{ "type": "genome", "identifier": "GCF_008271655.1", "organism": "Gemmobacter caeruleus", "title": "Gemmobacter caeruleus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Henan University of Technology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_008271655.1", "bioproject": "PRJNA224116", "biosample": "SAMN12273953", "wgs_master": "VKKX00000000.1", "refseq_category": "reference genome", "taxid": "2595004", "species_taxid": "2595004", "organism_name": "Gemmobacter caeruleus", "infraspecific_name": "strain=N8", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/09/04", "asm_name": "ASM827165v1", "asm_submitter": "Henan University of Technology", "gbrs_paired_asm": "GCA_008271655.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/008/271/655/GCF_008271655.1_ASM827165v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3992662", "genome_size_ungapped": "3992575", "gc_percent": "66.000000", "replicon_count": "0", "scaffold_count": "55", "contig_count": "55", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_008271655.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "3982", "protein_coding_gene_count": "3887", "non_coding_gene_count": "56", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-09-04", "dateModified": "2019-09-04", "datePublished": "2019-09-04", "_annotation": { "sample_count": 1, "sample_organism": [ "Gemmobacter caeruleus" ], "sample_taxid": [ "2595004" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Lake Taihu" ], "sample_host_location_id": [], "data_size": "1.086 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)": "3992662", "Number of Sequences": "55", "Longest Sequences (bp)": "759586", "N50 (bp)": "564923", "Gap Ratio (%)": "0.002179", "GCcontent (%)": "66.1", "Number of CDSs": "3906", "Average Protein Length": "311.8", "Coding Ratio (%)": "91.5", "Number of rRNAs": "3", "Number of tRNAs": "54", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Gemmobacter caeruleus", "strain": "strain=N8", "accession": "GCA_008271655.1", "taxid": 2595004, "species_taxid": 2595004, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1298, "total_fragments": 1306, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Gemmobacter lutimaris", "strain": "strain=YJ-T1-11", "accession": "GCA_003570715.1", "taxid": 2306023, "species_taxid": 2306023, "relation_to_type": "type", "validated": true, "ani": 83.6521, "matched_fragments": 890, "total_fragments": 1306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gemmobacter serpentinus", "strain": "strain=HB-1", "accession": "GCA_008973825.1", "taxid": 2652247, "species_taxid": 2652247, "relation_to_type": "type", "validated": true, "ani": 83.5521, "matched_fragments": 845, "total_fragments": 1306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gemmobacter caeni", "strain": "strain=DSM 21823", "accession": "GCA_003054195.1", "taxid": 589035, "species_taxid": 589035, "relation_to_type": "type", "validated": true, "ani": 83.2573, "matched_fragments": 846, "total_fragments": 1306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gemmobacter caeni", "strain": "strain=CGMCC 1.7745", "accession": "GCA_007830625.1", "taxid": 589035, "species_taxid": 589035, "relation_to_type": "type", "validated": true, "ani": 83.1939, "matched_fragments": 861, "total_fragments": 1306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gemmobacter aquatilis", "strain": "strain=DSM 3857", "accession": "GCA_900110025.1", "taxid": 933059, "species_taxid": 933059, "relation_to_type": "type", "validated": true, "ani": 82.8381, "matched_fragments": 819, "total_fragments": 1306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gemmobacter lanyuensis", "strain": "strain=KCTC 23714", "accession": "GCA_014652355.1", "taxid": 1054497, "species_taxid": 1054497, "relation_to_type": "type", "validated": true, "ani": 82.6169, "matched_fragments": 811, "total_fragments": 1306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gemmobacter fulva", "strain": "strain=con5", "accession": "GCA_018798885.1", "taxid": 2840474, "species_taxid": 2840474, "relation_to_type": "type", "validated": true, "ani": 82.2203, "matched_fragments": 833, "total_fragments": 1306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gemmobacter aquaticus", "strain": "strain=CGMCC 1.7029", "accession": "GCA_014645295.1", "taxid": 490185, "species_taxid": 490185, "relation_to_type": "type", "validated": true, "ani": 81.7219, "matched_fragments": 687, "total_fragments": 1306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gemmobacter aquaticus", "strain": "strain=A1-9", "accession": "GCA_007859075.1", "taxid": 490185, "species_taxid": 490185, "relation_to_type": "type", "validated": true, "ani": 81.7175, "matched_fragments": 685, "total_fragments": 1306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodobacter amnigenus", "strain": "strain=HSP-20", "accession": "GCA_009908265.2", "taxid": 2852097, "species_taxid": 2852097, "relation_to_type": "type", "validated": true, "ani": 80.592, "matched_fragments": 659, "total_fragments": 1306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodobacter amnigenus", "strain": "strain=HSP-20", "accession": "GCA_019130055.1", "taxid": 2852097, "species_taxid": 2852097, "relation_to_type": "type", "validated": true, "ani": 80.5717, "matched_fragments": 657, "total_fragments": 1306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodobacter ruber", "strain": "strain=CCP-1", "accession": "GCA_009908315.1", "taxid": 1985673, "species_taxid": 1985673, "relation_to_type": "type", "validated": true, "ani": 80.25, "matched_fragments": 648, "total_fragments": 1306, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cereibacter sediminicola", "strain": "strain=JA983", "accession": "GCA_007668225.1", "taxid": 2584941, "species_taxid": 2584941, "relation_to_type": "type", "validated": true, "ani": 79.5569, "matched_fragments": 542, "total_fragments": 1306, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_008271655.1", "gtdb_species": "s__Gemmobacter caeruleus", "ani": 100.0, "matched_fragments": 1298, "total_fragments": 1306, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Gemmobacter", "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": "GCA_016792925.1", "gtdb_species": "s__Gemmobacter sp016792925", "ani": 84.0892, "matched_fragments": 738, "total_fragments": 1306, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Gemmobacter", "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_003570715.1", "gtdb_species": "s__Gemmobacter lutimaris", "ani": 83.6189, "matched_fragments": 895, "total_fragments": 1306, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Gemmobacter", "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_008973825.1", "gtdb_species": "s__Gemmobacter serpentinus", "ani": 83.5494, "matched_fragments": 845, "total_fragments": 1306, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Gemmobacter", "ani_circumscription_radius": 95.0, 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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": -0.264, "cell_length": 0.153, "doubling_h": null, "growth_tmp": 31.0, "optimum_tmp": 29.062, "optimum_ph": 7.017, "genome_size": 4458329.75, "gc_content": 66.2, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.142, "range_salinity": null, "facultative_respiration": 0.375, "anaerobic_respiration": 0.125, "aerobic_respiration": 0.5, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "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": [ "Gemmobacter", "caeruleus" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }