{ "type": "genome", "identifier": "GCF_003347665.1", "organism": "Microvirga calopogonii", "title": "Microvirga calopogonii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Southwest Forestry University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003347665.1", "bioproject": "PRJNA224116", "biosample": "SAMN08972775", "wgs_master": "QDGA00000000.1", "refseq_category": "reference genome", "taxid": "2078013", "species_taxid": "2078013", "organism_name": "Microvirga calopogonii", "infraspecific_name": "strain=CCBAU 65841", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/07/31", "asm_name": "ASM334766v1", "asm_submitter": "Southwest Forestry University", "gbrs_paired_asm": "GCA_003347665.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/347/665/GCF_003347665.1_ASM334766v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "7413381", "genome_size_ungapped": "7413349", "gc_percent": "62.500000", "replicon_count": "0", "scaffold_count": "249", "contig_count": "249", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003347665.1-RS_2024_05_01", "annotation_date": "2024-05-01", "total_gene_count": "7172", "protein_coding_gene_count": "6802", "non_coding_gene_count": "93", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-07-31", "dateModified": "2018-07-31", "datePublished": "2018-07-31", "_annotation": { "sample_count": 1, "sample_organism": [ "Microvirga calopogonii" ], "sample_taxid": [ "2078013" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China:Yunnan" ], "sample_host_location_id": [], "data_size": "2.085 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)": "7413381", "Number of Sequences": "249", "Longest Sequences (bp)": "544662", "N50 (bp)": "85556", "Gap Ratio (%)": "0.000580", "GCcontent (%)": "62.5", "Number of CDSs": "7102", "Average Protein Length": "283.1", "Coding Ratio (%)": "81.4", "Number of rRNAs": "9", "Number of tRNAs": "73", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Microvirga calopogonii", "strain": "strain=CCBAU 65841", "accession": "GCA_003347665.1", "taxid": 2078013, "species_taxid": 2078013, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2326, "total_fragments": 2343, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Microvirga mediterraneensis", "strain": "strain=Marseille-Q2068", "accession": "GCA_013520865.1", "taxid": 2754695, "species_taxid": 2754695, "relation_to_type": "type", "validated": true, "ani": 89.4385, "matched_fragments": 1344, "total_fragments": 2343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microvirga lotononidis", "strain": "strain=WSM3557", "accession": "GCA_000262405.1", "taxid": 864069, "species_taxid": 864069, "relation_to_type": "type", "validated": true, "ani": 88.7572, "matched_fragments": 1534, "total_fragments": 2343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microvirga zambiensis", "strain": "strain=WSM3693", "accession": "GCA_016735695.1", "taxid": 1402137, "species_taxid": 1402137, "relation_to_type": "type", "validated": true, "ani": 84.4428, "matched_fragments": 1305, "total_fragments": 2343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microvirga ossetica", "strain": "strain=V5/3M", "accession": "GCA_002741015.1", "taxid": 1882682, "species_taxid": 1882682, "relation_to_type": "type", "validated": true, "ani": 84.4172, "matched_fragments": 1410, "total_fragments": 2343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microvirga splendida", "strain": "strain=BT325", "accession": "GCA_016427565.1", "taxid": 2795727, "species_taxid": 2795727, "relation_to_type": "type", "validated": true, "ani": 84.3941, "matched_fragments": 1069, "total_fragments": 2343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microvirga flocculans", "strain": "strain=ATCC BAA-817", "accession": "GCA_000518665.1", "taxid": 217168, "species_taxid": 217168, "relation_to_type": "type", "validated": true, "ani": 84.2559, "matched_fragments": 948, "total_fragments": 2343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microvirga arabica", "strain": "strain=SV2184P", "accession": "GCA_016811235.1", "taxid": 1128671, "species_taxid": 1128671, "relation_to_type": "type", "validated": true, "ani": 83.8129, "matched_fragments": 1130, "total_fragments": 2343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microvirga soli", "strain": "strain=R491", "accession": "GCA_016734765.1", "taxid": 1854496, "species_taxid": 1854496, "relation_to_type": "type", "validated": true, "ani": 83.7947, "matched_fragments": 1134, "total_fragments": 2343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microvirga roseola", "strain": "strain=SM2", "accession": "GCA_020866965.1", "taxid": 2883126, "species_taxid": 2883126, "relation_to_type": "type", "validated": true, "ani": 82.5227, "matched_fragments": 892, "total_fragments": 2343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microvirga pakistanensis", "strain": "strain=NCCP-1258", "accession": "GCA_004458765.1", "taxid": 1682650, "species_taxid": 1682650, "relation_to_type": "type", "validated": true, "ani": 82.4683, "matched_fragments": 956, "total_fragments": 2343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microvirga lenta", "strain": "strain=SM9", "accession": "GCA_020532555.1", "taxid": 2881337, "species_taxid": 2881337, "relation_to_type": "type", "validated": true, "ani": 82.1809, "matched_fragments": 871, "total_fragments": 2343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microvirga vignae", "strain": "strain=BR3299", "accession": "GCA_001017175.1", "taxid": 1225564, "species_taxid": 1225564, "relation_to_type": "type", "validated": true, "ani": 82.061, "matched_fragments": 982, "total_fragments": 2343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microvirga makkahensis", "strain": "strain=KCTC 23863", "accession": "GCA_009830105.1", "taxid": 1128670, "species_taxid": 1128670, "relation_to_type": "type", "validated": true, "ani": 81.9536, "matched_fragments": 896, "total_fragments": 2343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microvirga rosea", "strain": "strain=CGMCC1.16488", "accession": "GCA_020595095.1", "taxid": 2715425, "species_taxid": 2715425, "relation_to_type": "type", "validated": true, "ani": 80.1867, "matched_fragments": 717, "total_fragments": 2343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium dankookense", "strain": "strain=DSM 22415", "accession": "GCA_022179165.1", "taxid": 560405, "species_taxid": 560405, "relation_to_type": "type", "validated": true, "ani": 78.4808, "matched_fragments": 442, "total_fragments": 2343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium isbiliense", "strain": "strain=DSM 17168", "accession": "GCA_022179325.1", "taxid": 315478, "species_taxid": 315478, "relation_to_type": "type", "validated": true, "ani": 78.3343, "matched_fragments": 516, "total_fragments": 2343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium terricola", "strain": "strain=17Sr1-39", "accession": "GCA_006151805.1", "taxid": 2583531, "species_taxid": 2583531, "relation_to_type": "type", "validated": true, "ani": 78.3033, "matched_fragments": 531, "total_fragments": 2343, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003347665.1", "gtdb_species": "s__Microvirga calopogonii", "ani": 100.0, "matched_fragments": 2327, "total_fragments": 2343, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Microvirga", "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_013520865.1", "gtdb_species": "s__Microvirga mediterraneensis", "ani": 89.4248, "matched_fragments": 1343, "total_fragments": 2343, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Microvirga", "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_000262405.1", "gtdb_species": "s__Microvirga lotononidis", "ani": 88.7535, "matched_fragments": 1534, "total_fragments": 2343, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Microvirga", "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_018069605.1", "gtdb_species": "s__Microvirga sp018069605", "ani": 86.4802, "matched_fragments": 1349, "total_fragments": 2343, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Microvirga", "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_018383585.1", "gtdb_species": "s__Microvirga sp018383585", "ani": 85.9944, "matched_fragments": 1242, "total_fragments": 2343, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Microvirga", "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_000517005.1", "gtdb_species": "s__Microvirga lupini", "ani": 85.5618, "matched_fragments": 1480, "total_fragments": 2343, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Microvirga", "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_016864375.1", "gtdb_species": "s__Microvirga sp016864375", "ani": 85.4033, "matched_fragments": 1499, "total_fragments": 2343, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Microvirga", "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_002741015.1", "gtdb_species": "s__Microvirga ossetica", "ani": 84.4938, "matched_fragments": 1396, "total_fragments": 2343, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Microvirga", "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_016735695.1", "gtdb_species": "s__Microvirga zambiensis", "ani": 84.4654, "matched_fragments": 1300, "total_fragments": 2343, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Microvirga", "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_009910705.1", "gtdb_species": "s__Microvirga sp009910705", "ani": 84.2232, "matched_fragments": 1049, "total_fragments": 2343, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Microvirga", "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_000739015.1", "gtdb_species": "s__Microvirga sp000739015", "ani": 84.0867, "matched_fragments": 1092, "total_fragments": 2343, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Microvirga", "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_016811235.1", "gtdb_species": "s__Microvirga arabica", "ani": 83.7931, "matched_fragments": 1132, "total_fragments": 2343, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Microvirga", "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_014699075.1", "gtdb_species": "s__Microvirga sp014699075", "ani": 83.5463, "matched_fragments": 1211, "total_fragments": 2343, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Microvirga", "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_004458765.1", "gtdb_species": "s__Microvirga pakistanensis", "ani": 82.4351, "matched_fragments": 960, "total_fragments": 2343, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Microvirga", "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": -0.174, "cell_length": 0.209, "doubling_h": null, "growth_tmp": 35.0, "optimum_tmp": 35.4, "optimum_ph": 7.5, "genome_size": 7249828.75, "gc_content": 62.553, "coding_genes": 8581.0, "rRNA16S_genes": null, "tRNA_genes": 68.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.2, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "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": [ "Microvirga", "calopogonii" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }