{ "type": "genome", "identifier": "GCF_011761315.1", "organism": "Paenarthrobacter ilicis", "title": "Paenarthrobacter ilicis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_011761315.1", "bioproject": "PRJNA224116", "biosample": "SAMN12025155", "wgs_master": "JAAOZD000000000.1", "refseq_category": "na", "taxid": "43665", "species_taxid": "43665", "organism_name": "Paenarthrobacter ilicis", "infraspecific_name": "strain=CECT 4207", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/03/27", "asm_name": "ASM1176131v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_011761315.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/011/761/315/GCF_011761315.1_ASM1176131v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4090171", "genome_size_ungapped": "4089890", "gc_percent": "63.000000", "replicon_count": "0", "scaffold_count": "21", "contig_count": "21", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_011761315.1-RS_2024_03_29", "annotation_date": "2024-03-29", "total_gene_count": "3787", "protein_coding_gene_count": "3704", "non_coding_gene_count": "59", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-03-27", "dateModified": "2020-03-27", "datePublished": "2020-03-27", "_annotation": { "sample_count": 1, "sample_organism": [ "Paenarthrobacter ilicis" ], "sample_taxid": [ "43665" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.147 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)": "4090171", "Number of Sequences": "21", "Longest Sequences (bp)": "916942", "N50 (bp)": "548444", "Gap Ratio (%)": "0.006870", "GCcontent (%)": "62.9", "Number of CDSs": "3809", "Average Protein Length": "325.3", "Coding Ratio (%)": "90.9", "Number of rRNAs": "3", "Number of tRNAs": "54", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Paenarthrobacter ilicis", "strain": "strain=DSM 20138", "accession": "GCA_016907545.1", "taxid": 43665, "species_taxid": 43665, "relation_to_type": "type", "validated": true, "ani": 99.9816, "matched_fragments": 1305, "total_fragments": 1352, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Paenarthrobacter aurescens", "strain": "strain=NBRC 12136", "accession": "GCA_006538985.1", "taxid": 43663, "species_taxid": 43663, "relation_to_type": "type", "validated": true, "ani": 83.0764, "matched_fragments": 908, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenarthrobacter histidinolovorans", "strain": "strain=JCM 2520", "accession": "GCA_014647595.1", "taxid": 43664, "species_taxid": 43664, "relation_to_type": "type", "validated": true, "ani": 82.8697, "matched_fragments": 930, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenarthrobacter nicotinovorans", "strain": "strain=JCM 3874", "accession": "GCA_014648735.1", "taxid": 29320, "species_taxid": 29320, "relation_to_type": "suspected-type", "validated": true, "ani": 82.8321, "matched_fragments": 920, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenarthrobacter nicotinovorans", "strain": "strain=ATCC 49919", "accession": "GCA_021919345.1", "taxid": 29320, "species_taxid": 29320, "relation_to_type": "suspected-type", "validated": true, "ani": 82.8245, "matched_fragments": 942, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenarthrobacter nicotinovorans", "strain": "strain=DSM 420", "accession": "GCA_017876445.1", "taxid": 29320, "species_taxid": 29320, "relation_to_type": "suspected-type", "validated": true, "ani": 82.7757, "matched_fragments": 946, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arthrobacter celericrescens", "strain": "strain=NEAU-SA2", "accession": "GCA_003614925.1", "taxid": 2320851, "species_taxid": 2320851, "relation_to_type": "type", "validated": true, "ani": 80.3462, "matched_fragments": 632, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arthrobacter silvisoli", "strain": "strain=NEAU-SA1", "accession": "GCA_003369445.1", "taxid": 2291022, "species_taxid": 2291022, "relation_to_type": "type", "validated": true, "ani": 80.0815, "matched_fragments": 611, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arthrobacter terricola", "strain": "strain=JH1-1", "accession": "GCA_004354015.1", "taxid": 2547396, "species_taxid": 2547396, "relation_to_type": "type", "validated": true, "ani": 79.9866, "matched_fragments": 537, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arthrobacter pascens", "strain": "strain=DSM 20545", "accession": "GCA_017052465.1", "taxid": 1677, "species_taxid": 1677, "relation_to_type": "type", "validated": true, "ani": 79.6958, "matched_fragments": 544, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arthrobacter ulcerisalmonis", "strain": "", "accession": "GCA_900609065.1", "taxid": 2483813, "species_taxid": 2483813, "relation_to_type": "type", "validated": true, "ani": 79.4281, "matched_fragments": 444, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arthrobacter jiangjiafuii", "strain": "strain=zg-ZUI227", "accession": "GCA_017898065.1", "taxid": 2817475, "species_taxid": 2817475, "relation_to_type": "type", "validated": true, "ani": 78.2946, "matched_fragments": 263, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arthrobacter sunyaminii", "strain": "strain=zg-ZUI122", "accession": "GCA_018866305.1", "taxid": 2816859, "species_taxid": 2816859, "relation_to_type": "type", "validated": true, "ani": 78.2728, "matched_fragments": 256, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arthrobacter jiangjiafuii", "strain": "strain=zg-ZUI227", "accession": "GCA_018622995.1", "taxid": 2817475, "species_taxid": 2817475, "relation_to_type": "type", "validated": true, "ani": 78.1914, "matched_fragments": 266, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_016907545.1", "gtdb_species": "s__Paenarthrobacter ilicis", "ani": 99.9816, "matched_fragments": 1305, "total_fragments": 1352, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Paenarthrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_006964045.1", "gtdb_species": "s__Paenarthrobacter sp006964045", "ani": 83.5694, "matched_fragments": 924, "total_fragments": 1352, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Paenarthrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.36", "min_intra_species_ani": "98.36", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000526335.1", "gtdb_species": "s__Paenarthrobacter sp000526335", "ani": 83.549, "matched_fragments": 962, "total_fragments": 1352, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Paenarthrobacter", "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_018215265.1", "gtdb_species": "s__Paenarthrobacter sp018215265", "ani": 83.467, "matched_fragments": 959, "total_fragments": 1352, "gtdb_taxonomy": 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