{ "type": "genome", "identifier": "GCF_022810315.1", "organism": "Pseudomonas marianensis", "title": "Pseudomonas marianensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Shanghai Ocean University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_022810315.1", "bioproject": "PRJNA224116", "biosample": "SAMN26994128", "wgs_master": "JALGRD000000000.1", "refseq_category": "reference genome", "taxid": "2929513", "species_taxid": "2929513", "organism_name": "Pseudomonas marianensis", "infraspecific_name": "strain=PS1", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/04/03", "asm_name": "ASM2281031v1", "asm_submitter": "Shanghai Ocean University", "gbrs_paired_asm": "GCA_022810315.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/810/315/GCF_022810315.1_ASM2281031v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4749370", "genome_size_ungapped": "4749030", "gc_percent": "63.000000", "replicon_count": "0", "scaffold_count": "103", "contig_count": "103", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_022810315.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "4481", "protein_coding_gene_count": "4337", "non_coding_gene_count": "78", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-04-03", "dateModified": "2022-04-03", "datePublished": "2022-04-03", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudomonas marianensis" ], "sample_taxid": [ "2929513" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Pacific Ocean: Mariana trench" ], "sample_host_location_id": [], "data_size": "1.320 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)": "4749370", "Number of Sequences": "103", "Longest Sequences (bp)": "681982", "N50 (bp)": "367017", "Gap Ratio (%)": "0.007854", "GCcontent (%)": "63.0", "Number of CDSs": "4394", "Average Protein Length": "318.3", "Coding Ratio (%)": "88.3", "Number of rRNAs": "2", "Number of tRNAs": "61", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Stutzerimonas stutzeri", "strain": "strain=CGMCC 1.1803", "accession": "GCA_000219605.1", "taxid": 316, "species_taxid": 316, "relation_to_type": "type", "validated": true, "ani": 82.9037, "matched_fragments": 963, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas stutzeri", "strain": "strain=FDAARGOS_875", "accession": "GCA_016028655.1", "taxid": 316, "species_taxid": 316, "relation_to_type": "type", "validated": true, "ani": 82.8682, "matched_fragments": 971, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas frequens", "strain": "strain=DNSP21", "accession": "GCA_024448335.1", "taxid": 2968969, "species_taxid": 2968969, "relation_to_type": "type", "validated": true, "ani": 82.7739, "matched_fragments": 982, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas frequens", "strain": "strain=DNSP21", "accession": "GCA_002890935.1", "taxid": 2968969, "species_taxid": 2968969, "relation_to_type": "type", "validated": true, "ani": 82.7136, "matched_fragments": 983, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas frequens", "strain": "strain=FDAARGOS_877", "accession": "GCA_016028515.1", "taxid": 2968969, "species_taxid": 2968969, "relation_to_type": "type", "validated": true, "ani": 82.7131, "matched_fragments": 984, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas songnenensis", "strain": "strain=DSM 27560T", "accession": "GCA_024448495.1", "taxid": 1176259, "species_taxid": 1176259, "relation_to_type": "type", "validated": true, "ani": 82.344, "matched_fragments": 920, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas songnenensis", "strain": "strain=NEAU-ST5-5", "accession": "GCA_003696315.1", "taxid": 1176259, "species_taxid": 1176259, "relation_to_type": "type", "validated": true, "ani": 82.2953, "matched_fragments": 915, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas nitrititolerans", "strain": "strain=GL14", "accession": "GCA_003696285.1", "taxid": 2482751, "species_taxid": 2482751, "relation_to_type": "type", "validated": true, "ani": 82.0525, "matched_fragments": 903, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas degradans", "strain": "strain=FDAARGOS_876", "accession": "GCA_016028635.1", "taxid": 2968968, "species_taxid": 2968968, "relation_to_type": "suspected-type", "validated": true, "ani": 81.9732, "matched_fragments": 847, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas degradans", "strain": "strain=DSM 50238", "accession": "GCA_024448505.1", "taxid": 2968968, "species_taxid": 2968968, "relation_to_type": "type", "validated": true, "ani": 81.9291, "matched_fragments": 823, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Pseudomonas] nosocomialis", "strain": "strain=A31/70", "accession": "GCA_005876855.1", "taxid": 1056496, "species_taxid": 1056496, "relation_to_type": "type", "validated": true, "ani": 81.8988, "matched_fragments": 900, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas balearica", "strain": "strain=DSM6083 (=SP1402)", "accession": "GCA_000818015.1", "taxid": 74829, "species_taxid": 74829, "relation_to_type": "type", "validated": true, "ani": 81.896, "matched_fragments": 887, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas balearica", "strain": "strain=DSM 6083", "accession": "GCA_900103375.1", "taxid": 74829, "species_taxid": 74829, "relation_to_type": "type", "validated": true, "ani": 81.8718, "matched_fragments": 873, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas xanthomarina", "strain": "strain=DSM 18231", "accession": "GCA_900129835.1", "taxid": 271420, "species_taxid": 271420, "relation_to_type": "suspected-type", "validated": true, "ani": 81.6722, "matched_fragments": 964, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas xanthomarina", "strain": "strain=DSM 18231", "accession": "GCA_024328335.1", "taxid": 271420, "species_taxid": 271420, "relation_to_type": "suspected-type", "validated": true, "ani": 81.6716, "matched_fragments": 933, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Pseudomonas] zhaodongensis", "strain": "strain=DSM 27559T", "accession": "GCA_024448735.1", "taxid": 1176257, "species_taxid": 1176257, "relation_to_type": "suspected-type", "validated": true, "ani": 81.3041, "matched_fragments": 946, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas saudiphocaensis", "strain": "strain=20_BN", "accession": "GCA_000756775.2", "taxid": 1499686, "species_taxid": 1499686, "relation_to_type": "type", "validated": true, "ani": 81.0197, "matched_fragments": 786, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas carbonaria", "strain": "strain=CIP 111764", "accession": "GCA_904061905.1", "taxid": 2762745, "species_taxid": 2762745, "relation_to_type": "type", "validated": true, "ani": 80.3288, "matched_fragments": 663, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas cavernae", "strain": "strain=K2W31S-8", "accession": "GCA_003595175.1", "taxid": 2320867, "species_taxid": 2320867, "relation_to_type": "type", "validated": true, "ani": 79.8668, "matched_fragments": 608, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas oleovorans subsp. oleovorans", "strain": "strain=NBRC 13583", "accession": "GCA_002091815.1", "taxid": 1218129, "species_taxid": 301, "relation_to_type": "type", "validated": true, "ani": 79.8238, "matched_fragments": 613, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas guryensis", "strain": "strain=SR9", "accession": "GCA_014164785.1", "taxid": 2759165, "species_taxid": 2759165, "relation_to_type": "type", "validated": true, "ani": 79.7358, "matched_fragments": 603, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas extremaustralis", "strain": "", "accession": "GCA_900625045.1", "taxid": 359110, "species_taxid": 359110, "relation_to_type": "type", "validated": true, "ani": 78.5427, "matched_fragments": 493, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas extremaustralis", "strain": "strain=DSM 17835", "accession": "GCA_900102035.1", "taxid": 359110, "species_taxid": 359110, "relation_to_type": "type", "validated": true, "ani": 78.5384, "matched_fragments": 496, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas extremaustralis", "strain": "strain=14-3 substr. 14-3b", "accession": "GCA_000242115.2", "taxid": 359110, "species_taxid": 359110, "relation_to_type": "type", "validated": true, "ani": 78.5221, "matched_fragments": 496, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas extremaustralis", "strain": "strain=DSM 17835", "accession": "GCA_007858235.1", "taxid": 359110, "species_taxid": 359110, "relation_to_type": "type", "validated": true, "ani": 78.4478, "matched_fragments": 499, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinobacterium halophilum", "strain": "strain=DSM 17586", "accession": "GCA_003014615.1", "taxid": 267374, "species_taxid": 267374, "relation_to_type": "type", "validated": true, "ani": 76.427, "matched_fragments": 70, "total_fragments": 1557, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_019056435.1", "gtdb_species": "s__Pseudomonas_A stutzeri_AM", "ani": 98.2965, "matched_fragments": 1408, "total_fragments": 1557, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_A", "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": "GCA_002339675.1", "gtdb_species": "s__Pseudomonas_A stutzeri_O", "ani": 82.9784, "matched_fragments": 1051, "total_fragments": 1557, "gtdb_taxonomy": 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"d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.23", "min_intra_species_ani": "98.23", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_018138085.1", "gtdb_species": "s__Pseudomonas_A stutzeri_AI", "ani": 82.8086, "matched_fragments": 1077, "total_fragments": 1557, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.15", "min_intra_species_ani": "96.92", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.86", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_002890915.1", "gtdb_species": "s__Pseudomonas_A stutzeri_AF", "ani": 82.6608, "matched_fragments": 932, "total_fragments": 1557, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.35", "min_intra_species_ani": "98.08", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.89", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_019090095.1", "gtdb_species": "s__Pseudomonas_A stutzeri_AN", "ani": 82.5504, "matched_fragments": 1080, "total_fragments": 1557, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_A", "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_003205815.1", "gtdb_species": "s__Pseudomonas_A sp003205815", "ani": 82.4663, "matched_fragments": 989, "total_fragments": 1557, "gtdb_taxonomy": 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