{ "type": "genome", "identifier": "GCF_900109495.1", "organism": "Ectothiorhodospira marina", "title": "Ectothiorhodospira marina", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900109495.1", "bioproject": "PRJNA224116", "biosample": "SAMN05444515", "wgs_master": "FOAA00000000.1", "refseq_category": "reference genome", "taxid": "1396821", "species_taxid": "1396821", "organism_name": "Ectothiorhodospira marina", "infraspecific_name": "strain=DSM 241", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/10/31", "asm_name": "IMG-taxon 2675903016 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900109495.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/109/495/GCF_900109495.1_IMG-taxon_2675903016_annotated_assembly", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3185852", "genome_size_ungapped": "3185852", "gc_percent": "62.500000", "replicon_count": "0", "scaffold_count": "41", "contig_count": "41", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900109495.1-RS_2024_05_03", "annotation_date": "2024-05-03", "total_gene_count": "3004", "protein_coding_gene_count": "2912", "non_coding_gene_count": "51", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-10-31", "dateModified": "2016-10-31", "datePublished": "2016-10-31", "_annotation": { "sample_count": 1, "sample_organism": [ "Ectothiorhodospira marina" ], "sample_taxid": [ "1396821" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "0.893 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)": "3185852", "Number of Sequences": "41", "Longest Sequences (bp)": "560720", "N50 (bp)": "143237", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "62.3", "Number of CDSs": "2943", "Average Protein Length": "320.6", "Coding Ratio (%)": "88.8", "Number of rRNAs": "3", "Number of tRNAs": "46", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Ectothiorhodospira marina", "strain": "strain=DSM 241", "accession": "GCA_900109495.1", "taxid": 1396821, "species_taxid": 1396821, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1039, "total_fragments": 1041, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Ectothiorhodospira magna", "strain": "strain=B7-7", "accession": "GCA_900110965.1", "taxid": 867345, "species_taxid": 867345, "relation_to_type": "type", "validated": true, "ani": 79.4723, "matched_fragments": 437, "total_fragments": 1041, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thioalkalivibrio sulfidiphilus", "strain": "strain=HL-EbGR7", "accession": "GCA_000021985.1", "taxid": 1033854, "species_taxid": 1033854, "relation_to_type": "type", "validated": true, "ani": 78.8846, "matched_fragments": 365, "total_fragments": 1041, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thioalkalivibrio thiocyanodenitrificans", "strain": "strain=ARhD 1", "accession": "GCA_000378965.1", "taxid": 243063, "species_taxid": 243063, "relation_to_type": "type", "validated": true, "ani": 78.2082, "matched_fragments": 275, "total_fragments": 1041, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thioalkalivibrio denitrificans", "strain": "strain=ALJD", "accession": "GCA_002000365.1", "taxid": 108003, "species_taxid": 108003, "relation_to_type": "type", "validated": true, "ani": 78.1052, "matched_fragments": 279, "total_fragments": 1041, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thioalkalivibrio thiocyanoxidans", "strain": "strain=ARh2", "accession": "GCA_000385215.1", "taxid": 152475, "species_taxid": 152475, "relation_to_type": "type", "validated": true, "ani": 77.4923, "matched_fragments": 150, "total_fragments": 1041, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thiohalospira halophila", "strain": "strain=HL 3", "accession": "GCA_900112605.1", "taxid": 381300, "species_taxid": 381300, "relation_to_type": "type", "validated": true, "ani": 77.1035, "matched_fragments": 139, "total_fragments": 1041, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Allochromatium tepidum", "strain": "strain=NZ", "accession": "GCA_018409545.1", "taxid": 553982, "species_taxid": 553982, "relation_to_type": "type", "validated": true, "ani": 76.9775, "matched_fragments": 99, "total_fragments": 1041, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas campisalis", "strain": "strain=A4", "accession": "GCA_022341425.1", "taxid": 74661, "species_taxid": 74661, "relation_to_type": "type", "validated": true, "ani": 76.8028, "matched_fragments": 130, "total_fragments": 1041, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alcanivorax profundimaris", "strain": "strain=ST75FaO-1", "accession": "GCA_015265435.1", "taxid": 2735259, "species_taxid": 2735259, "relation_to_type": "type", "validated": true, "ani": 76.739, "matched_fragments": 137, "total_fragments": 1041, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas yangonensis", "strain": "strain=MY50", "accession": "GCA_009932725.1", "taxid": 2579922, "species_taxid": 2579922, "relation_to_type": "type", "validated": true, "ani": 76.317, "matched_fragments": 93, "total_fragments": 1041, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas lalucatii", "strain": "strain=R1b54", "accession": "GCA_018398425.1", "taxid": 1424203, "species_taxid": 1424203, "relation_to_type": "type", "validated": true, "ani": 76.2617, "matched_fragments": 131, "total_fragments": 1041, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas guguanensis", "strain": "strain=JCM 18416", "accession": "GCA_900104265.1", "taxid": 1198456, "species_taxid": 1198456, "relation_to_type": "type", "validated": true, "ani": 75.9107, "matched_fragments": 105, "total_fragments": 1041, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas sihuiensis", "strain": "strain=KCTC 32246", "accession": "GCA_900106015.1", "taxid": 1274359, "species_taxid": 1274359, "relation_to_type": "type", "validated": true, "ani": 75.8921, "matched_fragments": 87, "total_fragments": 1041, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900109495.1", "gtdb_species": "s__Ectothiorhodospira marina", "ani": 100.0, "matched_fragments": 1039, "total_fragments": 1041, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Ectothiorhodospirales;f__Ectothiorhodospiraceae;g__Ectothiorhodospira", "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_000633935.1", "gtdb_species": "s__Ectothiorhodospira haloalkaliphila", "ani": 87.6236, "matched_fragments": 855, "total_fragments": 1041, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Ectothiorhodospirales;f__Ectothiorhodospiraceae;g__Ectothiorhodospira", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.86", "min_intra_species_ani": "99.86", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001632845.1", "gtdb_species": "s__Ectothiorhodospira sp001632845", "ani": 87.4326, "matched_fragments": 864, "total_fragments": 1041, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Ectothiorhodospirales;f__Ectothiorhodospiraceae;g__Ectothiorhodospira", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.06", "min_intra_species_ani": "99.06", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900114895.1", "gtdb_species": "s__Ectothiorhodospira mobilis_A", "ani": 80.4377, "matched_fragments": 513, "total_fragments": 1041, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Ectothiorhodospirales;f__Ectothiorhodospiraceae;g__Ectothiorhodospira", "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_016584115.1", "gtdb_species": "s__Ectothiorhodospira mobilis", "ani": 80.2597, "matched_fragments": 536, "total_fragments": 1041, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Ectothiorhodospirales;f__Ectothiorhodospiraceae;g__Ectothiorhodospira", "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_000225005.1", "gtdb_species": "s__Ectothiorhodospira sp000225005", "ani": 80.1675, "matched_fragments": 536, "total_fragments": 1041, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Ectothiorhodospirales;f__Ectothiorhodospiraceae;g__Ectothiorhodospira", "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_016584105.1", "gtdb_species": "s__Ectothiorhodospira shaposhnikovii", "ani": 80.0125, "matched_fragments": 537, "total_fragments": 1041, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Ectothiorhodospirales;f__Ectothiorhodospiraceae;g__Ectothiorhodospira", "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": -0.097, "cell_length": 0.176, "doubling_h": null, "growth_tmp": 25.0, "optimum_tmp": 32.5, "optimum_ph": 9.25, "genome_size": 3185852.0, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": null, "motility": 1.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "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": [ "Ectothiorhodospira", "marina" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }