{ "type": "genome", "identifier": "GCF_000696225.1", "organism": "Serpentinimonas barnesii", "title": "Serpentinimonas barnesii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "J. Craig Venter Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000696225.1", "bioproject": "PRJNA224116", "biosample": "SAMD00000327", "wgs_master": "BAWN00000000.1", "refseq_category": "reference genome", "taxid": "1458427", "species_taxid": "1458427", "organism_name": "Serpentinimonas barnesii", "infraspecific_name": "strain=H1", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2014/05/17", "asm_name": "ASM69622v1", "asm_submitter": "J. Craig Venter Institute", "gbrs_paired_asm": "GCA_000696225.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/696/225/GCF_000696225.1_ASM69622v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2492251", "genome_size_ungapped": "2492251", "gc_percent": "66.000000", "replicon_count": "1", "scaffold_count": "94", "contig_count": "94", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000696225.1-RS_2024_08_08", "annotation_date": "2024-08-08", "total_gene_count": "2367", "protein_coding_gene_count": "2276", "non_coding_gene_count": "48", "pubmed_id": "24845058" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2014-05-17", "dateModified": "2014-05-17", "datePublished": "2014-05-17", "_annotation": { "sample_count": 1, "sample_organism": [ "Serpentinimonas barnesii" ], "sample_taxid": [ "1458427" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA:California, The Cedars highly alkaline spring" ], "sample_host_location_id": [], "data_size": "0.681 MB", "sample_ph_range": { "min": 116.0, "max": 116.0 }, "sample_temperature_range": { "min": 18.0, "max": 18.0 }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "2492251", "Number of Sequences": "94", "Longest Sequences (bp)": "198940", "N50 (bp)": "87939", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "66.2", "Number of CDSs": "2261", "Average Protein Length": "329.6", "Coding Ratio (%)": "89.7", "Number of rRNAs": "2", "Number of tRNAs": "43", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Serpentinimonas barnesii", "strain": "strain=H1", "accession": "GCA_000696225.1", "taxid": 1458427, "species_taxid": 1458427, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 789, "total_fragments": 792, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Serpentinimonas raichei", "strain": "strain=A1", "accession": "GCA_000828895.1", "taxid": 1458425, "species_taxid": 1458425, "relation_to_type": "type", "validated": true, "ani": 93.3845, "matched_fragments": 720, "total_fragments": 792, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Serpentinimonas maccroryi", "strain": "strain=B1", "accession": "GCA_000828915.1", "taxid": 1458426, "species_taxid": 1458426, "relation_to_type": "type", "validated": true, "ani": 87.5511, "matched_fragments": 668, "total_fragments": 792, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tepidicella baoligensis", "strain": "strain=B18-50", "accession": "GCA_013432195.1", "taxid": 2707016, "species_taxid": 2707016, "relation_to_type": "type", "validated": true, "ani": 79.7836, "matched_fragments": 398, "total_fragments": 792, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tepidimonas thermarum", "strain": "strain=AA-1", "accession": "GCA_007556705.1", "taxid": 335431, "species_taxid": 335431, "relation_to_type": "type", "validated": true, "ani": 79.6949, "matched_fragments": 407, "total_fragments": 792, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hydrogenophaga crocea", "strain": "strain=BA0156", "accession": "GCA_011388215.1", "taxid": 2716225, "species_taxid": 2716225, "relation_to_type": "type", "validated": true, "ani": 79.5757, "matched_fragments": 423, "total_fragments": 792, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tepidimonas fonticaldi", "strain": "strain=AT-A2", "accession": "GCA_007556755.1", "taxid": 1101373, "species_taxid": 1101373, "relation_to_type": "type", "validated": true, "ani": 79.5488, "matched_fragments": 415, "total_fragments": 792, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Malikia granosa", "strain": "strain=P1", "accession": "GCA_002980595.1", "taxid": 263067, "species_taxid": 263067, "relation_to_type": "type", "validated": true, "ani": 79.4486, "matched_fragments": 374, "total_fragments": 792, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ottowia beijingensis", "strain": "strain=GCS-AN-3", "accession": "GCA_013423955.1", "taxid": 1207057, "species_taxid": 1207057, "relation_to_type": "type", "validated": true, "ani": 79.3292, "matched_fragments": 377, "total_fragments": 792, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hydrogenophaga borbori", "strain": "strain=LA-38", "accession": "GCA_003417535.1", "taxid": 2294117, "species_taxid": 2294117, "relation_to_type": "type", "validated": true, "ani": 79.3272, "matched_fragments": 420, "total_fragments": 792, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hydrogenophaga intermedia", "strain": "strain=DSM 5680", "accession": "GCA_005938115.1", "taxid": 65786, "species_taxid": 65786, "relation_to_type": "type", "validated": true, "ani": 79.1309, "matched_fragments": 391, "total_fragments": 792, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Extensimonas perlucida", "strain": "strain=HX2-24", "accession": "GCA_007655255.1", "taxid": 2590786, "species_taxid": 2590786, "relation_to_type": "type", "validated": true, "ani": 78.8565, "matched_fragments": 343, "total_fragments": 792, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Xylophilus ampelinus", "strain": "strain=CFBP 1192", "accession": "GCA_024832295.1", "taxid": 54067, "species_taxid": 54067, "relation_to_type": "type", "validated": true, "ani": 78.1013, "matched_fragments": 303, "total_fragments": 792, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acidovorax kalamii", "strain": "strain=KNDSW-TSA6", "accession": "GCA_002245625.1", "taxid": 2004485, "species_taxid": 2004485, "relation_to_type": "type", "validated": true, "ani": 78.0353, "matched_fragments": 352, "total_fragments": 792, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Simplicispira suum", "strain": "strain=SC1-8", "accession": "GCA_003008595.1", "taxid": 2109915, "species_taxid": 2109915, "relation_to_type": "type", "validated": true, "ani": 77.8336, "matched_fragments": 295, "total_fragments": 792, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acidovorax facilis", "strain": "strain=DSM 649", "accession": "GCA_023913775.1", "taxid": 12917, "species_taxid": 12917, "relation_to_type": "type", "validated": true, "ani": 77.8163, "matched_fragments": 318, "total_fragments": 792, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphaerotilus sulfidivorans", "strain": "strain=D-501", "accession": "GCA_013426975.1", "taxid": 639200, "species_taxid": 639200, "relation_to_type": "type", "validated": true, "ani": 77.7076, "matched_fragments": 327, "total_fragments": 792, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000696225.1", "gtdb_species": "s__Serpentinomonas sp000696225", "ani": 100.0, "matched_fragments": 789, "total_fragments": 792, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Serpentinomonas", "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_000828895.1", "gtdb_species": "s__Serpentinomonas raichei", "ani": 93.3845, "matched_fragments": 720, "total_fragments": 792, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Serpentinomonas", "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_000828915.1", "gtdb_species": "s__Serpentinomonas mccroryi", "ani": 87.5708, "matched_fragments": 667, "total_fragments": 792, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Serpentinomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.21", "min_intra_species_ani": "97.99", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.95", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_002837145.1", "gtdb_species": "s__BK-30 sp002837145", "ani": 80.4464, "matched_fragments": 450, "total_fragments": 792, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__BK-30", "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_002291945.1", "gtdb_species": "s__UBA997 sp002291945", "ani": 79.9186, "matched_fragments": 374, "total_fragments": 792, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__UBA997", "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_013432195.1", "gtdb_species": "s__Tepidicella baoligensis", "ani": 79.7625, "matched_fragments": 400, "total_fragments": 792, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Tepidicella", "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_004363315.1", "gtdb_species": "s__Tepidicella xavieri", "ani": 79.7067, "matched_fragments": 431, "total_fragments": 792, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Tepidicella", "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_007556705.1", "gtdb_species": "s__Tepidimonas thermarum", "ani": 79.6619, "matched_fragments": 410, "total_fragments": 792, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Tepidimonas", "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_002837135.1", "gtdb_species": "s__Macromonas bipunctata", "ani": 79.5895, "matched_fragments": 358, "total_fragments": 792, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Macromonas", "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_002980595.1", "gtdb_species": "s__Malikia granosa", "ani": 79.3965, "matched_fragments": 378, "total_fragments": 792, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Malikia", "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_002127215.1", "gtdb_species": "s__Hydrogenophaga sp002127215", "ani": 79.381, "matched_fragments": 368, "total_fragments": 792, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Hydrogenophaga", "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_007556675.1", "gtdb_species": "s__Tepidimonas taiwanensis", "ani": 79.1955, "matched_fragments": 379, "total_fragments": 792, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Tepidimonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.33", "min_intra_species_ani": "97.91", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.88", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_013693755.1", "gtdb_species": "s__Tibeticola sp013693755", "ani": 79.0527, "matched_fragments": 370, "total_fragments": 792, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Tibeticola", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.98", "min_intra_species_ani": "96.98", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002245625.1", "gtdb_species": "s__Acidovorax kalamii", "ani": 78.0125, "matched_fragments": 353, "total_fragments": 792, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Acidovorax", "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_016191995.1", "gtdb_species": "s__Rubrivivax sp016191995", "ani": 77.4141, "matched_fragments": 291, "total_fragments": 792, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Rubrivivax", "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": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_genome_taxon": [ "Serpentinimonas", "barnesii" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }