{ "type": "genome", "identifier": "GCF_003206695.1", "organism": "Salinicola halophyticus", "title": "Salinicola halophyticus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Universidade de Aveiro", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003206695.1", "bioproject": "PRJNA224116", "biosample": "SAMN06299280", "wgs_master": "PZJN00000000.1", "refseq_category": "reference genome", "taxid": "1808881", "species_taxid": "1808881", "organism_name": "Salinicola halophyticus", "infraspecific_name": "strain=CR45", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/06/11", "asm_name": "ASM320669v1", "asm_submitter": "Universidade de Aveiro", "gbrs_paired_asm": "GCA_003206695.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/206/695/GCF_003206695.1_ASM320669v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3899358", "genome_size_ungapped": "3899329", "gc_percent": "62.000000", "replicon_count": "0", "scaffold_count": "23", "contig_count": "23", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003206695.1-RS_2024_04_30", "annotation_date": "2024-04-30", "total_gene_count": "3464", "protein_coding_gene_count": "3385", "non_coding_gene_count": "67", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-06-11", "dateModified": "2018-06-11", "datePublished": "2018-06-11", "_annotation": { "sample_count": 1, "sample_organism": [ "Salinicola halophyticus" ], "sample_taxid": [ "1808881" ], "sample_host_organism": [ "Atriplex portulacoides" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Portugal: Ria de Aveiro, Aveiro" ], "sample_host_location_id": [], "data_size": "1.088 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)": "3899358", "Number of Sequences": "23", "Longest Sequences (bp)": "786467", "N50 (bp)": "468703", "Gap Ratio (%)": "0.002924", "GCcontent (%)": "62.2", "Number of CDSs": "3414", "Average Protein Length": "334.6", "Coding Ratio (%)": "87.9", "Number of rRNAs": "2", "Number of tRNAs": "61", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Salinicola halophyticus", "strain": "strain=CR45", "accession": "GCA_003206695.1", "taxid": 1808881, "species_taxid": 1808881, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1289, "total_fragments": 1292, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Salinicola halimionae", "strain": "strain=CPA60", "accession": "GCA_003206065.1", "taxid": 1949081, "species_taxid": 1949081, "relation_to_type": "type", "validated": true, "ani": 88.2422, "matched_fragments": 1119, "total_fragments": 1292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salinicola socius", "strain": "strain=DSM 19940", "accession": "GCA_003206115.1", "taxid": 404433, "species_taxid": 404433, "relation_to_type": "type", "validated": true, "ani": 86.5744, "matched_fragments": 1086, "total_fragments": 1292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salinicola socius", "strain": "strain=SMB35", "accession": "GCA_001937195.1", "taxid": 404433, "species_taxid": 404433, "relation_to_type": "type", "validated": true, "ani": 86.5655, "matched_fragments": 1079, "total_fragments": 1292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salinicola salarius", "strain": "strain=DSM 18044", "accession": "GCA_003206135.1", "taxid": 430457, "species_taxid": 430457, "relation_to_type": "type", "validated": true, "ani": 84.9796, "matched_fragments": 971, "total_fragments": 1292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salinicola lusitanus", "strain": "strain=CR50", "accession": "GCA_003206045.1", "taxid": 1949085, "species_taxid": 1949085, "relation_to_type": "type", "validated": true, "ani": 84.1165, "matched_fragments": 1037, "total_fragments": 1292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salinicola acroporae", "strain": "strain=LMG 28587", "accession": "GCA_003206615.1", "taxid": 1541440, "species_taxid": 1541440, "relation_to_type": "type", "validated": true, "ani": 83.8615, "matched_fragments": 1026, "total_fragments": 1292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas 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"GCA_900104135.1", "taxid": 419597, "species_taxid": 419597, "relation_to_type": "type", "validated": true, "ani": 78.7057, "matched_fragments": 362, "total_fragments": 1292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas sulfidoxydans", "strain": "strain=MCCC 1A11059", "accession": "GCA_017868775.1", "taxid": 2733484, "species_taxid": 2733484, "relation_to_type": "type", "validated": true, "ani": 78.6431, "matched_fragments": 407, "total_fragments": 1292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas tianxiuensis", "strain": "strain=BC-M4-5", "accession": "GCA_009834345.1", "taxid": 2497861, "species_taxid": 2497861, "relation_to_type": "type", "validated": true, "ani": 78.5223, "matched_fragments": 391, "total_fragments": 1292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas sulfidivorans", "strain": "strain=MCCC 1A13718", "accession": "GCA_017868935.1", "taxid": 2733488, 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"mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_003206065.1", "gtdb_species": "s__Salinicola halimionae", "ani": 88.2422, "matched_fragments": 1119, "total_fragments": 1292, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Salinicola", "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_001937195.1", "gtdb_species": "s__Salinicola socius", "ani": 86.5655, "matched_fragments": 1079, "total_fragments": 1292, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Salinicola", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.48", "min_intra_species_ani": "98.96", "mean_intra_species_af": 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