{ "type": "genome", "identifier": "GCF_014201135.1", "organism": "Neomicrococcus aestuarii", "title": "Neomicrococcus aestuarii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014201135.1", "bioproject": "PRJNA224116", "biosample": "SAMN14510503", "wgs_master": "JACHDR000000000.1", "refseq_category": "na", "taxid": "556325", "species_taxid": "556325", "organism_name": "Neomicrococcus aestuarii", "infraspecific_name": "strain=DSM 105783", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/08/14", "asm_name": "ASM1420113v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_014201135.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/201/135/GCF_014201135.1_ASM1420113v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2890566", "genome_size_ungapped": "2890566", "gc_percent": "59.000000", "replicon_count": "0", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014201135.1-RS_2024_12_23", "annotation_date": "2024-12-23", "total_gene_count": "2677", "protein_coding_gene_count": "2587", "non_coding_gene_count": "58", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-08-14", "dateModified": "2020-08-14", "datePublished": "2020-08-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Neomicrococcus aestuarii" ], "sample_taxid": [ "556325" ], "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": "0.819 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)": "2890566", "Number of Sequences": "2", "Longest Sequences (bp)": "2829627", "N50 (bp)": "2829627", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "59.1", "Number of CDSs": "2697", "Average Protein Length": "317.4", "Coding Ratio (%)": "88.8", "Number of rRNAs": "9", "Number of tRNAs": "47", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Neomicrococcus aestuarii", "strain": "strain=DSM 105783", "accession": "GCA_014201135.1", "taxid": 556325, "species_taxid": 556325, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 963, "total_fragments": 963, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Neomicrococcus lactis", "strain": "strain=DSM 23694", "accession": "GCA_014200305.1", "taxid": 732241, "species_taxid": 732241, "relation_to_type": "type", "validated": true, "ani": 83.516, "matched_fragments": 598, "total_fragments": 963, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Glutamicibacter mishrai", "strain": "strain=S5-52", "accession": "GCA_012221945.1", "taxid": 1775880, "species_taxid": 1775880, "relation_to_type": "type", "validated": true, "ani": 78.0004, "matched_fragments": 149, "total_fragments": 963, "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": 77.9332, "matched_fragments": 139, "total_fragments": 963, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Glutamicibacter arilaitensis", "strain": "strain=Re117", "accession": "GCA_000197735.1", "taxid": 256701, "species_taxid": 256701, "relation_to_type": "type", "validated": true, "ani": 77.9283, "matched_fragments": 154, "total_fragments": 963, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Zhihengliuella flava", "strain": "strain=DSM 26152", "accession": "GCA_015751895.1", "taxid": 1285193, "species_taxid": 1285193, "relation_to_type": "type", "validated": true, "ani": 77.8298, "matched_fragments": 131, "total_fragments": 963, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paeniglutamicibacter kerguelensis", "strain": "strain=DSM 15797", "accession": "GCA_017876535.1", "taxid": 254788, "species_taxid": 254788, "relation_to_type": "type", "validated": true, "ani": 77.6941, "matched_fragments": 192, "total_fragments": 963, "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": 77.6481, "matched_fragments": 139, "total_fragments": 963, "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": 77.6382, "matched_fragments": 119, "total_fragments": 963, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Glutamicibacter uratoxydans", "strain": "strain=NBRC 15515", "accession": "GCA_006539925.1", "taxid": 43667, "species_taxid": 43667, "relation_to_type": "type", "validated": true, "ani": 77.5222, "matched_fragments": 155, "total_fragments": 963, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arthrobacter pullicola", "strain": "strain=Sa2BUA2", "accession": "GCA_014836875.1", "taxid": 2762224, "species_taxid": 2762224, "relation_to_type": "type", "validated": true, "ani": 77.381, "matched_fragments": 127, "total_fragments": 963, "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": 77.3469, "matched_fragments": 132, "total_fragments": 963, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Glutamicibacter nicotianae", "strain": "strain=NBRC 14234", "accession": "GCA_006539525.1", "taxid": 37929, "species_taxid": 37929, "relation_to_type": "type", "validated": true, "ani": 77.325, "matched_fragments": 158, "total_fragments": 963, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arthrobacter citreus", "strain": "strain=DSM 20133", "accession": "GCA_009192745.1", "taxid": 1670, "species_taxid": 1670, "relation_to_type": "type", "validated": true, "ani": 77.2773, "matched_fragments": 134, "total_fragments": 963, "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": 77.2652, "matched_fragments": 137, "total_fragments": 963, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Zhihengliuella halotolerans", "strain": "strain=DSM 17364", "accession": "GCA_004217565.1", "taxid": 370736, "species_taxid": 370736, "relation_to_type": "type", "validated": true, "ani": 77.2403, "matched_fragments": 167, "total_fragments": 963, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arthrobacter mobilis", "strain": "strain=E918", "accession": "GCA_012395835.1", "taxid": 2724944, "species_taxid": 2724944, "relation_to_type": "type", "validated": true, "ani": 77.1365, "matched_fragments": 139, "total_fragments": 963, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arthrobacter koreensis", "strain": "strain=DSM 16760", "accession": "GCA_009193255.1", "taxid": 199136, "species_taxid": 199136, "relation_to_type": "type", "validated": true, "ani": 77.047, "matched_fragments": 151, "total_fragments": 963, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arthrobacter cheniae", "strain": "strain=Hz2", "accession": "GCA_003602275.1", "taxid": 1258888, "species_taxid": 1258888, "relation_to_type": "type", "validated": true, "ani": 76.7624, "matched_fragments": 110, "total_fragments": 963, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nesterenkonia lutea", "strain": "strain=DSM 15666", "accession": "GCA_014873955.1", "taxid": 272919, "species_taxid": 272919, "relation_to_type": "type", "validated": true, "ani": 76.6898, "matched_fragments": 85, "total_fragments": 963, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arthrobacter terrae", "strain": "strain=Z1-20", "accession": "GCA_015708085.1", "taxid": 2935737, "species_taxid": 2935737, "relation_to_type": "type", "validated": true, "ani": 76.5304, "matched_fragments": 67, "total_fragments": 963, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014201135.1", "gtdb_species": "s__Neomicrococcus aestuarii", "ani": 100.0, "matched_fragments": 963, "total_fragments": 963, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Neomicrococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.24", "min_intra_species_ani": "97.24", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_014200305.1", "gtdb_species": "s__Neomicrococcus lactis", "ani": 83.5414, "matched_fragments": 599, "total_fragments": 963, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Neomicrococcus", "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_012221945.1", "gtdb_species": "s__Glutamicibacter mishrai", "ani": 78.0494, "matched_fragments": 147, "total_fragments": 963, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Glutamicibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.84", "min_intra_species_ani": "97.11", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000197735.1", "gtdb_species": "s__Glutamicibacter arilaitensis", "ani": 77.8561, "matched_fragments": 153, "total_fragments": 963, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Glutamicibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.79", "min_intra_species_ani": "97.54", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.83", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_015751895.1", "gtdb_species": "s__Zhihengliuella flava", "ani": 77.8396, "matched_fragments": 131, "total_fragments": 963, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Zhihengliuella", "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_017876535.1", "gtdb_species": "s__Paeniglutamicibacter kerguelensis", "ani": 77.6121, "matched_fragments": 191, "total_fragments": 963, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Paeniglutamicibacter", "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_002008315.2", "gtdb_species": "s__Arthrobacter sp002008315", "ani": 77.5884, "matched_fragments": 145, "total_fragments": 963, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Arthrobacter", "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_013359735.1", "gtdb_species": "s__Arthrobacter_I sp013359735", "ani": 77.5317, "matched_fragments": 142, "total_fragments": 963, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Arthrobacter_I", "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_900010755.1", "gtdb_species": "s__Paeniglutamicibacter antarcticus_A", "ani": 77.5064, "matched_fragments": 180, "total_fragments": 963, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Paeniglutamicibacter", "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_900099975.1", "gtdb_species": "s__Arthrobacter_G cupressi", "ani": 77.5057, "matched_fragments": 152, "total_fragments": 963, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Arthrobacter_G", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000281065.1", "gtdb_species": "s__Paenarthrobacter sp000281065", "ani": 77.5012, "matched_fragments": 120, "total_fragments": 963, "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_003725815.1", "gtdb_species": "s__Arthrobacter_I oryzae_A", "ani": 77.4539, "matched_fragments": 110, "total_fragments": 963, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Arthrobacter_I", "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_002975435.1", "gtdb_species": "s__Paeniglutamicibacter sp002975435", "ani": 77.3884, "matched_fragments": 132, "total_fragments": 963, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Paeniglutamicibacter", "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_014836875.1", "gtdb_species": "s__Arthrobacter_B sp014836875", "ani": 77.381, "matched_fragments": 127, "total_fragments": 963, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Arthrobacter_B", "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_008580665.1", "gtdb_species": "s__Zafaria cholistanensis", "ani": 77.2794, "matched_fragments": 192, "total_fragments": 963, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Zafaria", "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_004217565.1", "gtdb_species": "s__Zhihengliuella halotolerans", "ani": 77.1322, "matched_fragments": 166, "total_fragments": 963, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Zhihengliuella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.65", "min_intra_species_ani": "97.65", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003634095.1", "gtdb_species": "s__Arthrobacter_I oryzae", "ani": 77.1303, "matched_fragments": 129, "total_fragments": 963, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Arthrobacter_I", "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_012395835.1", "gtdb_species": "s__Arthrobacter_F mobilis", "ani": 77.1209, "matched_fragments": 139, "total_fragments": 963, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Arthrobacter_F", "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_009193255.1", "gtdb_species": "s__Arthrobacter_B koreensis", "ani": 77.0812, "matched_fragments": 149, "total_fragments": 963, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Arthrobacter_B", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.08", "min_intra_species_ani": "99.08", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002929215.1", "gtdb_species": "s__Pseudarthrobacter sp002929215", "ani": 77.0, "matched_fragments": 132, "total_fragments": 963, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Pseudarthrobacter", "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": null, "cell_length": null, "doubling_h": null, "growth_tmp": 30.0, "optimum_tmp": null, "optimum_ph": null, "genome_size": 2667838.0, "gc_content": 59.1, "coding_genes": 2301.0, "rRNA16S_genes": 3.0, "tRNA_genes": 46.0, "gram_stain": 1.0, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_genome_taxon": [ "Neomicrococcus", "aestuarii" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }