "Genome sequencing and assembly", "organization": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014645555.1", "bioproject": "PRJNA224116", "biosample": "SAMD00245158", "wgs_master": "BMLY00000000.1", "refseq_category": "reference genome", "taxid": "449663", "species_taxid": "449663", "organism_name": "Silvimonas amylolytica", "infraspecific_name": "strain=CGMCC 1.8860", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/09/12", "asm_name": "ASM1464555v1", "asm_submitter": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "gbrs_paired_asm": "GCA_014645555.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/645/555/GCF_014645555.1_ASM1464555v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4562683", "genome_size_ungapped": "4562613", "gc_percent": "57.500000", "replicon_count": "0", "scaffold_count": "20", "contig_count": "20", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014645555.1-RS_2024_09_02", "annotation_date": "2024-09-02", "total_gene_count": "4193", "protein_coding_gene_count": "4120", "non_coding_gene_count": "59", "pubmed_id": "30832757" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-09-12", "dateModified": "2020-09-12", "datePublished": "2020-09-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Silvimonas amylolytica" ], "sample_taxid": [ "449663" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not applicable" ], "sample_host_location_id": [], "data_size": "1.287 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)": "4562683", "Number of Sequences": "20", "Longest Sequences (bp)": "1410906", "N50 (bp)": "554262", "Gap Ratio (%)": "0.001534", "GCcontent (%)": "57.5", "Number of CDSs": "4168", "Average Protein Length": "320.7", "Coding Ratio (%)": "87.9", "Number of rRNAs": "3", "Number of tRNAs": "53", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Silvimonas amylolytica", "strain": "strain=CGMCC 1.8860", "accession": "GCA_014645555.1", "taxid": 449663, "species_taxid": 449663, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1509, "total_fragments": 1512, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Silvimonas iriomotensis", "strain": "strain=CGMCC 1.8859", "accession": "GCA_014645535.1", "taxid": 449662, "species_taxid": 449662, "relation_to_type": "type", "validated": true, "ani": 86.4867, "matched_fragments": 1284, "total_fragments": 1512, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Silvimonas terrae", "strain": "strain=DSM 18233", "accession": "GCA_014202765.1", "taxid": 300266, "species_taxid": 300266, "relation_to_type": "type", "validated": true, "ani": 84.1997, "matched_fragments": 1202, "total_fragments": 1512, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Andreprevotia lacus", "strain": "strain=DSM 23236", "accession": "GCA_900176275.1", "taxid": 1121000, "species_taxid": 1121000, "relation_to_type": "type", "validated": true, "ani": 78.2863, "matched_fragments": 301, "total_fragments": 1512, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Andreprevotia chitinilytica", "strain": "strain=DSM 18519", "accession": "GCA_000711875.1", "taxid": 396808, "species_taxid": 396808, "relation_to_type": "type", "validated": true, "ani": 78.0791, "matched_fragments": 302, "total_fragments": 1512, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Jeongeupia naejangsanensis", "strain": "strain=DSM 24253", "accession": "GCA_016865585.1", "taxid": 613195, "species_taxid": 613195, "relation_to_type": "type", "validated": true, "ani": 77.8767, "matched_fragments": 240, "total_fragments": 1512, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Jeongeupia chitinilytica", "strain": "strain=KCTC 23701", "accession": "GCA_014652315.1", "taxid": 1041641, "species_taxid": 1041641, "relation_to_type": "type", "validated": true, "ani": 77.7677, "matched_fragments": 234, "total_fragments": 1512, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinilyticum litopenaei", "strain": "strain=DSM 21440", "accession": "GCA_000428145.1", "taxid": 1121276, "species_taxid": 1121276, "relation_to_type": "type", "validated": true, "ani": 77.6157, "matched_fragments": 203, "total_fragments": 1512, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinilyticum aquatile", "strain": "strain=DSM 21506", "accession": "GCA_000430805.1", "taxid": 362520, "species_taxid": 362520, "relation_to_type": "type", "validated": true, "ani": 77.5191, "matched_fragments": 212, "total_fragments": 1512, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinilyticum piscinae", "strain": "strain=4Y14", "accession": "GCA_015223195.1", "taxid": 2866724, "species_taxid": 2866724, "relation_to_type": "type", "validated": true, "ani": 77.4377, "matched_fragments": 203, "total_fragments": 1512, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Formivibrio citricus", "strain": "strain=DSM 6150", "accession": "GCA_900115065.1", "taxid": 83765, "species_taxid": 83765, "relation_to_type": "type", "validated": true, "ani": 77.1992, "matched_fragments": 157, "total_fragments": 1512, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinibacter fontanus", "strain": "strain=STM-7", "accession": "GCA_013423785.1", "taxid": 1737446, "species_taxid": 1737446, "relation_to_type": "type", "validated": true, "ani": 76.2327, "matched_fragments": 89, "total_fragments": 1512, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014645555.1", "gtdb_species": "s__Silvimonas amylolytica", "ani": 100.0, "matched_fragments": 1508, "total_fragments": 1512, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Silvimonas", "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_014645535.1", "gtdb_species": "s__Silvimonas iriomotensis", "ani": 86.4939, "matched_fragments": 1283, "total_fragments": 1512, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Silvimonas", "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_014202765.1", "gtdb_species": "s__Silvimonas terrae", "ani": 84.1997, "matched_fragments": 1202, "total_fragments": 1512, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Silvimonas", "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_001313065.1", "gtdb_species": "s__Amantichitinum sp001313065", "ani": 78.9375, "matched_fragments": 424, "total_fragments": 1512, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Amantichitinum", "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_001294205.1", "gtdb_species": "s__Amantichitinum ursilacus", "ani": 78.9156, "matched_fragments": 521, "total_fragments": 1512, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Amantichitinum", "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_900176275.1", "gtdb_species": "s__Andreprevotia lacus", "ani": 78.2863, "matched_fragments": 301, "total_fragments": 1512, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Andreprevotia", "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_009848685.1", "gtdb_species": "s__Andreprevotia sp009848685", "ani": 77.7947, "matched_fragments": 299, "total_fragments": 1512, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Andreprevotia", "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_014652315.1", "gtdb_species": "s__Jeongeupia chitinilytica", "ani": 77.7677, "matched_fragments": 234, "total_fragments": 1512, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Jeongeupia", "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_000430805.1", "gtdb_species": "s__Chitinilyticum aquatile", "ani": 77.5323, "matched_fragments": 211, "total_fragments": 1512, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Chitinilyticum", "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_018261735.1", "gtdb_species": "s__Formivibrio sp018261735", "ani": 77.2655, "matched_fragments": 172, "total_fragments": 1512, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Formivibrio", "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_900115065.1", "gtdb_species": "s__Formivibrio citricus", "ani": 77.1992, "matched_fragments": 157, "total_fragments": 1512, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Formivibrio", "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": -0.372, "cell_length": -0.034, "doubling_h": null, "growth_tmp": 28.0, "optimum_tmp": 30.0, "optimum_ph": 4.0, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": null, "motility": 1.0, "range_salinity": null, "facultative_respiration": 1.0, "anaerobic_respiration": 0.0, "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": [ "Silvimonas", "amylolytica" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }