{ "type": "genome", "identifier": "GCF_003012935.1", "organism": "Pannonibacter carbonis", "title": "Pannonibacter carbonis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "China University of Petroleum", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003012935.1", "bioproject": "PRJNA224116", "biosample": "SAMN08278417", "wgs_master": "PUDR00000000.1", "refseq_category": "reference genome", "taxid": "2067569", "species_taxid": "2067569", "organism_name": "Pannonibacter carbonis", "infraspecific_name": "strain=Q4.6", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/03/21", "asm_name": "ASM301293v1", "asm_submitter": "China University of Petroleum", "gbrs_paired_asm": "GCA_003012935.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/012/935/GCF_003012935.1_ASM301293v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4780028", "genome_size_ungapped": "4780018", "gc_percent": "63.500000", "replicon_count": "0", "scaffold_count": "33", "contig_count": "33", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003012935.1-RS_2024_04_22", "annotation_date": "2024-04-22", "total_gene_count": "4392", "protein_coding_gene_count": "4319", "non_coding_gene_count": "58", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-03-21", "dateModified": "2018-03-21", "datePublished": "2018-03-21", "_annotation": { "sample_count": 1, "sample_organism": [ "Pannonibacter carbonis" ], "sample_taxid": [ "2067569" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Jinchen, Shanxi Province" ], "sample_host_location_id": [], "data_size": "1.328 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)": "4780028", "Number of Sequences": "33", "Longest Sequences (bp)": "502342", "N50 (bp)": "267537", "Gap Ratio (%)": "0.000209", "GCcontent (%)": "63.6", "Number of CDSs": "4390", "Average Protein Length": "319.7", "Coding Ratio (%)": "88.1", "Number of rRNAs": "4", "Number of tRNAs": "54", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pannonibacter carbonis", "strain": "strain=Q4.6", "accession": "GCA_003012935.1", "taxid": 2067569, "species_taxid": 2067569, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1573, "total_fragments": 1577, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pannonibacter phragmitetus", "strain": "strain=NCTC13350", "accession": "GCA_900454465.1", "taxid": 121719, "species_taxid": 121719, "relation_to_type": "suspected-type", "validated": true, "ani": 81.1157, "matched_fragments": 798, "total_fragments": 1577, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pannonibacter phragmitetus", "strain": "strain=DSM 14782", "accession": "GCA_000382365.1", "taxid": 121719, "species_taxid": 121719, "relation_to_type": "suspected-type", "validated": true, "ani": 81.0269, "matched_fragments": 796, "total_fragments": 1577, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pannonibacter indicus", "strain": "strain=DSM 23407", "accession": "GCA_001418225.1", "taxid": 466044, "species_taxid": 466044, "relation_to_type": "type", "validated": true, "ani": 80.8578, "matched_fragments": 766, "total_fragments": 1577, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pannonibacter indicus", "strain": "strain=DSM 23407", "accession": "GCA_001517385.1", "taxid": 466044, "species_taxid": 466044, "relation_to_type": "type", "validated": true, "ani": 80.846, "matched_fragments": 769, "total_fragments": 1577, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stappia albiluteola", "strain": "strain=F7233", "accession": "GCA_014050225.1", "taxid": 2758565, "species_taxid": 2758565, "relation_to_type": "type", "validated": true, "ani": 78.5513, "matched_fragments": 440, "total_fragments": 1577, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shinella pollutisoli", "strain": "strain=KCTC 52677", "accession": "GCA_024609765.1", "taxid": 2250594, "species_taxid": 2250594, "relation_to_type": "type", "validated": true, "ani": 78.0062, "matched_fragments": 361, "total_fragments": 1577, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquibium microcysteis", "strain": "strain=NIBR3", "accession": "GCA_014495845.1", "taxid": 675281, "species_taxid": 675281, "relation_to_type": "type", "validated": true, "ani": 77.6628, "matched_fragments": 366, "total_fragments": 1577, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ciceribacter ferrooxidans", "strain": "strain=F8825", "accession": "GCA_004137355.1", "taxid": 2509717, "species_taxid": 2509717, "relation_to_type": "type", "validated": true, "ani": 77.3585, "matched_fragments": 286, "total_fragments": 1577, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ciceribacter thiooxidans", "strain": "strain=F43B", "accession": "GCA_014126615.1", "taxid": 1969821, "species_taxid": 1969821, "relation_to_type": "type", "validated": true, "ani": 77.3428, "matched_fragments": 265, "total_fragments": 1577, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Xanthobacter 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"gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Stappiaceae;g__Pannonibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.76", "min_intra_species_ani": "98.76", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000382365.1", "gtdb_species": "s__Pannonibacter phragmitetus", "ani": 81.0355, "matched_fragments": 795, "total_fragments": 1577, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Stappiaceae;g__Pannonibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001418225.1", "gtdb_species": "s__Pannonibacter indicus", "ani": 80.8736, "matched_fragments": 764, "total_fragments": 1577, "gtdb_taxonomy": 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"d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Stappiaceae;g__Roseibium", "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_018760785.1", "gtdb_species": "s__Rhizobium_A sp018760785", "ani": 77.5715, "matched_fragments": 317, "total_fragments": 1577, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Rhizobium_A", "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_900465605.1", "gtdb_species": "s__Allorhizobium sp900465605", "ani": 77.375, "matched_fragments": 287, "total_fragments": 1577, "gtdb_taxonomy": 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63.432, "coding_genes": 5007.333, "rRNA16S_genes": 3.0, "tRNA_genes": 54.0, "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": 0.0, "thermophilic_range_tmp": 1.0, "psychrophilic_range_tmp": 0.0, "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": [ "Pannonibacter", "carbonis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }