{ "type": "genome", "identifier": "GCF_002115755.1", "organism": "Thalassospira mesophila", "title": "Thalassospira mesophila", "description": "na", "data type": "Genome sequencing and assembly", "organization": "The Third Institute of State Oceanic Administration (SOA)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002115755.1", "bioproject": "PRJNA224116", "biosample": "SAMN02671744", "wgs_master": "JFKA00000000.1", "refseq_category": "reference genome", "taxid": "1293891", "species_taxid": "1293891", "organism_name": "Thalassospira mesophila", "infraspecific_name": "strain=JCM 18969", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/04/28", "asm_name": "ASM211575v1", "asm_submitter": "The Third Institute of State Oceanic Administration (SOA)", "gbrs_paired_asm": "GCA_002115755.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/115/755/GCF_002115755.1_ASM211575v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4940655", "genome_size_ungapped": "4940655", "gc_percent": "54.500000", "replicon_count": "0", "scaffold_count": "94", "contig_count": "94", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002115755.1-RS_2024_05_03", "annotation_date": "2024-05-03", "total_gene_count": "4345", "protein_coding_gene_count": "4258", "non_coding_gene_count": "74", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-04-28", "dateModified": "2017-04-28", "datePublished": "2017-04-28", "_annotation": { "sample_count": 1, "sample_organism": [ "Thalassospira mesophila" ], "sample_taxid": [ "1293891" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan" ], "sample_host_location_id": [], "data_size": "1.384 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)": "4940655", "Number of Sequences": "94", "Longest Sequences (bp)": "988115", "N50 (bp)": "436371", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "54.3", "Number of CDSs": "4285", "Average Protein Length": "332.2", "Coding Ratio (%)": "86.4", "Number of rRNAs": "0", "Number of tRNAs": "54", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Thalassospira mesophila", "strain": "strain=JCM 18969", "accession": "GCA_002115755.1", "taxid": 1293891, "species_taxid": 1293891, 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true, "ani": 78.9534, "matched_fragments": 622, "total_fragments": 1616, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thalassospira alkalitolerans", "strain": "strain=JCM 18968", "accession": "GCA_002115745.1", "taxid": 1293890, "species_taxid": 1293890, "relation_to_type": "type", "validated": true, "ani": 78.9473, "matched_fragments": 634, "total_fragments": 1616, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thalassospira indica", "strain": "strain=PB8BT", "accession": "GCA_003403095.1", "taxid": 1891279, "species_taxid": 1891279, "relation_to_type": "type", "validated": true, "ani": 78.5671, "matched_fragments": 555, "total_fragments": 1616, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thalassospira lucentensis", "strain": "strain=DSM 14000", "accession": "GCA_000421265.1", "taxid": 168935, "species_taxid": 168935, "relation_to_type": "type", "validated": true, "ani": 78.493, "matched_fragments": 570, 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"ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thalassospira tepidiphila", "strain": "strain=MCCC 1A03514", "accession": "GCA_001662875.1", "taxid": 393657, "species_taxid": 393657, "relation_to_type": "type", "validated": true, "ani": 78.2909, "matched_fragments": 567, "total_fragments": 1616, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002115755.1", "gtdb_species": "s__Thalassospira mesophila", "ani": 100.0, "matched_fragments": 1616, "total_fragments": 1616, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Thalassospiraceae;g__Thalassospira", "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": 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"gtdb_species": "s__Thalassospira sp001907695", "ani": 82.9193, "matched_fragments": 1123, "total_fragments": 1616, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Thalassospiraceae;g__Thalassospira", "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_003326755.1", "gtdb_species": "s__Thalassospira profundimaris_B", "ani": 82.7809, "matched_fragments": 1125, "total_fragments": 1616, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Thalassospiraceae;g__Thalassospira", "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_003403095.1", "gtdb_species": 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"cell_length": 0.288, "doubling_h": null, "growth_tmp": 24.6, "optimum_tmp": 29.25, "optimum_ph": 7.1, "genome_size": 4666349.975, "gc_content": 54.269, "coding_genes": 4288.166, "rRNA16S_genes": 4.0, "tRNA_genes": 63.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.5, "range_salinity": 1.0, "facultative_respiration": 0.166, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.833, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 1.0 }, "_genome_taxon": [ "Thalassospira", "mesophila" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }