{ "type": "genome", "identifier": "GCF_022818885.1", "organism": "Novosphingobium mangrovi (ex Hu et al. 2023)", "title": "Novosphingobium mangrovi (ex Hu et al. 2023)", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Guangxi Academy of Science", "publication": [ {} ], "properties": { "assembly_accession": "GCF_022818885.1", "bioproject": "PRJNA224116", "biosample": "SAMN27028243", "wgs_master": "JALHAT000000000.1", "refseq_category": "na", "taxid": "2930094", "species_taxid": "2930094", "organism_name": "Novosphingobium mangrovi (ex Hu et al. 2023)", "infraspecific_name": "strain=B2637", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/04/05", "asm_name": "ASM2281888v1", "asm_submitter": "Guangxi Academy of Science", "gbrs_paired_asm": "GCA_022818885.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/818/885/GCF_022818885.1_ASM2281888v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4437871", "genome_size_ungapped": "4437871", "gc_percent": "66.000000", "replicon_count": "0", "scaffold_count": "90", "contig_count": "90", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2024-01-24", "total_gene_count": "4023", "protein_coding_gene_count": "3918", "non_coding_gene_count": "66", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-04-05", "dateModified": "2022-04-05", "datePublished": "2022-04-05", "_annotation": { "sample_count": 1, "sample_organism": [ "Novosphingobium mangrovi (ex Hu et al. 2023)" ], "sample_taxid": [ "2930094" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China" ], "sample_host_location_id": [], "data_size": "1.228 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)": "4437871", "Number of Sequences": "90", "Longest Sequences (bp)": "474116", "N50 (bp)": "137179", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "65.8", "Number of CDSs": "3915", "Average Protein Length": "333.2", "Coding Ratio (%)": "88.2", "Number of rRNAs": "3", "Number of tRNAs": "63", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Novosphingobium decolorationis", "strain": "strain=502str22", "accession": "GCA_018417475.1", "taxid": 2698673, 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80.5713, "matched_fragments": 605, "total_fragments": 1436, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium malaysiense", "strain": "strain=MUSC 273", "accession": "GCA_000802225.1", "taxid": 1348853, "species_taxid": 1348853, "relation_to_type": "type", "validated": true, "ani": 80.3967, "matched_fragments": 580, "total_fragments": 1436, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium indicum", "strain": "strain=CGMCC 1.6784", "accession": "GCA_014645195.1", "taxid": 462949, "species_taxid": 462949, "relation_to_type": "type", "validated": true, "ani": 80.3207, "matched_fragments": 632, "total_fragments": 1436, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium lindaniclasticum", "strain": "strain=LE124", "accession": "GCA_000445125.1", "taxid": 1329895, "species_taxid": 1329895, "relation_to_type": "type", "validated": true, "ani": 80.1748, "matched_fragments": 571, "total_fragments": 1436, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium endophyticum", "strain": "strain=CGMCC 1.15095", "accession": "GCA_014640675.1", "taxid": 1955250, "species_taxid": 1955250, "relation_to_type": "type", "validated": true, "ani": 80.1643, "matched_fragments": 525, "total_fragments": 1436, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium silvae", "strain": "strain=FGD1", "accession": "GCA_009856825.1", "taxid": 2692619, "species_taxid": 2692619, "relation_to_type": "type", "validated": true, "ani": 80.0775, "matched_fragments": 574, "total_fragments": 1436, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium guangzhouense", "strain": "strain=SA925", "accession": "GCA_002896965.1", "taxid": 1850347, "species_taxid": 1850347, "relation_to_type": "type", "validated": true, "ani": 79.5868, "matched_fragments": 613, "total_fragments": 1436, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium aquimarinum", "strain": "strain=M24A2M", "accession": "GCA_009746585.1", "taxid": 2682494, "species_taxid": 2682494, "relation_to_type": "type", "validated": true, "ani": 79.1519, "matched_fragments": 471, "total_fragments": 1436, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium percolationis", "strain": "strain=c1", "accession": "GCA_020179425.1", "taxid": 2871811, "species_taxid": 2871811, "relation_to_type": "type", "validated": true, "ani": 78.8864, "matched_fragments": 452, "total_fragments": 1436, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelagerythrobacter aerophilus", "strain": "strain=Ery1", "accession": "GCA_003581645.1", "taxid": 2306995, "species_taxid": 2306995, "relation_to_type": "type", "validated": true, "ani": 78.6664, "matched_fragments": 320, "total_fragments": 1436, "ani_threshold": 95, "status": "below_threshold" } ], 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"mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_006874585.1", "gtdb_species": "s__Novosphingobium sp006874585", "ani": 80.8389, "matched_fragments": 672, "total_fragments": 1436, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Novosphingobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.32", "min_intra_species_ani": "98.32", "mean_intra_species_af": "0.81", "min_intra_species_af": "0.81", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001590985.1", "gtdb_species": "s__Novosphingobium naphthalenivorans", "ani": 80.7562, "matched_fragments": 635, "total_fragments": 1436, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Novosphingobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", 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"mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_002556635.1", "gtdb_species": "s__Novosphingobium sp002556635", "ani": 79.9103, "matched_fragments": 559, "total_fragments": 1436, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Novosphingobium", "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_002896965.1", "gtdb_species": "s__Novosphingobium guangzhouense", "ani": 79.5682, "matched_fragments": 615, "total_fragments": 1436, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Novosphingobium", "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": -0.185, "cell_length": 0.172, "doubling_h": null, "growth_tmp": 28.068, "optimum_tmp": 27.333, "optimum_ph": 6.24, "genome_size": 4701696.136, "gc_content": 64.111, "coding_genes": 4956.111, "rRNA16S_genes": 3.0, "tRNA_genes": 56.666, "gram_stain": 0.0, "sporulation": 0.166, "motility": 0.263, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 0.833, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.166, "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": [ "Novosphingobium", "mangrovi", "(ex", "Hu", "et", "al.", "2023)" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }