{ "type": "genome", "identifier": "GCF_002869745.1", "organism": "Kandeliimicrobium roseum", "title": "Kandeliimicrobium roseum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Shenzhen University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002869745.1", "bioproject": "PRJNA224116", "biosample": "SAMN04914643", "wgs_master": "PNOS00000000.1", "refseq_category": "reference genome", "taxid": "1737570", "species_taxid": "1737570", "organism_name": "Kandeliimicrobium roseum", "infraspecific_name": "strain=XY-R6", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/01/09", "asm_name": "ASM286974v1", "asm_submitter": "Shenzhen University", "gbrs_paired_asm": "GCA_002869745.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/869/745/GCF_002869745.1_ASM286974v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4408274", "genome_size_ungapped": "4408264", "gc_percent": "69.500000", "replicon_count": "0", "scaffold_count": "87", "contig_count": "87", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002869745.1-RS_2024_05_03", "annotation_date": "2024-05-03", "total_gene_count": "4253", "protein_coding_gene_count": "4162", "non_coding_gene_count": "43", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-01-09", "dateModified": "2018-01-09", "datePublished": "2018-01-09", "_annotation": { "sample_count": 1, "sample_organism": [ "Kandeliimicrobium roseum" ], "sample_taxid": [ "1737570" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Hong Kong: Mai Po" ], "sample_host_location_id": [], "data_size": "1.194 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)": "4408274", "Number of Sequences": "87", "Longest Sequences (bp)": "377580", "N50 (bp)": "77563", "Gap Ratio (%)": "0.000227", "GCcontent (%)": "69.3", "Number of CDSs": "4123", "Average Protein Length": "315.6", "Coding Ratio (%)": "88.6", "Number of rRNAs": "0", "Number of tRNAs": "47", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Oceaniglobus trochenteri", "strain": "strain=G4", "accession": "GCA_020529025.1", "taxid": 2763260, "species_taxid": 2763260, "relation_to_type": "type", "validated": true, "ani": 79.8746, "matched_fragments": 689, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Limimaricola pyoseonensis", "strain": "strain=DSM 21424", "accession": "GCA_900102015.1", "taxid": 521013, "species_taxid": 521013, "relation_to_type": "type", "validated": true, "ani": 79.6911, "matched_fragments": 635, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseivivax isoporae", "strain": "strain=LMG 25204", "accession": "GCA_000521865.1", "taxid": 591206, "species_taxid": 591206, "relation_to_type": "type", "validated": true, "ani": 79.6294, "matched_fragments": 637, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Wenxinia marina", "strain": "strain=CGMCC 1.6105", "accession": "GCA_014645075.1", "taxid": 390641, "species_taxid": 390641, "relation_to_type": "type", "validated": true, "ani": 79.5306, "matched_fragments": 628, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Wenxinia 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"accession": "GCA_014645095.1", "taxid": 375761, "species_taxid": 375761, "relation_to_type": "type", "validated": true, "ani": 79.3459, "matched_fragments": 634, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Palleronia marisminoris", "strain": "strain=CECT 7066", "accession": "GCA_900172315.1", "taxid": 315423, "species_taxid": 315423, "relation_to_type": "type", "validated": true, "ani": 79.1695, "matched_fragments": 487, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salipiger thiooxidans", "strain": "strain=DSM 10146", "accession": "GCA_900102075.1", "taxid": 282683, "species_taxid": 282683, "relation_to_type": "type", "validated": true, "ani": 79.0579, "matched_fragments": 650, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovulum euryhalinum", "strain": "strain=DSM 4868", "accession": "GCA_004342445.1", "taxid": 35805, "species_taxid": 35805, "relation_to_type": "type", "validated": true, "ani": 79.0485, "matched_fragments": 554, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseivivax lentus", "strain": "strain=DSM 29430", "accession": "GCA_900156805.1", "taxid": 633194, "species_taxid": 633194, "relation_to_type": "type", "validated": true, "ani": 79.0069, "matched_fragments": 568, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salipiger profundus", "strain": "strain=JLT2016", "accession": "GCA_001969385.1", "taxid": 1229727, "species_taxid": 1229727, "relation_to_type": "type", "validated": true, "ani": 78.9358, "matched_fragments": 618, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cereibacter johrii", "strain": "strain=JA192", "accession": "GCA_001720585.1", "taxid": 445629, "species_taxid": 445629, "relation_to_type": "type", "validated": true, "ani": 78.8907, "matched_fragments": 522, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cribrihabitans marinus", "strain": "strain=DSM 29340", "accession": "GCA_900109035.1", "taxid": 1227549, "species_taxid": 1227549, "relation_to_type": "type", "validated": true, "ani": 78.8704, "matched_fragments": 560, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovulum tesquicola", "strain": "strain=A-36s", "accession": "GCA_024128855.1", "taxid": 540254, "species_taxid": 540254, "relation_to_type": "type", "validated": true, "ani": 78.8683, "matched_fragments": 511, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cribrihabitans marinus", "strain": "strain=CGMCC 1.13219", "accession": "GCA_014640375.1", "taxid": 1227549, "species_taxid": 1227549, "relation_to_type": "type", "validated": true, "ani": 78.862, "matched_fragments": 551, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halovulum marinum", "strain": "strain=2CG4", "accession": "GCA_009697225.1", "taxid": 2662447, "species_taxid": 2662447, "relation_to_type": "type", "validated": true, "ani": 78.8136, "matched_fragments": 604, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cereibacter johrii", "strain": "strain=JA192", "accession": "GCA_003046325.1", "taxid": 445629, "species_taxid": 445629, "relation_to_type": "type", "validated": true, "ani": 78.7949, "matched_fragments": 555, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Palleronia sediminis", "strain": "strain=SS33", "accession": "GCA_004358695.1", "taxid": 2547833, "species_taxid": 2547833, "relation_to_type": "type", "validated": true, "ani": 78.7642, "matched_fragments": 507, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Allosediminivita pacifica", "strain": "strain=CGMCC 1.12410", "accession": "GCA_014637495.1", "taxid": 1267769, "species_taxid": 1267769, "relation_to_type": "type", "validated": true, "ani": 78.6452, "matched_fragments": 527, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Allosediminivita pacifica", "strain": "strain=DSM 29329", "accession": "GCA_003054175.1", "taxid": 1267769, "species_taxid": 1267769, "relation_to_type": "type", "validated": true, "ani": 78.6417, "matched_fragments": 526, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovulum visakhapatnamense", "strain": "strain=JA181", "accession": "GCA_004365965.1", "taxid": 364297, "species_taxid": 364297, "relation_to_type": "type", "validated": true, "ani": 78.6327, "matched_fragments": 567, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Palleronia rufa", "strain": "strain=MOLA 401", "accession": "GCA_000743715.1", "taxid": 1530186, "species_taxid": 1530186, "relation_to_type": "type", "validated": true, "ani": 78.6043, "matched_fragments": 514, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudooceanicola antarcticus", "strain": "strain=Ar-45", "accession": "GCA_002786285.1", "taxid": 1247613, "species_taxid": 1247613, "relation_to_type": "type", "validated": true, "ani": 78.556, "matched_fragments": 530, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hwanghaeicola aestuarii", "strain": "strain=DSM 22009", "accession": "GCA_003253995.1", "taxid": 568105, "species_taxid": 568105, "relation_to_type": "type", "validated": true, "ani": 78.543, "matched_fragments": 488, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudooceanicola antarcticus", "strain": "strain=CGMCC 1.12662", "accession": "GCA_900215355.1", "taxid": 1247613, "species_taxid": 1247613, "relation_to_type": "type", "validated": true, "ani": 78.4937, "matched_fragments": 538, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseibacterium elongatum", "strain": "strain=DFL-43", "accession": "GCA_000590925.1", "taxid": 159346, "species_taxid": 159346, "relation_to_type": "type", "validated": true, "ani": 78.1005, "matched_fragments": 414, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alexandriicola marinus", "strain": "strain=LZ-14", "accession": "GCA_004000435.1", "taxid": 2081710, "species_taxid": 2081710, "relation_to_type": "type", "validated": true, "ani": 77.5116, "matched_fragments": 396, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002869745.1", "gtdb_species": "s__Oceaniglobus roseus", "ani": 100.0, "matched_fragments": 1418, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Oceaniglobus", "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_900115595.1", "gtdb_species": "s__Tranquillimonas alkanivorans", "ani": 80.1581, "matched_fragments": 632, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Tranquillimonas", "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_002751875.1", "gtdb_species": "s__Oceaniglobus indicus", "ani": 80.0114, "matched_fragments": 684, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Oceaniglobus", "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_018139985.1", "gtdb_species": "s__JAGSOU01 sp018139985", "ani": 79.6676, "matched_fragments": 608, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__JAGSOU01", "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_004005435.1", "gtdb_species": "s__CCMM004 sp004005435", 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