{ "type": "genome", "identifier": "GCF_002752675.1", "organism": "Massilia violaceinigra", "title": "Massilia violaceinigra", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Chinese Academy of Agricultural Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002752675.1", "bioproject": "PRJNA224116", "biosample": "SAMN07786919", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2045208", "species_taxid": "2045208", "organism_name": "Massilia violaceinigra", "infraspecific_name": "strain=B2", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/11/06", "asm_name": "ASM275267v1", "asm_submitter": "Chinese Academy of Agricultural Sciences", "gbrs_paired_asm": "GCA_002752675.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/752/675/GCF_002752675.1_ASM275267v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "7530059", "genome_size_ungapped": "7530059", "gc_percent": "63.500000", "replicon_count": "2", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002752675.1-RS_2024_08_18", "annotation_date": "2024-08-18", "total_gene_count": "6578", "protein_coding_gene_count": "6385", "non_coding_gene_count": "108", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-11-06", "dateModified": "2017-11-06", "datePublished": "2017-11-06", "_annotation": { "sample_count": 1, "sample_organism": [ "Massilia violaceinigra" ], "sample_taxid": [ "2045208" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Xinjiang Municipality" ], "sample_host_location_id": [], "data_size": "2.073 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "7530059", "Number of Sequences": "2", "Longest Sequences (bp)": "7442939", "N50 (bp)": "7442939", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "63.5", "Number of CDSs": "6498", "Average Protein Length": "345.2", "Coding Ratio (%)": "89.4", "Number of rRNAs": "11", "Number of tRNAs": "95", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Massilia violaceinigra", "strain": "strain=B2", "accession": "GCA_002752675.1", "taxid": 2045208, "species_taxid": 2045208, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2508, "total_fragments": 2509, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Massilia frigida", "strain": "strain=CCM 8695", "accession": "GCA_011682175.1", "taxid": 2609281, "species_taxid": 2609281, "relation_to_type": "type", "validated": true, "ani": 92.0682, "matched_fragments": 1999, "total_fragments": 2509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia mucilaginosa", "strain": "strain=CCM 8733", "accession": "GCA_011682145.1", "taxid": 2609282, "species_taxid": 2609282, "relation_to_type": "type", "validated": true, "ani": 89.4898, "matched_fragments": 1876, "total_fragments": 2509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia rubra", "strain": "strain=CCM 8692", "accession": "GCA_011682065.1", "taxid": 2607910, "species_taxid": 2607910, "relation_to_type": "type", "validated": true, "ani": 89.3349, "matched_fragments": 1901, "total_fragments": 2509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia atriviolacea", "strain": "strain=SOD", "accession": "GCA_003953935.1", "taxid": 2495579, "species_taxid": 2495579, "relation_to_type": "type", "validated": true, "ani": 89.3052, "matched_fragments": 1870, "total_fragments": 2509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia cavernae", "strain": "strain=K1S02-61", "accession": "GCA_003590855.1", "taxid": 2320864, "species_taxid": 2320864, "relation_to_type": "type", "validated": true, "ani": 82.372, "matched_fragments": 910, "total_fragments": 2509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia soli", "strain": "strain=R798", "accession": "GCA_016809835.2", "taxid": 2792854, "species_taxid": 2792854, "relation_to_type": "type", "validated": true, "ani": 82.2937, "matched_fragments": 974, "total_fragments": 2509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia solisilvae", "strain": "strain=JCM 31607", "accession": "GCA_024753215.1", "taxid": 1811225, "species_taxid": 1811225, "relation_to_type": "type", "validated": true, "ani": 80.8969, "matched_fragments": 908, "total_fragments": 2509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia terrae", "strain": "strain=JCM 31606", "accession": "GCA_024753145.1", "taxid": 1811224, "species_taxid": 1811224, "relation_to_type": "type", "validated": true, "ani": 80.7178, "matched_fragments": 914, "total_fragments": 2509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia agri", "strain": "strain=JCM 31661", "accession": "GCA_024753255.1", "taxid": 1886785, "species_taxid": 1886785, "relation_to_type": "type", "validated": true, "ani": 80.537, "matched_fragments": 963, "total_fragments": 2509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia ginsengiterrae", "strain": "strain=DCY85", "accession": "GCA_001645125.1", "taxid": 1462993, "species_taxid": 1462993, "relation_to_type": "type", "validated": true, "ani": 76.9315, "matched_fragments": 329, "total_fragments": 2509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia terrae", "strain": "strain=DSM 17804", "accession": "GCA_002902925.1", "taxid": 311230, "species_taxid": 311230, "relation_to_type": "type", "validated": true, "ani": 76.8469, "matched_fragments": 314, "total_fragments": 2509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia sediminicola", "strain": "strain=LMG 24238", "accession": "GCA_902859805.1", "taxid": 458836, "species_taxid": 458836, "relation_to_type": "type", "validated": true, "ani": 76.821, "matched_fragments": 305, "total_fragments": 2509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pigmentiphaga litoralis", "strain": "strain=KCTC 22165", "accession": "GCA_014651835.1", "taxid": 516702, "species_taxid": 516702, 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"min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "conclusive" }, { "accession": "GCF_011682175.1", "gtdb_species": "s__Massilia frigida", "ani": 92.0681, "matched_fragments": 1999, "total_fragments": 2509, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Massilia", "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_015689335.1", "gtdb_species": "s__Massilia sp001485665", "ani": 91.4391, "matched_fragments": 1989, "total_fragments": 2509, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Massilia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.10", "min_intra_species_ani": "97.10", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", 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