{ "type": "genome", "identifier": "GCA_020049385.1", "organism": "Collimonas sp.", "title": "Collimonas sp.", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "University of Michigan", "publication": [ {} ], "properties": { "assembly_accession": "GCA_020049385.1", "bioproject": "PRJNA72255", "biosample": "SAMN20441920", "wgs_master": "JAIFKW000000000.1", "refseq_category": "na", "taxid": "1963772", "species_taxid": "1963772", "organism_name": "Collimonas sp.", "infraspecific_name": "", "isolate": "bin_131", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/09/20", "asm_name": "ASM2004938v1", "submitter": "University of Michigan", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/020/049/385/GCA_020049385.1_ASM2004938v1", "excluded_from_refseq": "derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-09-20", "dateModified": "2021-09-20", "datePublished": "2021-09-20", "_annotation": { "sample_count": 1, "sample_organism": [ "Collimonas sp." ], "sample_taxid": [ "1963772" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: northwestern Lake Huron" ], "sample_host_location_id": [], "data_size": "0.463 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 91.67, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1613140", "Number of Sequences": "105", "Longest Sequences (bp)": "64140", "N50 (bp)": "16822", "Gap Ratio (%)": "0.004773", "GCcontent (%)": "52.6", "Number of CDSs": "1679", "Average Protein Length": "222.2", "Coding Ratio (%)": "69.4", "Number of rRNAs": "0", "Number of tRNAs": "33", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Collimonas arenae", "strain": "strain=Ter10", "accession": "GCA_001584165.1", "taxid": 279058, "species_taxid": 279058, "relation_to_type": "type", "validated": true, "ani": 83.3906, "matched_fragments": 412, "total_fragments": 486, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collimonas silvisoli", "strain": "strain=RXD178", "accession": "GCA_018305005.1", "taxid": 2825884, "species_taxid": 2825884, "relation_to_type": "type", "validated": true, "ani": 80.8815, "matched_fragments": 313, "total_fragments": 486, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collimonas fungivorans", "strain": "strain=Ter6", "accession": "GCA_001584145.1", "taxid": 158899, "species_taxid": 158899, "relation_to_type": "type", "validated": true, "ani": 80.8092, "matched_fragments": 345, "total_fragments": 486, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collimonas pratensis", "strain": "strain=Ter91", "accession": "GCA_001584185.1", "taxid": 279113, "species_taxid": 279113, "relation_to_type": "type", "validated": true, "ani": 80.7807, "matched_fragments": 341, "total_fragments": 486, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collimonas humicola", "strain": "strain=RLT1W51", "accession": "GCA_018304945.1", "taxid": 2825886, "species_taxid": 2825886, "relation_to_type": "type", "validated": true, "ani": 80.7155, "matched_fragments": 341, "total_fragments": 486, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collimonas antrihumi", "strain": "strain=DSM 104040", "accession": "GCA_018304965.1", "taxid": 1940615, "species_taxid": 1940615, "relation_to_type": "type", "validated": true, "ani": 80.6952, "matched_fragments": 325, "total_fragments": 486, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Herbaspirillum rhizosphaerae", "strain": "strain=UMS-37", "accession": "GCA_001189965.1", "taxid": 346179, "species_taxid": 346179, "relation_to_type": "type", "validated": true, "ani": 78.2063, "matched_fragments": 197, "total_fragments": 486, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Herbaspirillum chlorophenolicum", "strain": "strain=NBRC 102525", "accession": "GCA_001571165.1", "taxid": 211589, "species_taxid": 211589, "relation_to_type": "type", "validated": true, "ani": 77.5585, "matched_fragments": 165, "total_fragments": 486, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Duganella aceris", "strain": "strain=SAP-35", "accession": "GCA_011090165.1", "taxid": 2703883, "species_taxid": 2703883, "relation_to_type": "type", "validated": true, "ani": 77.4424, "matched_fragments": 138, "total_fragments": 486, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Duganella phyllosphaerae", "strain": "strain=T54", "accession": "GCA_001758785.1", "taxid": 762836, "species_taxid": 762836, "relation_to_type": "type", "validated": true, "ani": 77.2834, "matched_fragments": 117, "total_fragments": 486, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rugamonas apoptosis", "strain": "strain=LX47W", "accession": "GCA_014042355.1", "taxid": 2758570, "species_taxid": 2758570, "relation_to_type": "type", "validated": true, "ani": 77.1632, "matched_fragments": 130, "total_fragments": 486, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rugamonas fusca", "strain": "strain=FT3S", "accession": "GCA_014042365.1", "taxid": 2758568, "species_taxid": 2758568, "relation_to_type": "type", "validated": true, "ani": 77.0051, "matched_fragments": 122, "total_fragments": 486, "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": 76.9066, "matched_fragments": 101, "total_fragments": 486, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 91.67, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_002325825.1", "gtdb_species": "s__Collimonas sp002325825", "ani": 99.9182, "matched_fragments": 429, "total_fragments": 486, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Collimonas", "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_001584165.1", "gtdb_species": "s__Collimonas arenae", "ani": 83.4069, 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