{ "type": "genome", "identifier": "GCF_014652575.1", "organism": "Asticcacaulis endophyticus", "title": "Asticcacaulis endophyticus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014652575.1", "bioproject": "PRJNA224116", "biosample": "SAMD00245627", "wgs_master": "BMZB00000000.1", "refseq_category": "reference genome", "taxid": "1395890", "species_taxid": "1395890", "organism_name": "Asticcacaulis endophyticus", "infraspecific_name": "strain=KCTC 32296", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/09/12", "asm_name": "ASM1465257v1", "asm_submitter": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "gbrs_paired_asm": "GCA_014652575.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/652/575/GCF_014652575.1_ASM1465257v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3948716", "genome_size_ungapped": "3948575", "gc_percent": "57.000000", "replicon_count": "0", "scaffold_count": "13", "contig_count": "13", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014652575.1-RS_2024_09_02", "annotation_date": "2024-09-02", "total_gene_count": "3572", "protein_coding_gene_count": "3510", "non_coding_gene_count": "50", "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": [ "Asticcacaulis endophyticus" ], "sample_taxid": [ "1395890" ], "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": "1.116 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)": "3948716", "Number of Sequences": "13", "Longest Sequences (bp)": "1883974", "N50 (bp)": "570897", "Gap Ratio (%)": "0.003571", "GCcontent (%)": "56.8", "Number of CDSs": "3604", "Average Protein Length": "327.8", "Coding Ratio (%)": "89.7", "Number of rRNAs": "2", "Number of tRNAs": "46", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Asticcacaulis endophyticus", "strain": "strain=KCTC 32296", "accession": "GCA_014652575.1", "taxid": 1395890, "species_taxid": 1395890, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1310, "total_fragments": 1310, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Asticcacaulis tiandongensis", "strain": "strain=3.1105", "accession": "GCA_006475605.1", "taxid": 2565365, "species_taxid": 2565365, "relation_to_type": "type", "validated": true, "ani": 78.115, "matched_fragments": 344, "total_fragments": 1310, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Asticcacaulis benevestitus", "strain": "strain=DSM 16100", "accession": "GCA_000495775.1", "taxid": 347481, "species_taxid": 347481, "relation_to_type": "type", "validated": true, "ani": 77.9467, "matched_fragments": 327, "total_fragments": 1310, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Asticcacaulis benevestitus", "strain": "strain=DSM 16100", "accession": "GCA_000376105.1", "taxid": 347481, "species_taxid": 347481, "relation_to_type": "type", "validated": true, "ani": 77.918, "matched_fragments": 333, "total_fragments": 1310, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Asticcacaulis excentricus", "strain": "strain=CB 48", "accession": "GCA_000175215.2", "taxid": 78587, "species_taxid": 78587, "relation_to_type": "type", "validated": true, "ani": 77.8363, "matched_fragments": 408, "total_fragments": 1310, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Asticcacaulis taihuensis", "strain": "strain=CGMCC 1.3431", "accession": "GCA_900100255.1", "taxid": 260084, "species_taxid": 260084, "relation_to_type": "type", "validated": true, "ani": 77.8155, "matched_fragments": 307, "total_fragments": 1310, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Asticcacaulis biprosthecium", "strain": "strain=C19", "accession": "GCA_000204015.1", "taxid": 76891, "species_taxid": 76891, "relation_to_type": "type", "validated": true, "ani": 77.1903, "matched_fragments": 307, "total_fragments": 1310, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Caulobacter zeae", "strain": "strain=410", "accession": "GCA_002858925.1", "taxid": 2055137, "species_taxid": 2055137, "relation_to_type": "type", "validated": true, "ani": 76.8466, "matched_fragments": 130, "total_fragments": 1310, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevundimonas diminuta", "strain": "strain=ATCC 11568", "accession": "GCA_000204035.1", "taxid": 293, "species_taxid": 293, "relation_to_type": "type", "validated": true, "ani": 76.7458, "matched_fragments": 117, "total_fragments": 1310, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevundimonas naejangsanensis", "strain": "strain=DSM 23858", "accession": "GCA_000421705.1", "taxid": 588932, "species_taxid": 588932, "relation_to_type": "type", "validated": true, "ani": 76.6459, "matched_fragments": 116, "total_fragments": 1310, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Caulobacter flavus", "strain": "strain=RHGG3", "accession": "GCA_003722335.1", "taxid": 1679497, "species_taxid": 1679497, "relation_to_type": "type", "validated": true, "ani": 76.608, "matched_fragments": 154, "total_fragments": 1310, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevundimonas vesicularis", "strain": "strain=NBRC 12165", "accession": "GCA_001592205.1", "taxid": 41276, "species_taxid": 41276, "relation_to_type": "suspected-type", "validated": true, "ani": 76.5711, "matched_fragments": 108, "total_fragments": 1310, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevundimonas vitisensis", "strain": "strain=GR-TSA-9", "accession": "GCA_016656965.1", "taxid": 2800818, "species_taxid": 2800818, "relation_to_type": "type", "validated": true, "ani": 76.5419, "matched_fragments": 100, "total_fragments": 1310, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Caulobacter hibisci", "strain": "strain=KACC 18849", "accession": "GCA_016135805.1", "taxid": 2035993, "species_taxid": 2035993, "relation_to_type": "type", "validated": true, "ani": 76.5327, "matched_fragments": 139, "total_fragments": 1310, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevundimonas variabilis", "strain": "strain=DSM 4737", "accession": "GCA_014199945.1", "taxid": 74312, "species_taxid": 74312, "relation_to_type": "type", "validated": true, "ani": 76.2268, "matched_fragments": 93, "total_fragments": 1310, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas suaedae", "strain": "strain=XS-10", "accession": "GCA_007833215.1", "taxid": 2599297, "species_taxid": 2599297, "relation_to_type": "type", "validated": true, "ani": 75.6254, "matched_fragments": 52, "total_fragments": 1310, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas panni", "strain": "strain=DSM 15761", "accession": "GCA_022664435.1", "taxid": 237612, "species_taxid": 237612, "relation_to_type": "type", "validated": true, "ani": 75.4832, "matched_fragments": 74, "total_fragments": 1310, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014652575.1", "gtdb_species": "s__Asticcacaulis endophyticus", "ani": 100.0, "matched_fragments": 1310, "total_fragments": 1310, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Caulobacterales;f__Caulobacteraceae;g__Asticcacaulis", "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": "GCA_002342035.1", "gtdb_species": "s__Asticcacaulis sp002342035", "ani": 93.8331, "matched_fragments": 1056, "total_fragments": 1310, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Caulobacterales;f__Caulobacteraceae;g__Asticcacaulis", "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_000495855.1", "gtdb_species": "s__Asticcacaulis sp000495855", "ani": 78.3839, "matched_fragments": 466, "total_fragments": 1310, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Caulobacterales;f__Caulobacteraceae;g__Asticcacaulis", "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_003053985.1", "gtdb_species": "s__Asticcacaulis sp003053985", "ani": 78.3588, "matched_fragments": 474, "total_fragments": 1310, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Caulobacterales;f__Caulobacteraceae;g__Asticcacaulis", "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_003966695.1", "gtdb_species": "s__Asticcacaulis excentricus_A", "ani": 78.3424, "matched_fragments": 446, "total_fragments": 1310, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Caulobacterales;f__Caulobacteraceae;g__Asticcacaulis", "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_006475605.1", "gtdb_species": "s__Asticcacaulis tiandongensis", "ani": 78.1043, "matched_fragments": 345, "total_fragments": 1310, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Caulobacterales;f__Caulobacteraceae;g__Asticcacaulis", "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_000376105.1", "gtdb_species": "s__Asticcacaulis benevestitus", "ani": 77.9015, "matched_fragments": 334, "total_fragments": 1310, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Caulobacterales;f__Caulobacteraceae;g__Asticcacaulis", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000175215.2", "gtdb_species": "s__Asticcacaulis excentricus", "ani": 77.8537, "matched_fragments": 406, "total_fragments": 1310, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Caulobacterales;f__Caulobacteraceae;g__Asticcacaulis", "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_900100255.1", "gtdb_species": "s__Asticcacaulis taihuensis", "ani": 77.8284, "matched_fragments": 305, "total_fragments": 1310, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Caulobacterales;f__Caulobacteraceae;g__Asticcacaulis", "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_017875235.1", "gtdb_species": "s__Asticcacaulis solisilvae", "ani": 77.7638, "matched_fragments": 332, "total_fragments": 1310, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Caulobacterales;f__Caulobacteraceae;g__Asticcacaulis", "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": -0.017, "cell_length": 0.032, "doubling_h": null, "growth_tmp": 27.0, "optimum_tmp": 25.0, "optimum_ph": 5.9, "genome_size": 4673419.45, "gc_content": 60.037, "coding_genes": 3747.667, "rRNA16S_genes": 3.0, "tRNA_genes": 49.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "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": [ "Asticcacaulis", "endophyticus" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }