{ "type": "genome", "identifier": "GCF_003182595.1", "organism": "Prosthecochloris marina", "title": "Prosthecochloris marina", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Research Center of Biotechnology RAS", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003182595.1", "bioproject": "PRJNA224116", "biosample": "SAMN07786985", "wgs_master": "PDNZ00000000.1", "refseq_category": "reference genome", "taxid": "2017681", "species_taxid": "2017681", "organism_name": "Prosthecochloris marina", "infraspecific_name": "strain=V1", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/05/31", "asm_name": "ASM318259v1", "asm_submitter": "Research Center of Biotechnology RAS", "gbrs_paired_asm": "GCA_003182595.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/182/595/GCF_003182595.1_ASM318259v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2718726", "genome_size_ungapped": "2718726", "gc_percent": "47.000000", "replicon_count": "0", "scaffold_count": "19", "contig_count": "19", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003182595.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "2541", "protein_coding_gene_count": "2477", "non_coding_gene_count": "51", "pubmed_id": "31338544" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-05-31", "dateModified": "2018-05-31", "datePublished": "2018-05-31", "_annotation": { "sample_count": 1, "sample_organism": [ "Prosthecochloris marina" ], "sample_taxid": [ "2017681" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Viet Nam" ], "sample_host_location_id": [], "data_size": "0.775 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)": "2718726", "Number of Sequences": "19", "Longest Sequences (bp)": "465156", "N50 (bp)": "335321", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "47.0", "Number of CDSs": "2431", "Average Protein Length": "320.5", "Coding Ratio (%)": "86.0", "Number of rRNAs": "2", "Number of tRNAs": "45", "Number of CRISPRs": "4" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Prosthecochloris marina", "strain": "strain=V1", "accession": "GCA_003182595.1", "taxid": 2017681, "species_taxid": 2017681, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 895, "total_fragments": 896, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Prosthecochloris aestuarii", "strain": "strain=DSM 271", "accession": "GCA_000020625.1", "taxid": 1102, "species_taxid": 1102, "relation_to_type": "type", "validated": true, "ani": 77.6256, "matched_fragments": 101, "total_fragments": 896, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prosthecochloris vibrioformis", "strain": "strain=DSM 260", "accession": "GCA_006265245.1", "taxid": 1098, "species_taxid": 1098, "relation_to_type": "type", "validated": true, "ani": 77.4523, "matched_fragments": 68, "total_fragments": 896, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chlorobium limicola", "strain": "strain=DSM 245", "accession": "GCA_000020465.1", "taxid": 1092, "species_taxid": 1092, "relation_to_type": "type", "validated": true, "ani": 77.2652, "matched_fragments": 63, "total_fragments": 896, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003182595.1", "gtdb_species": "s__Chlorobium_A marina", "ani": 100.0, "matched_fragments": 895, "total_fragments": 896, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Chlorobia;o__Chlorobiales;f__Chlorobiaceae;g__Chlorobium_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.89", "min_intra_species_ani": "98.89", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCA_015482705.2", "gtdb_species": "s__Chlorobium_A sp015482705", "ani": 90.1984, "matched_fragments": 769, "total_fragments": 896, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Chlorobia;o__Chlorobiales;f__Chlorobiaceae;g__Chlorobium_A", "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_004028745.1", "gtdb_species": "s__Chlorobium_A sp004028745", "ani": 79.3474, "matched_fragments": 331, "total_fragments": 896, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Chlorobia;o__Chlorobiales;f__Chlorobiaceae;g__Chlorobium_A", "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_000020545.1", "gtdb_species": "s__Chlorobium_A phaeobacteroides_A", "ani": 78.1724, "matched_fragments": 234, "total_fragments": 896, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Chlorobia;o__Chlorobiales;f__Chlorobiaceae;g__Chlorobium_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.71", "min_intra_species_ani": "97.54", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.95", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000020625.1", "gtdb_species": "s__Prosthecochloris aestuarii", "ani": 77.6256, "matched_fragments": 101, "total_fragments": 896, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Chlorobia;o__Chlorobiales;f__Chlorobiaceae;g__Prosthecochloris", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.26", "min_intra_species_ani": "98.17", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.89", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_002113825.1", "gtdb_species": "s__Prosthecochloris sp002113825", "ani": 77.0524, "matched_fragments": 109, "total_fragments": 896, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Chlorobia;o__Chlorobiales;f__Chlorobiaceae;g__Prosthecochloris", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.16", "min_intra_species_ani": "99.15", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.94", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_005862285.1", "gtdb_species": "s__Chlorobium sp005862285", "ani": 76.4017, "matched_fragments": 52, "total_fragments": 896, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Chlorobia;o__Chlorobiales;f__Chlorobiaceae;g__Chlorobium", "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": -0.302, "cell_length": 0.0, "doubling_h": null, "growth_tmp": 25.0, "optimum_tmp": 30.625, "optimum_ph": null, "genome_size": 2579696.0, "gc_content": 50.23, "coding_genes": 2318.0, "rRNA16S_genes": 1.0, "tRNA_genes": 46.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.0, "coccus_cell_shape": 1.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Prosthecochloris", "marina" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }