{ "type": "genome", "identifier": "GCF_017163935.1", "organism": "Novosphingobium terrae", "title": "Novosphingobium terrae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Brasilia", "publication": [ {} ], "properties": { "assembly_accession": "GCF_017163935.1", "bioproject": "PRJNA224116", "biosample": "SAMN14590932", "wgs_master": "JABVZR000000000.1", "refseq_category": "reference genome", "taxid": "2726189", "species_taxid": "2726189", "organism_name": "Novosphingobium terrae", "infraspecific_name": "strain=GeG2", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/03/03", "asm_name": "ASM1716393v1", "asm_submitter": "University of Brasilia", "gbrs_paired_asm": "GCA_017163935.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/017/163/935/GCF_017163935.1_ASM1716393v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "7162928", "genome_size_ungapped": "7162928", "gc_percent": "63.500000", "replicon_count": "3", "scaffold_count": "6", "contig_count": "6", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_017163935.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "6224", "protein_coding_gene_count": "6109", "non_coding_gene_count": "61", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-03-03", "dateModified": "2021-03-03", "datePublished": "2021-03-03", "_annotation": { "sample_count": 1, "sample_organism": [ "Novosphingobium terrae" ], "sample_taxid": [ "2726189" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Brazil: native area of Cerrado, the Reserva Ecologica do IBGE, Brasilia" ], "sample_host_location_id": [], "data_size": "1.973 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)": "7162928", "Number of Sequences": "6", "Longest Sequences (bp)": "4164843", "N50 (bp)": "4164843", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "63.6", "Number of CDSs": "6171", "Average Protein Length": "342.0", "Coding Ratio (%)": "88.4", "Number of rRNAs": "3", "Number of tRNAs": "57", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Novosphingobium rosa", "strain": "strain=NBRC 15208", "accession": "GCA_001598555.1", "taxid": 76978, "species_taxid": 76978, "relation_to_type": "type", "validated": true, "ani": 90.3677, "matched_fragments": 1463, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium ovatum", "strain": "strain=FSY-8", "accession": "GCA_009909235.1", "taxid": 1908523, "species_taxid": 1908523, "relation_to_type": "type", "validated": true, "ani": 79.9846, "matched_fragments": 559, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium sediminicola", "strain": "strain=DSM 27057", "accession": "GCA_014196525.1", "taxid": 563162, "species_taxid": 563162, "relation_to_type": "type", "validated": true, "ani": 79.9243, "matched_fragments": 774, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium umbonatum", "strain": "strain=FSY-9", "accession": "GCA_004005905.1", "taxid": 1908524, "species_taxid": 1908524, "relation_to_type": "type", "validated": true, "ani": 79.6172, "matched_fragments": 603, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium naphthalenivorans", "strain": "strain=NBRC 102051", "accession": "GCA_001590985.1", "taxid": 273168, "species_taxid": 273168, "relation_to_type": "type", "validated": true, "ani": 78.8428, "matched_fragments": 444, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium arvoryzae", "strain": "strain=KCTC 32422", "accession": "GCA_014652615.1", "taxid": 1256514, "species_taxid": 1256514, "relation_to_type": "type", "validated": true, "ani": 78.8394, "matched_fragments": 414, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium aerophilum", "strain": "strain=4Y4", "accession": "GCA_014230305.1", "taxid": 2839843, "species_taxid": 2839843, "relation_to_type": "type", "validated": true, "ani": 78.7933, "matched_fragments": 429, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium pokkalii", "strain": "strain=KCTC 42224", "accession": "GCA_014652855.1", "taxid": 1770194, "species_taxid": 1770194, "relation_to_type": "type", "validated": true, "ani": 78.7158, "matched_fragments": 576, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium flavum", "strain": "strain=NBRC 111647", "accession": "GCA_014230315.1", "taxid": 1778672, "species_taxid": 1778672, "relation_to_type": "type", "validated": true, "ani": 78.7033, "matched_fragments": 485, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium huizhouense", "strain": "strain=c7", "accession": "GCA_020179475.1", "taxid": 2866625, "species_taxid": 2866625, "relation_to_type": "type", "validated": true, "ani": 78.6852, "matched_fragments": 421, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium piscinae", "strain": "strain=KCTC 42194", "accession": "GCA_014230355.1", "taxid": 1507448, "species_taxid": 1507448, "relation_to_type": "type", "validated": true, "ani": 78.6463, "matched_fragments": 427, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium capsulatum", "strain": "strain=NBRC 12533", "accession": "GCA_001598375.1", "taxid": 13688, "species_taxid": 13688, "relation_to_type": "type", "validated": true, "ani": 78.6307, "matched_fragments": 533, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium percolationis", "strain": "strain=c1", "accession": "GCA_020179425.1", "taxid": 2871811, "species_taxid": 2871811, "relation_to_type": "type", "validated": true, "ani": 78.6024, "matched_fragments": 467, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium aromaticivorans", "strain": "strain=DSM 12444", "accession": "GCA_000013325.1", "taxid": 48935, "species_taxid": 48935, "relation_to_type": "type", "validated": true, "ani": 78.5929, "matched_fragments": 382, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium silvae", "strain": "strain=FGD1", "accession": "GCA_009856825.1", "taxid": 2692619, "species_taxid": 2692619, "relation_to_type": "type", "validated": true, "ani": 78.4158, "matched_fragments": 372, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium mathurense", "strain": "strain=SM117", "accession": "GCA_900168325.1", "taxid": 428990, "species_taxid": 428990, "relation_to_type": "type", "validated": true, "ani": 78.1581, "matched_fragments": 405, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium aquimarinum", "strain": "strain=M24A2M", "accession": "GCA_009746585.1", "taxid": 2682494, "species_taxid": 2682494, "relation_to_type": "type", "validated": true, "ani": 77.7949, "matched_fragments": 314, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas morindae", "strain": "strain=NBD5", "accession": "GCA_023822065.1", "taxid": 1541170, "species_taxid": 1541170, "relation_to_type": "type", "validated": true, "ani": 77.1006, "matched_fragments": 397, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_017163935.1", "gtdb_species": "s__Novosphingobium sp017163935", "ani": 100.0, "matched_fragments": 2384, "total_fragments": 2384, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Novosphingobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", 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"mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.185, "cell_length": 0.172, "doubling_h": null, "growth_tmp": 28.068, "optimum_tmp": 27.333, "optimum_ph": 6.24, "genome_size": 4701696.136, "gc_content": 64.111, "coding_genes": 4956.111, "rRNA16S_genes": 3.0, "tRNA_genes": 56.666, "gram_stain": 0.0, "sporulation": 0.166, "motility": 0.263, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 0.833, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.166, "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": [ "Novosphingobium", "terrae" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }