{ "type": "genome", "identifier": "GCF_900102135.1", "organism": "Microvirga guangxiensis", "title": "Microvirga guangxiensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900102135.1", "bioproject": "PRJNA224116", "biosample": "SAMN02927923", "wgs_master": "FMVJ00000000.1", "refseq_category": "reference genome", "taxid": "549386", "species_taxid": "549386", "organism_name": "Microvirga guangxiensis", "infraspecific_name": "strain=CGMCC 1.7666", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/10/17", "asm_name": "IMG-taxon 2596583582 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900102135.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/102/135/GCF_900102135.1_IMG-taxon_2596583582_annotated_assembly", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4721732", "genome_size_ungapped": "4720450", "gc_percent": "61.500000", "replicon_count": "0", "scaffold_count": "34", "contig_count": "34", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900102135.1-RS_2024_04_24", "annotation_date": "2024-04-24", "total_gene_count": "4509", "protein_coding_gene_count": "4363", "non_coding_gene_count": "66", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-10-17", "dateModified": "2016-10-17", "datePublished": "2016-10-17", "_annotation": { "sample_count": 1, "sample_organism": [ "Microvirga guangxiensis" ], "sample_taxid": [ "549386" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.327 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)": "4721732", "Number of Sequences": "34", "Longest Sequences (bp)": "722408", "N50 (bp)": "407384", "Gap Ratio (%)": "0.027151", "GCcontent (%)": "61.4", "Number of CDSs": "4531", "Average Protein Length": "299.9", "Coding Ratio (%)": "86.3", "Number of rRNAs": "3", "Number of tRNAs": "58", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Microvirga guangxiensis", "strain": "strain=CGMCC 1.7666", "accession": "GCA_900102135.1", "taxid": 549386, "species_taxid": 549386, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1553, "total_fragments": 1556, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Microvirga vignae", "strain": "strain=BR3299", "accession": "GCA_001017175.1", "taxid": 1225564, "species_taxid": 1225564, "relation_to_type": "type", "validated": true, "ani": 84.1282, "matched_fragments": 952, "total_fragments": 1556, "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": 83.8981, "matched_fragments": 942, "total_fragments": 1556, "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": 83.6199, "matched_fragments": 933, "total_fragments": 1556, "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": 82.8635, "matched_fragments": 792, "total_fragments": 1556, "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": 82.8043, "matched_fragments": 885, "total_fragments": 1556, "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": 82.4103, "matched_fragments": 877, "total_fragments": 1556, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microvirga calopogonii", "strain": "strain=CCBAU 65841", "accession": "GCA_003347665.1", "taxid": 2078013, "species_taxid": 2078013, "relation_to_type": "type", "validated": true, "ani": 82.3647, "matched_fragments": 874, "total_fragments": 1556, "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": 82.2408, "matched_fragments": 864, "total_fragments": 1556, "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": 82.2207, "matched_fragments": 898, "total_fragments": 1556, "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": 82.0768, "matched_fragments": 763, "total_fragments": 1556, "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": 81.5177, "matched_fragments": 751, "total_fragments": 1556, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium goesingense", "strain": "strain=DSM 21331", "accession": "GCA_022179225.1", "taxid": 243690, "species_taxid": 243690, "relation_to_type": "type", "validated": true, "ani": 78.0735, "matched_fragments": 296, "total_fragments": 1556, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium gnaphalii", "strain": "strain=DSM 24027", "accession": "GCA_022179205.1", "taxid": 1010610, "species_taxid": 1010610, "relation_to_type": "type", "validated": true, "ani": 77.9865, "matched_fragments": 256, "total_fragments": 1556, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900102135.1", "gtdb_species": "s__Microvirga guangxiensis", "ani": 100.0, "matched_fragments": 1553, "total_fragments": 1556, "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_001017175.1", "gtdb_species": "s__Microvirga vignae", "ani": 84.1279, "matched_fragments": 952, "total_fragments": 1556, "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_003075415.1", "gtdb_species": "s__Microvirga sp003075415", "ani": 84.0481, "matched_fragments": 966, "total_fragments": 1556, "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": 83.8882, "matched_fragments": 943, "total_fragments": 1556, "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_009830105.1", "gtdb_species": "s__Microvirga makkahensis", "ani": 83.6172, "matched_fragments": 933, "total_fragments": 1556, "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_013520865.1", "gtdb_species": "s__Microvirga mediterraneensis", "ani": 82.6957, "matched_fragments": 862, "total_fragments": 1556, "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_000739015.1", "gtdb_species": "s__Microvirga sp000739015", "ani": 82.4527, "matched_fragments": 853, "total_fragments": 1556, "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": 82.3941, "matched_fragments": 879, "total_fragments": 1556, "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_003347665.1", "gtdb_species": "s__Microvirga calopogonii", "ani": 82.3719, "matched_fragments": 874, "total_fragments": 1556, "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_014191055.1", "gtdb_species": "s__Microvirga lupini_A", "ani": 82.3618, "matched_fragments": 863, "total_fragments": 1556, "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": 82.2886, "matched_fragments": 890, "total_fragments": 1556, "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_016734765.1", "gtdb_species": "s__Microvirga soli", "ani": 82.2271, "matched_fragments": 897, "total_fragments": 1556, "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": 82.1086, "matched_fragments": 905, "total_fragments": 1556, "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": -0.155, "cell_length": 0.23, "doubling_h": null, "growth_tmp": 35.0, "optimum_tmp": 37.0, "optimum_ph": 7.0, "genome_size": 4721732.0, "gc_content": 62.553, "coding_genes": 8581.0, "rRNA16S_genes": null, "tRNA_genes": 68.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "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", "guangxiensis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }