{ "type": "genome", "identifier": "GCF_014645135.1", "organism": "Rheinheimera tangshanensis", "title": "Rheinheimera tangshanensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014645135.1", "bioproject": "PRJNA224116", "biosample": "SAMD00245136", "wgs_master": "BMLH00000000.1", "refseq_category": "reference genome", "taxid": "400153", "species_taxid": "400153", "organism_name": "Rheinheimera tangshanensis", "infraspecific_name": "strain=CGMCC 1.6362", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/09/12", "asm_name": "ASM1464513v1", "asm_submitter": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "gbrs_paired_asm": "GCA_014645135.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/645/135/GCF_014645135.1_ASM1464513v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4078483", "genome_size_ungapped": "4078139", "gc_percent": "46.500000", "replicon_count": "0", "scaffold_count": "25", "contig_count": "25", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014645135.1-RS_2024_08_26", "annotation_date": "2024-08-26", "total_gene_count": "3737", "protein_coding_gene_count": "3652", "non_coding_gene_count": "74", "pubmed_id": "30832757" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-09-12", "dateModified": "2020-09-12", "datePublished": "2020-09-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Rheinheimera tangshanensis" ], "sample_taxid": [ "400153" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not applicable" ], "sample_host_location_id": [], "data_size": "1.158 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)": "4078483", "Number of Sequences": "25", "Longest Sequences (bp)": "1013599", "N50 (bp)": "368075", "Gap Ratio (%)": "0.008435", "GCcontent (%)": "46.5", "Number of CDSs": "3656", "Average Protein Length": "333.9", "Coding Ratio (%)": "89.8", "Number of rRNAs": "2", "Number of tRNAs": "65", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Rheinheimera tangshanensis", "strain": "strain=CGMCC 1.6362", "accession": "GCA_014645135.1", "taxid": 400153, "species_taxid": 400153, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1345, "total_fragments": 1345, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Rheinheimera tangshanensis", "strain": "strain=JA3-B52", "accession": "GCA_008017875.1", "taxid": 400153, "species_taxid": 400153, "relation_to_type": "type", "validated": true, "ani": 99.9876, "matched_fragments": 1330, "total_fragments": 1345, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pararheinheimera mesophila", "strain": "strain=IITR13", "accession": "GCA_003862465.1", "taxid": 1547515, "species_taxid": 1547515, "relation_to_type": "type", "validated": true, "ani": 86.8118, "matched_fragments": 1049, "total_fragments": 1345, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pararheinheimera mesophila", "strain": "strain=IITR-13", "accession": "GCA_000986865.1", "taxid": 1547515, "species_taxid": 1547515, "relation_to_type": "type", "validated": true, "ani": 86.688, "matched_fragments": 999, "total_fragments": 1345, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pararheinheimera texasensis", "strain": "strain=DSM 17496", "accession": "GCA_000711985.1", "taxid": 306205, "species_taxid": 306205, "relation_to_type": "type", "validated": true, "ani": 78.356, "matched_fragments": 280, "total_fragments": 1345, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rheinheimera riviphila", "strain": "strain=KYPC3", "accession": "GCA_004005945.1", "taxid": 1834037, "species_taxid": 1834037, "relation_to_type": "type", "validated": true, "ani": 78.3345, "matched_fragments": 335, "total_fragments": 1345, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rheinheimera nanhaiensis", "strain": "strain=E407-8", "accession": "GCA_000296695.1", "taxid": 1163621, "species_taxid": 1163621, "relation_to_type": "type", "validated": true, "ani": 78.0525, "matched_fragments": 213, "total_fragments": 1345, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arsukibacterium indicum", "strain": "strain=SM2107", "accession": "GCA_019100565.1", "taxid": 2848612, "species_taxid": 2848612, "relation_to_type": "type", "validated": true, "ani": 77.8308, "matched_fragments": 169, "total_fragments": 1345, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arsukibacterium perlucidum", "strain": "strain=DSM 18276", "accession": "GCA_000382165.1", "taxid": 368811, "species_taxid": 368811, "relation_to_type": "type", "validated": true, "ani": 77.7191, "matched_fragments": 189, "total_fragments": 1345, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rheinheimera pacifica", "strain": "strain=DSM 17616", "accession": "GCA_900108485.1", "taxid": 173990, "species_taxid": 173990, "relation_to_type": "type", "validated": true, "ani": 77.6926, "matched_fragments": 253, "total_fragments": 1345, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rheinheimera maricola", "strain": "strain=MA-13", "accession": "GCA_016918075.2", "taxid": 2793282, "species_taxid": 2793282, "relation_to_type": "type", "validated": true, "ani": 77.5123, "matched_fragments": 186, "total_fragments": 1345, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014645135.1", "gtdb_species": "s__Pararheinheimera tangshanensis", "ani": 100.0, "matched_fragments": 1345, "total_fragments": 1345, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pararheinheimera", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.63", "min_intra_species_ani": "97.26", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.91", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCF_000986865.1", "gtdb_species": "s__Pararheinheimera mesophila", "ani": 86.6941, "matched_fragments": 998, "total_fragments": 1345, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pararheinheimera", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_018815765.1", "gtdb_species": "s__Pararheinheimera sp018815765", "ani": 86.4886, "matched_fragments": 921, "total_fragments": 1345, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pararheinheimera", "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_003990335.1", "gtdb_species": "s__Pararheinheimera sp003990335", "ani": 86.1513, "matched_fragments": 1075, "total_fragments": 1345, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pararheinheimera", "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_000217935.1", "gtdb_species": "s__Pararheinheimera sp000217935", "ani": 84.913, "matched_fragments": 987, "total_fragments": 1345, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pararheinheimera", "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_018825965.1", "gtdb_species": "s__Pararheinheimera sp018825965", "ani": 84.7945, "matched_fragments": 986, "total_fragments": 1345, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pararheinheimera", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.95", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.97", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_004005375.1", "gtdb_species": "s__Pararheinheimera sp004005375", "ani": 84.5267, "matched_fragments": 978, "total_fragments": 1345, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pararheinheimera", "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": -0.398, "cell_length": 0.113, "doubling_h": null, "growth_tmp": 28.0, "optimum_tmp": 30.0, "optimum_ph": 7.0, "genome_size": 4163180.285, "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": [ "Rheinheimera", "tangshanensis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }