{ "type": "genome", "identifier": "GCF_014196635.1", "organism": "Sphingobium fontiphilum", "title": "Sphingobium fontiphilum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014196635.1", "bioproject": "PRJNA224116", "biosample": "SAMN13173243", "wgs_master": "JACIEB000000000.1", "refseq_category": "reference genome", "taxid": "944425", "species_taxid": "944425", "organism_name": "Sphingobium fontiphilum", "infraspecific_name": "strain=DSM 29348", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/08/14", "asm_name": "ASM1419663v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_014196635.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/196/635/GCF_014196635.1_ASM1419663v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3410606", "genome_size_ungapped": "3410606", "gc_percent": "64.500000", "replicon_count": "0", "scaffold_count": "19", "contig_count": "19", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014196635.1-RS_2024_05_05", "annotation_date": "2024-05-05", "total_gene_count": "3349", "protein_coding_gene_count": "3262", "non_coding_gene_count": "57", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-08-14", "dateModified": "2020-08-14", "datePublished": "2020-08-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Sphingobium fontiphilum" ], "sample_taxid": [ "944425" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], 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"total_fragments": 1129, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Sphingobium baderi", "strain": "strain=LL03", "accession": "GCA_000445145.1", "taxid": 1332080, "species_taxid": 1332080, "relation_to_type": "type", "validated": true, "ani": 82.7266, "matched_fragments": 590, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobium baderi", "strain": "strain=LL03", "accession": "GCA_001046655.1", "taxid": 1332080, "species_taxid": 1332080, "relation_to_type": "type", "validated": true, "ani": 82.664, "matched_fragments": 599, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobium indicum", "strain": "strain=B90A", "accession": "GCA_000264945.2", "taxid": 332055, "species_taxid": 332055, "relation_to_type": "type", "validated": true, "ani": 82.3617, "matched_fragments": 621, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobium cupriresistens", "strain": "strain=CCTCC AB 2011146", "accession": "GCA_004152865.1", "taxid": 1132417, "species_taxid": 1132417, "relation_to_type": "type", "validated": true, "ani": 82.3585, "matched_fragments": 667, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobium cloacae", "strain": "strain=JCM 10874", "accession": "GCA_002355855.1", "taxid": 120107, "species_taxid": 120107, "relation_to_type": "type", "validated": true, "ani": 82.3441, "matched_fragments": 592, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobium limneticum", "strain": "strain=DSM 25076", "accession": "GCA_008710155.1", "taxid": 1007511, "species_taxid": 1007511, "relation_to_type": "type", "validated": true, "ani": 82.2824, "matched_fragments": 675, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobium cloacae", "strain": "strain=NBRC 102517", "accession": "GCA_001591285.1", "taxid": 120107, "species_taxid": 120107, "relation_to_type": "type", "validated": true, "ani": 82.2076, "matched_fragments": 584, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobium lactosutens", "strain": "strain=DS20", "accession": "GCA_000445105.1", "taxid": 522773, "species_taxid": 522773, "relation_to_type": "type", "validated": true, "ani": 82.1741, "matched_fragments": 635, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobium scionense", "strain": "strain=DSM 19371", "accession": "GCA_014197035.1", "taxid": 1404341, "species_taxid": 1404341, "relation_to_type": "type", "validated": true, "ani": 82.1491, "matched_fragments": 671, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobium abikonense", "strain": "strain=NBRC 16140", "accession": "GCA_001598335.1", "taxid": 86193, "species_taxid": 86193, "relation_to_type": "type", "validated": true, "ani": 82.1023, "matched_fragments": 639, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobium terrigena", "strain": "strain=EO9", "accession": "GCA_003591655.1", "taxid": 2304063, "species_taxid": 2304063, "relation_to_type": "type", "validated": true, "ani": 82.0386, "matched_fragments": 656, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobium fuliginis", "strain": "strain=CCM 7327", "accession": "GCA_014636045.1", "taxid": 336203, "species_taxid": 336203, "relation_to_type": "type", "validated": true, "ani": 82.0309, "matched_fragments": 639, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobium wenxiniae", "strain": "strain=JZ-1", "accession": "GCA_014205735.1", "taxid": 595605, "species_taxid": 595605, 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81.9451, "matched_fragments": 648, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobium amiense", "strain": "strain=DSM 16289", "accession": "GCA_003967075.1", "taxid": 135719, "species_taxid": 135719, "relation_to_type": "type", "validated": true, "ani": 81.8633, "matched_fragments": 614, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobium amiense", "strain": "strain=NBRC 102518", "accession": "GCA_001591305.1", "taxid": 135719, "species_taxid": 135719, "relation_to_type": "type", "validated": true, "ani": 81.7505, "matched_fragments": 608, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas changnyeongensis", "strain": "strain=C33", "accession": "GCA_009913435.1", "taxid": 2698679, "species_taxid": 2698679, "relation_to_type": "type", "validated": true, "ani": 78.439, "matched_fragments": 387, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas aracearum", "strain": "strain=WZY 27", "accession": "GCA_003345355.1", "taxid": 2283317, "species_taxid": 2283317, "relation_to_type": "type", "validated": true, "ani": 78.3317, "matched_fragments": 312, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas profundi", "strain": "strain=LMO-1", "accession": "GCA_009739515.1", "taxid": 2681549, "species_taxid": 2681549, "relation_to_type": "type", "validated": true, "ani": 77.9744, "matched_fragments": 352, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizorhabdus phycosphaerae", "strain": "strain=MK52", "accession": "GCA_011044255.1", "taxid": 2711156, "species_taxid": 2711156, "relation_to_type": "type", "validated": true, "ani": 77.9616, "matched_fragments": 322, "total_fragments": 1129, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014196635.1", "gtdb_species": "s__Sphingobium fontiphilum", "ani": 100.0, "matched_fragments": 1126, "total_fragments": 1129, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingobium", "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_009720145.1", "gtdb_species": "s__Sphingobium sp009720145", "ani": 82.8058, "matched_fragments": 688, "total_fragments": 1129, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", 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"N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_000264945.2", "gtdb_species": "s__Sphingobium indicum", "ani": 82.3465, "matched_fragments": 621, "total_fragments": 1129, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.64", "min_intra_species_ani": "97.75", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.64", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_002355855.1", "gtdb_species": "s__Sphingobium cloacae", "ani": 82.3439, "matched_fragments": 592, "total_fragments": 1129, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", 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"0.88", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_000722875.1", "gtdb_species": "s__Sphingobium chlorophenolicum", "ani": 82.1777, "matched_fragments": 614, "total_fragments": 1129, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.94", "min_intra_species_ani": "95.89", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.76", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_007830065.1", "gtdb_species": "s__Sphingobium wenxiniae", "ani": 82.0204, "matched_fragments": 594, "total_fragments": 1129, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.17", "min_intra_species_ani": "98.76", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.79", 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