{ "type": "genome", "identifier": "GCF_002744755.1", "organism": "Leeuwenhoekiella nanhaiensis", "title": "Leeuwenhoekiella nanhaiensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Tongji University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002744755.1", "bioproject": "PRJNA224116", "biosample": "SAMN07515617", "wgs_master": "NQXA00000000.1", "refseq_category": "reference genome", "taxid": "1655491", "species_taxid": "1655491", "organism_name": "Leeuwenhoekiella nanhaiensis", "infraspecific_name": "strain=G18", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/10/26", "asm_name": "ASM274475v1", "asm_submitter": "Tongji University", "gbrs_paired_asm": "GCA_002744755.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/744/755/GCF_002744755.1_ASM274475v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4370038", "genome_size_ungapped": "4370016", "gc_percent": "42.000000", "replicon_count": "0", "scaffold_count": "50", "contig_count": "60", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002744755.1-RS_2024_10_22", "annotation_date": "2024-10-22", "total_gene_count": "3849", "protein_coding_gene_count": "3789", "non_coding_gene_count": "43", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-10-26", "dateModified": "2017-10-26", "datePublished": "2017-10-26", "_annotation": { "sample_count": 1, "sample_organism": [ "Leeuwenhoekiella nanhaiensis" ], "sample_taxid": [ "1655491" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: South China Sea" ], "sample_host_location_id": [], "data_size": "1.242 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": 4.0, "max": 4.0 }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4370038", "Number of Sequences": "50", "Longest Sequences (bp)": "836881", "N50 (bp)": "423190", "Gap Ratio (%)": "0.000503", "GCcontent (%)": "42.1", "Number of CDSs": "3735", "Average Protein Length": "351.1", "Coding Ratio (%)": "90.0", "Number of rRNAs": "3", "Number of tRNAs": "35", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Leeuwenhoekiella nanhaiensis", "strain": "strain=G18", "accession": "GCA_002744755.1", "taxid": 1655491, "species_taxid": 1655491, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1433, "total_fragments": 1435, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Leeuwenhoekiella palythoae", "strain": "strain=DSM 19859", "accession": "GCA_900130045.1", "taxid": 573501, "species_taxid": 573501, "relation_to_type": "type", "validated": true, "ani": 79.5151, "matched_fragments": 492, "total_fragments": 1435, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leeuwenhoekiella palythoae", "strain": "strain=LMG 24856", "accession": "GCA_004104045.1", "taxid": 573501, "species_taxid": 573501, "relation_to_type": "type", "validated": true, "ani": 79.1131, "matched_fragments": 477, "total_fragments": 1435, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leeuwenhoekiella marinoflava", "strain": "strain=LMG 1345", "accession": "GCA_004104035.1", "taxid": 988, "species_taxid": 988, "relation_to_type": "type", "validated": true, "ani": 78.8794, "matched_fragments": 513, "total_fragments": 1435, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leeuwenhoekiella blandensis", "strain": "strain=MED217", "accession": "GCA_000152985.1", "taxid": 360293, "species_taxid": 360293, "relation_to_type": "type", "validated": true, "ani": 78.862, "matched_fragments": 490, "total_fragments": 1435, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leeuwenhoekiella aestuarii", "strain": "strain=R-48165", "accession": "GCA_004104055.1", "taxid": 2249426, "species_taxid": 2249426, "relation_to_type": "type", "validated": true, "ani": 78.8253, "matched_fragments": 550, "total_fragments": 1435, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leeuwenhoekiella marinoflava", "strain": "strain=DSM 3653", "accession": "GCA_900129005.1", "taxid": 988, "species_taxid": 988, "relation_to_type": "type", "validated": true, "ani": 78.7776, "matched_fragments": 512, "total_fragments": 1435, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gramella flava", "strain": 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"min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000687915.1", "gtdb_species": "s__Leeuwenhoekiella sp000687915", "ani": 78.004, "matched_fragments": 419, "total_fragments": 1435, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Leeuwenhoekiella", "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_900109375.1", "gtdb_species": "s__Aquimarina amphilecti", "ani": 76.1127, "matched_fragments": 54, "total_fragments": 1435, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Aquimarina", "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": -0.317, "cell_length": 0.256, "doubling_h": null, "growth_tmp": 25.75, "optimum_tmp": 23.0, "optimum_ph": null, "genome_size": 4381711.5, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "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": [ "Leeuwenhoekiella", "nanhaiensis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }