{ "type": "genome", "identifier": "GCF_003013245.1", "organism": "Neisseria iguanae", "title": "Neisseria iguanae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "China disease prevention and control center", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003013245.1", "bioproject": "PRJNA224116", "biosample": "SAMN08721881", "wgs_master": "PXYY00000000.1", "refseq_category": "reference genome", "taxid": "90242", "species_taxid": "90242", "organism_name": "Neisseria iguanae", "infraspecific_name": "strain=ATCC 51483", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/03/21", "asm_name": "ASM301324v1", "asm_submitter": "China disease prevention and control center", "gbrs_paired_asm": "GCA_003013245.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/013/245/GCF_003013245.1_ASM301324v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2610244", "genome_size_ungapped": "2610204", "gc_percent": "48.000000", "replicon_count": "0", "scaffold_count": "200", "contig_count": "200", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003013245.1-RS_2024_05_03", "annotation_date": "2024-05-03", "total_gene_count": "2831", "protein_coding_gene_count": "2381", "non_coding_gene_count": "58", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-03-21", "dateModified": "2018-03-21", "datePublished": "2018-03-21", "_annotation": { "sample_count": 1, "sample_organism": [ "Neisseria iguanae" ], "sample_taxid": [ "90242" ], "sample_host_organism": [ "iguanid lizards" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA" ], "sample_host_location_id": [], "data_size": "0.739 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.38, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "2610244", "Number of Sequences": "200", "Longest Sequences (bp)": "75742", "N50 (bp)": "22754", "Gap Ratio (%)": "0.001532", "GCcontent (%)": "48.2", "Number of CDSs": "2416", "Average Protein Length": "264.3", "Coding Ratio (%)": "73.4", "Number of rRNAs": "3", "Number of tRNAs": "51", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Neisseria iguanae", "strain": "strain=ATCC 51483", "accession": "GCA_003013245.1", "taxid": 90242, "species_taxid": 90242, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 766, "total_fragments": 775, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Bergeriella denitrificans", "strain": "strain=NBRC 102155", "accession": "GCA_001592185.1", "taxid": 494, "species_taxid": 494, "relation_to_type": "type", "validated": true, "ani": 79.5155, "matched_fragments": 292, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bergeriella denitrificans", "strain": "strain=NCTC10295", "accession": "GCA_900453875.1", "taxid": 494, "species_taxid": 494, "relation_to_type": "type", "validated": true, "ani": 79.4847, "matched_fragments": 362, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria animalis", "strain": "strain=ATCC 49930", "accession": "GCA_008806995.1", "taxid": 492, "species_taxid": 492, "relation_to_type": "type", "validated": true, "ani": 79.3258, "matched_fragments": 352, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria animalis", "strain": "strain=NCTC10212", "accession": "GCA_900636515.1", "taxid": 492, "species_taxid": 492, "relation_to_type": "type", "validated": true, "ani": 79.3248, "matched_fragments": 350, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria perflava", "strain": "strain=CCUG 17915", "accession": "GCA_023472875.1", "taxid": 33053, "species_taxid": 33053, "relation_to_type": "suspected-type", "validated": true, "ani": 79.1341, "matched_fragments": 328, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria subflava", "strain": "strain=ATCC 49275", "accession": "GCA_005221305.1", "taxid": 28449, "species_taxid": 28449, "relation_to_type": "type", "validated": true, "ani": 79.0858, "matched_fragments": 330, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria meningitidis", "strain": "strain=PartJ-Nmeningitidis-RM8376", "accession": "GCA_022869645.1", "taxid": 487, "species_taxid": 487, "relation_to_type": "type", "validated": true, "ani": 79.0456, "matched_fragments": 267, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria cinerea", "strain": "strain=FDAARGOS_871", "accession": "GCA_016028715.1", "taxid": 483, "species_taxid": 483, "relation_to_type": "type", "validated": true, "ani": 78.9411, "matched_fragments": 252, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria lactamica", "strain": "strain=NCTC10617", "accession": "GCA_901482445.1", "taxid": 486, "species_taxid": 486, "relation_to_type": "type", "validated": true, "ani": 78.8783, "matched_fragments": 263, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria flavescens", "strain": "strain=ATCC 13120", "accession": "GCA_005221285.1", "taxid": 484, "species_taxid": 484, "relation_to_type": "type", "validated": true, "ani": 78.8735, "matched_fragments": 342, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria flavescens", "strain": "strain=NCTC8263", "accession": "GCA_900453805.1", "taxid": 484, "species_taxid": 484, "relation_to_type": "type", "validated": true, "ani": 78.8478, "matched_fragments": 350, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria cinerea", "strain": "strain=NCTC10294", "accession": "GCA_900475315.1", "taxid": 483, "species_taxid": 483, "relation_to_type": "type", "validated": true, "ani": 78.8255, "matched_fragments": 258, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria lactamica", "strain": "strain=ATCC 23970", "accession": "GCA_000741965.1", "taxid": 486, "species_taxid": 486, "relation_to_type": "type", "validated": true, "ani": 78.8085, "matched_fragments": 266, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria gonorrhoeae", "strain": "strain=DSM 9188", "accession": "GCA_003315235.1", "taxid": 485, "species_taxid": 485, "relation_to_type": "type", "validated": true, "ani": 78.7323, "matched_fragments": 254, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria dumasiana", "strain": "strain=LMG 30012", "accession": "GCA_022870885.1", "taxid": 1931275, "species_taxid": 1931275, "relation_to_type": "type", "validated": true, "ani": 78.5889, "matched_fragments": 283, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Uruburuella testudinis", "strain": "strain=CCUG 63373m", "accession": "GCA_022870865.1", "taxid": 1282863, "species_taxid": 1282863, "relation_to_type": "type", "validated": true, "ani": 78.5522, "matched_fragments": 300, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria weaveri", "strain": "strain=NCTC12742", "accession": "GCA_900638685.1", "taxid": 28091, "species_taxid": 28091, "relation_to_type": "type", "validated": true, "ani": 78.5516, "matched_fragments": 248, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria weaveri", "strain": "strain=LMG 5135", "accession": "GCA_000224255.2", "taxid": 28091, "species_taxid": 28091, "relation_to_type": "type", "validated": true, "ani": 78.4718, "matched_fragments": 245, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Uruburuella suis", "strain": "strain=DSM 17474", "accession": "GCA_004341385.1", "taxid": 252130, "species_taxid": 252130, "relation_to_type": "type", "validated": true, "ani": 78.3278, "matched_fragments": 292, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria elongata subsp. glycolytica", "strain": "strain=NCTC11050", "accession": "GCA_900475815.1", "taxid": 88719, "species_taxid": 495, "relation_to_type": "type", "validated": true, "ani": 78.3161, "matched_fragments": 236, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Uruburuella suis", "strain": "strain=1258/02", "accession": "GCA_022870845.1", "taxid": 252130, "species_taxid": 252130, "relation_to_type": "type", "validated": true, "ani": 78.3029, "matched_fragments": 289, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria elongata subsp. glycolytica", "strain": "strain=ATCC 29315", "accession": "GCA_000818035.1", "taxid": 88719, "species_taxid": 495, "relation_to_type": "type", "validated": true, "ani": 78.2797, "matched_fragments": 240, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria elongata", "strain": "strain=NCTC10660", "accession": "GCA_900453895.1", "taxid": 495, "species_taxid": 495, "relation_to_type": "type", "validated": true, "ani": 78.2462, "matched_fragments": 237, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria elongata subsp. elongata", "strain": "strain=ATCC 25295", "accession": "GCA_900113545.1", "taxid": 214482, "species_taxid": 495, "relation_to_type": "type", "validated": true, "ani": 78.1117, "matched_fragments": 242, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria arctica", "strain": "strain=KH1503", "accession": "GCA_022870905.1", "taxid": 1470200, "species_taxid": 1470200, "relation_to_type": "type", "validated": true, "ani": 77.7477, "matched_fragments": 161, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.38, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003013245.1", "gtdb_species": "s__Neisseria iguanae", "ani": 100.0, "matched_fragments": 766, "total_fragments": 775, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "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_009671065.1", "gtdb_species": "s__Neisseria brasiliensis", "ani": 85.2472, "matched_fragments": 577, "total_fragments": 775, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.38", "min_intra_species_ani": "99.05", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.90", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_014898075.1", "gtdb_species": "s__Neisseria sp011038745", "ani": 84.9266, "matched_fragments": 580, "total_fragments": 775, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.25", "min_intra_species_ani": "98.87", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.97", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_002327085.1", "gtdb_species": "s__Neisseria sp002327085", "ani": 84.626, "matched_fragments": 541, "total_fragments": 775, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.28", "min_intra_species_ani": "99.27", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_001592185.1", "gtdb_species": "s__Neisseria denitrificans", "ani": 79.5461, "matched_fragments": 291, "total_fragments": 775, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_013267835.1", "gtdb_species": "s__Neisseria sp000186165", "ani": 79.2277, "matched_fragments": 343, "total_fragments": 775, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.0019, "mean_intra_species_ani": "96.64", "min_intra_species_ani": "96.07", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.88", "num_clustered_genomes": 22, "status": "-" }, { "accession": "GCF_900654165.1", "gtdb_species": "s__Neisseria subflava_C", "ani": 79.1052, "matched_fragments": 318, "total_fragments": 775, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.6726, "mean_intra_species_ani": "97.16", "min_intra_species_ani": "95.72", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.90", "num_clustered_genomes": 27, "status": "-" }, { "accession": "GCF_000227275.1", "gtdb_species": "s__Neisseria sp000227275", "ani": 79.0878, "matched_fragments": 374, "total_fragments": 775, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 96.3387, "mean_intra_species_ani": "97.52", "min_intra_species_ani": "96.71", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.93", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_002216145.1", "gtdb_species": "s__Neisseria chenwenguii", "ani": 79.0365, "matched_fragments": 392, "total_fragments": 775, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.73", "min_intra_species_ani": "99.73", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001618085.1", "gtdb_species": "s__Neisseria flavescens_C", "ani": 79.0336, "matched_fragments": 353, "total_fragments": 775, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.4709, "mean_intra_species_ani": "96.21", "min_intra_species_ani": "96.21", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_005886145.1", "gtdb_species": "s__Neisseria sp000090875", "ani": 78.9473, "matched_fragments": 360, "total_fragments": 775, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.69", "min_intra_species_ani": "97.41", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.94", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_900638685.1", "gtdb_species": "s__Neisseria weaveri", "ani": 78.6549, "matched_fragments": 241, "total_fragments": 775, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Neisseria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.19", "min_intra_species_ani": "98.86", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.97", "num_clustered_genomes": 8, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.097, "cell_length": -0.056, "doubling_h": -0.218, "growth_tmp": 37.0, "optimum_tmp": 32.796, "optimum_ph": 7.0, "genome_size": 2320088.203, "gc_content": 51.719, "coding_genes": 2137.057, "rRNA16S_genes": 4.014, "tRNA_genes": 58.021, "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": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.117, "coccus_cell_shape": 0.882, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Neisseria", "iguanae" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }