{ "type": "genome", "identifier": "GCF_024753285.1", "organism": "Massilia pinisoli", "title": "Massilia pinisoli", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University Of Tasmania, Tasmania Inst Agriculture", "publication": [ {} ], "properties": { "assembly_accession": "GCF_024753285.1", "bioproject": "PRJNA224116", "biosample": "SAMN30252726", "wgs_master": "JANUGW000000000.1", "refseq_category": "reference genome", "taxid": "1772194", "species_taxid": "1772194", "organism_name": "Massilia pinisoli", "infraspecific_name": "strain=JCM 31316", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/08/28", "asm_name": "ASM2475328v1", "asm_submitter": "University Of Tasmania, Tasmania Inst Agriculture", "gbrs_paired_asm": "GCA_024753285.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/024/753/285/GCF_024753285.1_ASM2475328v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6509231", "genome_size_ungapped": "6509231", "gc_percent": "66.000000", "replicon_count": "0", "scaffold_count": "70", "contig_count": "70", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_024753285.1-RS_2024_08_18", "annotation_date": "2024-08-18", "total_gene_count": "5749", "protein_coding_gene_count": "5635", "non_coding_gene_count": "82", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-08-28", "dateModified": "2022-08-28", "datePublished": "2022-08-28", "_annotation": { "sample_count": 1, "sample_organism": [ "Massilia pinisoli" ], "sample_taxid": [ "1772194" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea: Kyonggi University, Suwon" ], "sample_host_location_id": [], "data_size": "1.782 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)": "6509231", "Number of Sequences": "70", "Longest Sequences (bp)": "522877", "N50 (bp)": "238840", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "66.1", "Number of CDSs": "5660", "Average Protein Length": "347.5", "Coding Ratio (%)": "90.6", "Number of rRNAs": "2", "Number of tRNAs": "85", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Massilia pinisoli", "strain": "strain=JCM 31316", "accession": "GCA_024753285.1", "taxid": 1772194, "species_taxid": 1772194, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2139, "total_fragments": 2140, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Massilia putida", "strain": "strain=6NM-7", "accession": "GCA_001941825.1", "taxid": 1141883, "species_taxid": 1141883, "relation_to_type": "type", "validated": true, "ani": 89.2858, "matched_fragments": 1679, "total_fragments": 2140, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia rhizosphaerae", "strain": "strain=NEAU-GH312", "accession": "GCA_016093545.1", "taxid": 2784389, "species_taxid": 2784389, "relation_to_type": "type", "validated": true, "ani": 89.0244, "matched_fragments": 1662, "total_fragments": 2140, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia norwichensis", "strain": "strain=LMG 28164", "accession": "GCA_024753245.1", "taxid": 1442366, "species_taxid": 1442366, "relation_to_type": "type", "validated": true, "ani": 83.6369, "matched_fragments": 1233, "total_fragments": 2140, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia forsythiae", "strain": "strain=GN2-R2", "accession": "GCA_012849555.1", "taxid": 2728020, "species_taxid": 2728020, "relation_to_type": "type", "validated": true, "ani": 83.2415, "matched_fragments": 1305, "total_fragments": 2140, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia niastensis", "strain": "strain=DSM 21313", "accession": "GCA_000382345.1", "taxid": 544911, "species_taxid": 544911, "relation_to_type": "type", "validated": true, "ani": 81.8434, "matched_fragments": 1101, "total_fragments": 2140, "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": 81.643, "matched_fragments": 1011, "total_fragments": 2140, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia alkalitolerans", "strain": "strain=DSM 17462", "accession": "GCA_000427785.1", "taxid": 286638, "species_taxid": 286638, "relation_to_type": "type", "validated": true, "ani": 81.599, "matched_fragments": 1084, "total_fragments": 2140, "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": 81.5959, "matched_fragments": 1055, "total_fragments": 2140, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_011682055.1", "gtdb_species": "s__Massilia sp011682055", "ani": 93.9853, "matched_fragments": 1870, "total_fragments": 2140, "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_001425685.1", "gtdb_species": "s__Massilia sp001425685", "ani": 89.3035, "matched_fragments": 1678, "total_fragments": 2140, "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_001941825.1", "gtdb_species": "s__Massilia putida", "ani": 89.2779, "matched_fragments": 1680, "total_fragments": 2140, "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_900101265.1", "gtdb_species": "s__Massilia sp900101265", "ani": 89.1816, "matched_fragments": 1671, "total_fragments": 2140, "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_001426525.1", "gtdb_species": "s__Massilia sp001426525", "ani": 89.1419, "matched_fragments": 1697, "total_fragments": 2140, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Massilia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.62", "min_intra_species_ani": "99.38", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.95", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_002968015.1", "gtdb_species": "s__Massilia phosphatilytica", "ani": 89.1102, "matched_fragments": 1721, "total_fragments": 2140, "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_000759615.1", "gtdb_species": "s__Massilia sp000759615", "ani": 89.0346, "matched_fragments": 1675, "total_fragments": 2140, "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_016093545.1", "gtdb_species": "s__Massilia sp016093545", "ani": 89.0082, "matched_fragments": 1664, "total_fragments": 2140, "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.079, "cell_length": 0.297, "doubling_h": null, "growth_tmp": 28.976, "optimum_tmp": 28.026, "optimum_ph": 7.138, "genome_size": 6559913.463, "gc_content": 65.753, "coding_genes": 5602.0, "rRNA16S_genes": 7.0, "tRNA_genes": 84.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.882, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 0.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 1.0, "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": [ "Massilia", "pinisoli" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }