{ "type": "genome", "identifier": "GCF_003332885.2", "organism": "Paracnuella aquatica", "title": "Paracnuella aquatica", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Shandong University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003332885.2", "bioproject": "PRJNA224116", "biosample": "SAMN09521590", "wgs_master": "QOWJ00000000.1", "refseq_category": "reference genome", "taxid": "2268757", "species_taxid": "2268757", "organism_name": "Paracnuella aquatica", "infraspecific_name": "strain=N24", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Minor", "genome_rep": "Full", "seq_rel_date": "2018/07/20", "asm_name": "ASM333288v2", "asm_submitter": "Shandong University", "gbrs_paired_asm": "GCA_003332885.2", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/332/885/GCF_003332885.2_ASM333288v2", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4976980", "genome_size_ungapped": "4976980", "gc_percent": "49.500000", "replicon_count": "0", "scaffold_count": "58", "contig_count": "58", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003332885.2-RS_2024_04_03", "annotation_date": "2024-04-03", "total_gene_count": "4143", "protein_coding_gene_count": "4075", "non_coding_gene_count": "54", "pubmed_id": "31140961" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-07-20", "dateModified": "2018-07-20", "datePublished": "2018-07-20", "_annotation": { "sample_count": 1, "sample_organism": [ "Paracnuella aquatica" ], "sample_taxid": [ "2268757" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Shanxi" ], "sample_host_location_id": [], "data_size": "1.406 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)": "4976980", "Number of Sequences": "58", "Longest Sequences (bp)": "1137452", "N50 (bp)": "263540", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "49.3", "Number of CDSs": "4038", "Average Protein Length": "347.7", "Coding Ratio (%)": "84.6", "Number of rRNAs": "2", "Number of tRNAs": "46", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Cnuella takakiae", "strain": "strain=RG1-1", "accession": "GCA_001953305.1", "taxid": 1302690, "species_taxid": 1302690, "relation_to_type": "type", "validated": true, "ani": 78.5012, "matched_fragments": 564, "total_fragments": 1633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cnuella takakiae", "strain": "strain=DSM 26897", "accession": "GCA_900129015.1", "taxid": 1302690, "species_taxid": 1302690, "relation_to_type": "type", "validated": true, "ani": 78.4715, "matched_fragments": 567, "total_fragments": 1633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavisolibacter nicotianae", "strain": "strain=X7X", "accession": "GCA_003628535.1", "taxid": 2364882, "species_taxid": 2364882, "relation_to_type": "type", "validated": true, "ani": 76.8851, "matched_fragments": 248, "total_fragments": 1633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flaviaesturariibacter aridisoli", "strain": "strain=17J68-15", "accession": "GCA_004343705.1", "taxid": 2545761, "species_taxid": 2545761, "relation_to_type": "type", "validated": true, "ani": 76.6411, "matched_fragments": 174, "total_fragments": 1633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavisolibacter ginsenosidimutans", "strain": "strain=Gsoil 636", "accession": "GCA_007970805.1", "taxid": 661481, "species_taxid": 661481, "relation_to_type": "type", "validated": true, "ani": 76.6152, "matched_fragments": 204, "total_fragments": 1633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flaviaesturariibacter flavus", "strain": "strain=17J68-12", "accession": "GCA_004337505.1", "taxid": 2502780, "species_taxid": 2502780, "relation_to_type": "type", "validated": true, "ani": 76.5513, "matched_fragments": 180, "total_fragments": 1633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phnomibacter ginsenosidimutans", "strain": "strain=SB-02", "accession": "GCA_009740285.1", "taxid": 2676868, "species_taxid": 2676868, "relation_to_type": "type", "validated": true, "ani": 76.5467, "matched_fragments": 122, "total_fragments": 1633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pinibacter aurantiacus", "strain": "strain=MAH-26", "accession": "GCA_019130065.1", "taxid": 2851599, "species_taxid": 2851599, "relation_to_type": "type", "validated": true, "ani": 76.5103, "matched_fragments": 61, "total_fragments": 1633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Niastella yeongjuensis", "strain": "strain=DSM 17621", "accession": "GCA_002077935.1", "taxid": 354355, "species_taxid": 354355, "relation_to_type": "type", "validated": true, "ani": 76.4966, "matched_fragments": 102, "total_fragments": 1633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Niastella yeongjuensis", "strain": "strain=DSM 17621", "accession": "GCA_900110245.1", "taxid": 354355, "species_taxid": 354355, "relation_to_type": "type", "validated": true, "ani": 76.3644, "matched_fragments": 102, "total_fragments": 1633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Niastella populi", "strain": "strain=CCTCC AB 208238", "accession": "GCA_002078015.1", "taxid": 550983, "species_taxid": 550983, "relation_to_type": "type", "validated": true, "ani": 76.1442, "matched_fragments": 118, "total_fragments": 1633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudobacter ginsenosidimutans", "strain": "strain=DSM 18116", "accession": "GCA_004291315.1", "taxid": 661488, "species_taxid": 661488, "relation_to_type": "type", "validated": true, "ani": 76.0287, "matched_fragments": 92, "total_fragments": 1633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudobacter ginsenosidimutans", "strain": "strain=Gsoil 221", "accession": "GCA_007970185.1", "taxid": 661488, "species_taxid": 661488, "relation_to_type": "type", "validated": true, "ani": 76.0109, "matched_fragments": 93, "total_fragments": 1633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraflavitalea devenefica", "strain": "strain=X16", "accession": "GCA_011759375.1", "taxid": 2716334, "species_taxid": 2716334, "relation_to_type": "type", "validated": true, "ani": 75.9884, "matched_fragments": 107, "total_fragments": 1633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga japonensis", "strain": "strain=DSM 13484", "accession": "GCA_007830125.1", "taxid": 104662, "species_taxid": 104662, "relation_to_type": "type", "validated": true, "ani": 75.7481, "matched_fragments": 94, "total_fragments": 1633, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003332885.2", "gtdb_species": "s__Paracnuella aquatica", "ani": 100.0, "matched_fragments": 1630, "total_fragments": 1633, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Paracnuella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.63", "min_intra_species_ani": "95.63", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_001953305.1", "gtdb_species": "s__Cnuella takakiae", "ani": 78.5085, "matched_fragments": 563, "total_fragments": 1633, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Cnuella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_013327885.1", "gtdb_species": "s__Flavisolibacter sp013327885", "ani": 77.6462, "matched_fragments": 310, "total_fragments": 1633, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Flavisolibacter", "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_014163555.1", "gtdb_species": "s__Flavisolibacter sp014163555", "ani": 77.0014, "matched_fragments": 265, "total_fragments": 1633, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Flavisolibacter", "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_003628535.1", "gtdb_species": "s__Flavisolibacter nicotianae", "ani": 76.8851, "matched_fragments": 248, "total_fragments": 1633, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Flavisolibacter", "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_004343705.1", "gtdb_species": "s__Flaviaesturariibacter aridisoli", "ani": 76.6411, "matched_fragments": 174, "total_fragments": 1633, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Flaviaesturariibacter", "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_007970805.1", "gtdb_species": "s__Flavisolibacter ginsenosidimutans", "ani": 76.6152, "matched_fragments": 204, "total_fragments": 1633, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Flavisolibacter", "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_004337505.1", "gtdb_species": "s__Flaviaesturariibacter flavus", "ani": 76.5615, "matched_fragments": 179, "total_fragments": 1633, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Flaviaesturariibacter", "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_009740285.1", "gtdb_species": "s__Phnomibacter ginsenosidimutans", "ani": 76.5614, "matched_fragments": 120, "total_fragments": 1633, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Phnomibacter", "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_900110245.1", "gtdb_species": "s__Niastella yeongjuensis", "ani": 76.3644, "matched_fragments": 102, "total_fragments": 1633, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Niastella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_016192105.1", "gtdb_species": "s__JJ008 sp016192105", "ani": 76.1952, "matched_fragments": 84, "total_fragments": 1633, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__JJ008", "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_016786725.1", "gtdb_species": "s__Ferruginibacter sp016786725", "ani": 76.1303, "matched_fragments": 59, "total_fragments": 1633, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Ferruginibacter", "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_003412455.1", "gtdb_species": "s__Deminuibacter soli", "ani": 76.1011, "matched_fragments": 132, "total_fragments": 1633, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Deminuibacter", "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_007970185.1", "gtdb_species": "s__Pseudobacter ginsenosidimutans", "ani": 76.0109, "matched_fragments": 93, "total_fragments": 1633, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Pseudobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_011759375.1", "gtdb_species": "s__Paraflavitalea devenefica", "ani": 75.9884, "matched_fragments": 107, "total_fragments": 1633, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Paraflavitalea", "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": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_genome_taxon": [ "Paracnuella", "aquatica" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }