{ "type": "genome", "identifier": "GCF_010015475.1", "organism": "Pontibacter pamirensis", "title": "Pontibacter pamirensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Xinjiang Normal University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_010015475.1", "bioproject": "PRJNA224116", "biosample": "SAMN11284198", "wgs_master": "SSNI00000000.1", "refseq_category": "reference genome", "taxid": "2562824", "species_taxid": "2562824", "organism_name": "Pontibacter pamirensis", "infraspecific_name": "strain=TRT317", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/01/27", "asm_name": "ASM1001547v1", "asm_submitter": "Xinjiang Normal University", "gbrs_paired_asm": "GCA_010015475.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/010/015/475/GCF_010015475.1_ASM1001547v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6500856", "genome_size_ungapped": "6500836", "gc_percent": "47.500000", "replicon_count": "0", "scaffold_count": "123", "contig_count": "125", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_010015475.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "5499", "protein_coding_gene_count": "5395", "non_coding_gene_count": "51", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-01-27", "dateModified": "2020-01-27", "datePublished": "2020-01-27", "_annotation": { "sample_count": 1, "sample_organism": [ "Pontibacter pamirensis" ], "sample_taxid": [ "2562824" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China:Tajik Autonomous County of Taxkorgan" ], "sample_host_location_id": [], "data_size": "1.859 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)": "6500856", "Number of Sequences": "123", "Longest Sequences (bp)": "491157", "N50 (bp)": "141701", "Gap Ratio (%)": "0.000308", "GCcontent (%)": "47.7", "Number of CDSs": "5371", "Average Protein Length": "331.7", "Coding Ratio (%)": "82.2", "Number of rRNAs": "2", "Number of tRNAs": "39", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pontibacter pamirensis", "strain": "strain=TRT317", "accession": "GCA_010015475.1", "taxid": 2562824, "species_taxid": 2562824, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2100, "total_fragments": 2107, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pontibacter diazotrophicus", "strain": "strain=H4X", "accession": "GCA_003367245.1", "taxid": 1400979, "species_taxid": 1400979, "relation_to_type": "type", "validated": true, "ani": 88.6321, "matched_fragments": 1586, "total_fragments": 2107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibacter russatus", "strain": "strain=BT326", "accession": "GCA_009931655.1", "taxid": 2694929, "species_taxid": 2694929, "relation_to_type": "type", "validated": true, "ani": 79.1295, "matched_fragments": 761, "total_fragments": 2107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibacter actiniarum", "strain": "strain=DSM 19842", "accession": "GCA_000472485.1", "taxid": 323450, "species_taxid": 323450, "relation_to_type": "type", "validated": true, "ani": 78.4121, "matched_fragments": 527, "total_fragments": 2107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibacter ummariensis", "strain": "strain=NKM1", "accession": "GCA_003002015.1", "taxid": 1610492, "species_taxid": 1610492, "relation_to_type": "type", "validated": true, "ani": 78.369, "matched_fragments": 581, "total_fragments": 2107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibacter mangrovi", "strain": "strain=HB172049", "accession": "GCA_006385705.1", "taxid": 2589816, "species_taxid": 2589816, "relation_to_type": "type", "validated": true, "ani": 78.3394, "matched_fragments": 498, "total_fragments": 2107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibacter ummariensis", "strain": "strain=NKM1", "accession": "GCA_900188175.1", "taxid": 1610492, "species_taxid": 1610492, "relation_to_type": "type", "validated": true, "ani": 78.3368, "matched_fragments": 589, "total_fragments": 2107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibacter 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"GCA_003284895.1", "taxid": 2080288, "species_taxid": 2080288, "relation_to_type": "type", "validated": true, "ani": 77.6834, "matched_fragments": 288, "total_fragments": 2107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibacter silvestris", "strain": "strain=XAAS-R86T", "accession": "GCA_020907275.1", "taxid": 2305183, "species_taxid": 2305183, "relation_to_type": "type", "validated": true, "ani": 77.6076, "matched_fragments": 303, "total_fragments": 2107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibacter roseus", "strain": "strain=DSM 17521", "accession": "GCA_000373265.1", "taxid": 336989, "species_taxid": 336989, "relation_to_type": "type", "validated": true, "ani": 77.5676, "matched_fragments": 384, "total_fragments": 2107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontibacter aquaedesilientis", "strain": "strain=JH31", "accession": "GCA_014773225.1", "taxid": 2766980, "species_taxid": 2766980, "relation_to_type": "type", "validated": true, "ani": 77.5311, "matched_fragments": 332, "total_fragments": 2107, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_010015475.1", "gtdb_species": "s__Pontibacter sp010015475", "ani": 100.0, "matched_fragments": 2100, "total_fragments": 2107, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Hymenobacteraceae;g__Pontibacter", "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": "GCF_003367245.1", "gtdb_species": "s__Pontibacter diazotrophicus", "ani": 88.6029, "matched_fragments": 1590, "total_fragments": 2107, "gtdb_taxonomy": 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"spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Pontibacter", "pamirensis" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }