{ "type": "genome", "identifier": "GCF_025153475.1", "organism": "Novosphingobium mangrovi (ex Huang et al. 2023)", "title": "Novosphingobium mangrovi (ex Huang et al. 2023)", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Shantou university, China", "publication": [ {} ], "properties": { "assembly_accession": "GCF_025153475.1", "bioproject": "PRJNA224116", "biosample": "SAMN30614389", "wgs_master": "JANZXA000000000.1", "refseq_category": "na", "taxid": "2976432", "species_taxid": "2976432", "organism_name": "Novosphingobium mangrovi (ex Huang et al. 2023)", "infraspecific_name": "strain=HK4-1", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/09/12", "asm_name": "ASM2515347v1", "asm_submitter": "Shantou university, China", "gbrs_paired_asm": "GCA_025153475.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/025/153/475/GCF_025153475.1_ASM2515347v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4473426", "genome_size_ungapped": "4473426", "gc_percent": "64.500000", "replicon_count": "0", "scaffold_count": "89", "contig_count": "89", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2024-01-28", "total_gene_count": "4315", "protein_coding_gene_count": "4188", "non_coding_gene_count": "57", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-09-12", "dateModified": "2022-09-12", "datePublished": "2022-09-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Novosphingobium mangrovi (ex Huang et al. 2023)" ], "sample_taxid": [ "2976432" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Hong Kong" ], "sample_host_location_id": [], "data_size": "1.240 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4473426", "Number of Sequences": "89", "Longest Sequences (bp)": "676642", "N50 (bp)": "272030", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "64.4", "Number of CDSs": "4221", "Average Protein Length": "316.1", "Coding Ratio (%)": "89.5", "Number of rRNAs": "3", "Number of tRNAs": "53", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Novosphingobium naphthalenivorans", "strain": "strain=NBRC 102051", "accession": "GCA_001590985.1", 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"relation_to_type": "type", "validated": true, "ani": 82.1349, "matched_fragments": 672, "total_fragments": 1462, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium pentaromativorans", "strain": "strain=US6-1", "accession": "GCA_000235975.2", "taxid": 205844, "species_taxid": 205844, "relation_to_type": "type", "validated": true, "ani": 82.1249, "matched_fragments": 708, "total_fragments": 1462, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium pentaromativorans", "strain": "strain=US6-1", "accession": "GCA_000767465.1", "taxid": 205844, "species_taxid": 205844, "relation_to_type": "type", "validated": true, "ani": 81.9605, "matched_fragments": 719, "total_fragments": 1462, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium endophyticum", "strain": "strain=CGMCC 1.15095", "accession": "GCA_014640675.1", "taxid": 1955250, "species_taxid": 1955250, "relation_to_type": "type", "validated": true, "ani": 81.8788, "matched_fragments": 684, "total_fragments": 1462, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium aureum", "strain": "strain=YJ-S2-02", "accession": "GCA_015865035.1", "taxid": 2792964, "species_taxid": 2792964, "relation_to_type": "type", "validated": true, "ani": 81.2427, "matched_fragments": 676, "total_fragments": 1462, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium decolorationis", "strain": "strain=502str22", "accession": "GCA_018417475.1", "taxid": 2698673, "species_taxid": 2698673, "relation_to_type": "type", "validated": true, "ani": 81.1308, "matched_fragments": 657, "total_fragments": 1462, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium profundi", "strain": "strain=F72", "accession": "GCA_018491765.1", "taxid": 1774954, "species_taxid": 1774954, "relation_to_type": "type", "validated": true, "ani": 81.0859, "matched_fragments": 670, "total_fragments": 1462, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium silvae", "strain": "strain=FGD1", "accession": "GCA_009856825.1", "taxid": 2692619, "species_taxid": 2692619, "relation_to_type": "type", "validated": true, "ani": 80.5865, "matched_fragments": 643, "total_fragments": 1462, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium colocasiae", "strain": "strain=KCTC 32255", "accession": "GCA_014652555.1", "taxid": 1256513, "species_taxid": 1256513, "relation_to_type": "type", "validated": true, "ani": 80.4034, "matched_fragments": 573, "total_fragments": 1462, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium percolationis", "strain": "strain=c1", "accession": "GCA_020179425.1", "taxid": 2871811, "species_taxid": 2871811, "relation_to_type": "type", "validated": true, "ani": 80.1289, "matched_fragments": 489, "total_fragments": 1462, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium aquimarinum", "strain": "strain=M24A2M", "accession": "GCA_009746585.1", "taxid": 2682494, "species_taxid": 2682494, "relation_to_type": "type", "validated": true, "ani": 79.9545, "matched_fragments": 538, "total_fragments": 1462, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium huizhouense", "strain": "strain=c7", "accession": "GCA_020179475.1", "taxid": 2866625, "species_taxid": 2866625, "relation_to_type": "type", "validated": true, "ani": 79.8607, "matched_fragments": 498, "total_fragments": 1462, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001590985.1", "gtdb_species": "s__Novosphingobium naphthalenivorans", "ani": 85.7294, "matched_fragments": 900, "total_fragments": 1462, "gtdb_taxonomy": 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