{ "type": "genome", "identifier": "GCF_000559025.1", "organism": "Luteimonas huabeiensis HB2", "title": "Luteimonas huabeiensis HB2", "description": "na", "data type": "Genome sequencing and assembly", "organization": "China National Research Institute of Food and Fermentation Industries", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000559025.1", "bioproject": "PRJNA224116", "biosample": "SAMN02952968", "wgs_master": "JAAN00000000.1", "refseq_category": "reference genome", "taxid": "1442599", "species_taxid": "1244513", "organism_name": "Luteimonas huabeiensis HB2", "infraspecific_name": "strain=HB2", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2014/02/05", "asm_name": "Luteimonas huabeiensis HB-2 Genome", "asm_submitter": "China National Research Institute of Food and Fermentation Industries", "gbrs_paired_asm": "GCA_000559025.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/559/025/GCF_000559025.1_Luteimonas_huabeiensis_HB-2_Genome", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4295921", "genome_size_ungapped": "4295921", "gc_percent": "71.500000", "replicon_count": "0", "scaffold_count": "86", "contig_count": "86", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000559025.1-RS_2024_05_05", "annotation_date": "2024-05-05", "total_gene_count": "3946", "protein_coding_gene_count": "3803", "non_coding_gene_count": "53", "pubmed_id": "24604652" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2014-02-05", "dateModified": "2014-02-05", "datePublished": "2014-02-05", "_annotation": { "sample_count": 1, "sample_organism": [ "Luteimonas huabeiensis HB2" ], "sample_taxid": [ "1442599" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.141 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)": "4295921", "Number of Sequences": "86", "Longest Sequences (bp)": "450122", "N50 (bp)": "150227", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "71.6", "Number of CDSs": "3850", "Average Protein Length": "331.3", "Coding Ratio (%)": "89.1", "Number of rRNAs": "3", "Number of tRNAs": "59", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Luteimonas huabeiensis", "strain": "strain=HB2", "accession": "GCA_000559025.1", "taxid": 1244513, "species_taxid": 1244513, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1393, "total_fragments": 1395, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Luteimonas yindakuii", "strain": "strain=S-1072", "accession": "GCA_004803715.2", "taxid": 2565782, "species_taxid": 2565782, "relation_to_type": "type", "validated": true, "ani": 84.232, "matched_fragments": 753, "total_fragments": 1395, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteimonas abyssi", "strain": "strain=XH031", "accession": "GCA_001482195.1", "taxid": 1247514, "species_taxid": 1247514, "relation_to_type": "type", "validated": true, "ani": 83.6064, "matched_fragments": 853, "total_fragments": 1395, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteimonas salinisoli", "strain": "strain=SJ-92", "accession": "GCA_013425525.1", "taxid": 2752307, "species_taxid": 2752307, "relation_to_type": "type", "validated": true, "ani": 83.225, "matched_fragments": 812, "total_fragments": 1395, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteimonas padinae", "strain": "strain=KCTC 52403", "accession": "GCA_014652935.1", "taxid": 1714359, "species_taxid": 1714359, "relation_to_type": "type", "validated": true, "ani": 82.9718, "matched_fragments": 688, "total_fragments": 1395, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteimonas arsenica", "strain": "strain=26-35", "accession": "GCA_004352825.1", "taxid": 1586242, "species_taxid": 1586242, "relation_to_type": "type", "validated": true, "ani": 82.8633, "matched_fragments": 682, "total_fragments": 1395, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteimonas colneyensis", "strain": "strain=Sa2BVA3", "accession": "GCA_014836665.1", "taxid": 2762230, "species_taxid": 2762230, "relation_to_type": "type", "validated": true, "ani": 82.6484, "matched_fragments": 668, "total_fragments": 1395, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoxanthomonas taiwanensis", "strain": "strain=DSM 22914", "accession": "GCA_010093135.1", "taxid": 176598, "species_taxid": 176598, "relation_to_type": "type", "validated": true, "ani": 82.6274, "matched_fragments": 660, "total_fragments": 1395, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteimonas wenzhouensis", "strain": "strain=YD-1", "accession": "GCA_007859305.1", "taxid": 2599615, "species_taxid": 2599615, "relation_to_type": "type", "validated": true, "ani": 82.5633, "matched_fragments": 736, "total_fragments": 1395, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vulcaniibacterium tengchongense", "strain": "strain=DSM 25623", "accession": "GCA_003814555.1", "taxid": 1273429, "species_taxid": 1273429, "relation_to_type": "type", "validated": true, "ani": 82.5319, "matched_fragments": 747, "total_fragments": 1395, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteimonas aquatica", "strain": "strain=RIB1-20", "accession": "GCA_022662575.1", "taxid": 450364, "species_taxid": 450364, "relation_to_type": "type", "validated": true, "ani": 82.5005, "matched_fragments": 709, "total_fragments": 1395, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteimonas lumbrici", "strain": "strain=1.1416", "accession": "GCA_006476065.1", "taxid": 2559601, "species_taxid": 2559601, "relation_to_type": "type", "validated": true, "ani": 82.4885, "matched_fragments": 548, "total_fragments": 1395, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteimonas terricola", "strain": "strain=BZ92r", "accession": "GCA_004352845.1", "taxid": 645597, "species_taxid": 645597, "relation_to_type": "type", "validated": true, "ani": 82.4544, "matched_fragments": 658, "total_fragments": 1395, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteimonas terricola", "strain": "strain=CGMCC 1.8985", "accession": "GCA_014645675.1", "taxid": 645597, "species_taxid": 645597, "relation_to_type": "type", "validated": true, "ani": 82.4065, "matched_fragments": 664, "total_fragments": 1395, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteimonas weifangensis", "strain": "strain=WF-2", "accession": "GCA_003416885.1", "taxid": 2303539, "species_taxid": 2303539, "relation_to_type": "type", "validated": true, "ani": 82.241, "matched_fragments": 617, "total_fragments": 1395, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoxanthomonas sangjuensis", "strain": "strain=DSM 28345", "accession": "GCA_010211755.1", "taxid": 1503750, "species_taxid": 1503750, "relation_to_type": "type", "validated": true, "ani": 81.6505, "matched_fragments": 641, "total_fragments": 1395, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysobacter silvisoli", "strain": "strain=zong2l5", "accession": "GCA_003382365.1", "taxid": 2293254, "species_taxid": 2293254, "relation_to_type": "type", "validated": true, "ani": 81.5005, "matched_fragments": 724, "total_fragments": 1395, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000559025.1", "gtdb_species": "s__Luteimonas huabeiensis", "ani": 100.0, "matched_fragments": 1393, "total_fragments": 1395, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Luteimonas", "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_004118975.1", "gtdb_species": "s__Luteimonas sp004118975", "ani": 84.2369, "matched_fragments": 783, "total_fragments": 1395, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Luteimonas", "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_004803715.2", "gtdb_species": "s__Luteimonas yindakuii", "ani": 84.2085, "matched_fragments": 755, "total_fragments": 1395, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Luteimonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.11", "min_intra_species_ani": "98.11", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_002798175.1", "gtdb_species": "s__Luteimonas sp002798175", "ani": 84.1932, "matched_fragments": 774, "total_fragments": 1395, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Luteimonas", "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_001482195.1", "gtdb_species": "s__Luteimonas abyssi", "ani": 83.5845, "matched_fragments": 855, "total_fragments": 1395, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Luteimonas", "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_001014645.1", "gtdb_species": "s__Luteimonas sp001014645", "ani": 83.2996, "matched_fragments": 841, "total_fragments": 1395, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Luteimonas", "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_008312895.1", "gtdb_species": "s__Luteimonas sp008312895", "ani": 83.2192, "matched_fragments": 781, "total_fragments": 1395, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Luteimonas", "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_013425525.1", "gtdb_species": "s__Luteimonas sp013425525", "ani": 83.2169, "matched_fragments": 813, "total_fragments": 1395, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Luteimonas", "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_006476065.1", "gtdb_species": "s__Luteimonas_B lumbrici", "ani": 82.489, "matched_fragments": 548, "total_fragments": 1395, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Luteimonas_B", "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_014192745.1", "gtdb_species": "s__Luteimonas sp014192745", "ani": 82.0428, "matched_fragments": 763, "total_fragments": 1395, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Luteimonas", "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_002240395.1", "gtdb_species": "s__Luteimonas citri_A", "ani": 82.0155, "matched_fragments": 751, "total_fragments": 1395, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Luteimonas", "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": -0.388, "cell_length": 0.088, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 30.0, "optimum_ph": 7.0, "genome_size": 4295921.0, "gc_content": 68.5, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "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": [ "Luteimonas", "huabeiensis", "HB2" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }