{ "type": "genome", "identifier": "GCA_022340385.1", "organism": "Rhodobacter sp.", "title": "Rhodobacter sp.", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "Marine Biological Laboratory", "publication": [ {} ], "properties": { "assembly_accession": "GCA_022340385.1", "bioproject": "PRJNA757271", "biosample": "SAMN20958553", "wgs_master": "JAJDOB000000000.1", "refseq_category": "na", "taxid": "1062", "species_taxid": "1062", "organism_name": "Rhodobacter sp.", "infraspecific_name": "", "isolate": "MASabin.1", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/02/17", "asm_name": "ASM2234038v1", "submitter": "Marine Biological Laboratory", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/022/340/385/GCA_022340385.1_ASM2234038v1", "excluded_from_refseq": "derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-02-17", "dateModified": "2022-02-17", "datePublished": "2022-02-17", "_annotation": { "sample_count": 1, "sample_organism": [ "Rhodobacter sp." ], "sample_taxid": [ "1062" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Rowley, Massachusetts" ], "sample_host_location_id": [], "data_size": "1.090 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 79.63, "contamination": 2.08, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3926721", "Number of Sequences": "305", "Longest Sequences (bp)": "49245", "N50 (bp)": "16240", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "63.5", "Number of CDSs": "3562", "Average Protein Length": "304.9", "Coding Ratio (%)": "83.0", "Number of rRNAs": "0", "Number of tRNAs": "40", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Rhodovulum marinum", "strain": "strain=DSM 18063", "accession": "GCA_004343075.1", "taxid": 320662, "species_taxid": 320662, "relation_to_type": "type", "validated": true, "ani": 78.5605, "matched_fragments": 390, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovulum tesquicola", "strain": "strain=A-36s", "accession": "GCA_024128855.1", "taxid": 540254, "species_taxid": 540254, "relation_to_type": "type", "validated": true, "ani": 78.4616, "matched_fragments": 382, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cribrihabitans marinus", "strain": "strain=CGMCC 1.13219", "accession": "GCA_014640375.1", "taxid": 1227549, "species_taxid": 1227549, "relation_to_type": "type", "validated": true, "ani": 78.4427, "matched_fragments": 431, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thalassobius mangrovi", "strain": "strain=GS-10", "accession": "GCA_009857745.1", "taxid": 2692236, "species_taxid": 2692236, "relation_to_type": "type", "validated": true, "ani": 78.4016, "matched_fragments": 435, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thalassobius aquimarinus", "strain": "strain=KMM 8518", "accession": "GCA_018219815.1", "taxid": 2785917, "species_taxid": 2785917, "relation_to_type": "type", "validated": true, "ani": 78.2279, "matched_fragments": 410, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovulum robiginosum", "strain": "strain=DSM 12329", "accession": "GCA_003944755.1", "taxid": 68292, "species_taxid": 68292, "relation_to_type": "type", "validated": true, "ani": 78.1786, "matched_fragments": 405, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lutimaribacter saemankumensis", "strain": "strain=DSM 28010", "accession": "GCA_900100005.1", "taxid": 490829, "species_taxid": 490829, "relation_to_type": "type", "validated": true, "ani": 78.1721, "matched_fragments": 377, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseovarius pacificus", "strain": "strain=DSM 29589", "accession": "GCA_900142665.1", "taxid": 337701, "species_taxid": 337701, "relation_to_type": "type", "validated": true, "ani": 78.1536, "matched_fragments": 350, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseovarius pacificus", "strain": "strain=CGMCC 1.7083", "accession": "GCA_014645335.1", "taxid": 337701, "species_taxid": 337701, "relation_to_type": "type", "validated": true, "ani": 78.1423, "matched_fragments": 353, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ruegeria marina", "strain": "strain=CGMCC 1.9108", "accession": "GCA_900101475.1", "taxid": 639004, "species_taxid": 639004, "relation_to_type": "type", "validated": true, "ani": 78.1008, "matched_fragments": 396, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovulum sulfidophilum", "strain": "strain=DSM 1374", "accession": "GCA_001633165.1", "taxid": 35806, "species_taxid": 35806, "relation_to_type": "type", "validated": true, "ani": 78.0955, "matched_fragments": 361, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Antarcticimicrobium sediminis", "strain": "strain=S4J41", "accession": "GCA_004348975.1", "taxid": 2546227, "species_taxid": 2546227, "relation_to_type": "type", "validated": true, "ani": 77.9646, "matched_fragments": 386, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actibacterium mucosum", "strain": "strain=KCTC 23349", "accession": "GCA_000647975.1", "taxid": 1087332, "species_taxid": 1087332, "relation_to_type": "type", "validated": true, "ani": 77.9097, "matched_fragments": 297, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovulum visakhapatnamense", "strain": "strain=JA181", "accession": "GCA_004365965.1", "taxid": 364297, "species_taxid": 364297, "relation_to_type": "type", "validated": true, "ani": 77.8757, "matched_fragments": 384, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salipiger marinus", "strain": "strain=DSM 26424", "accession": "GCA_900100085.1", "taxid": 555512, "species_taxid": 555512, "relation_to_type": "type", "validated": true, "ani": 77.8445, "matched_fragments": 404, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudodonghicola xiamenensis", "strain": "strain=CGMCC 1.7081", "accession": "GCA_014653505.1", "taxid": 337702, "species_taxid": 337702, "relation_to_type": "type", "validated": true, "ani": 77.821, "matched_fragments": 329, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudodonghicola xiamenensis", "strain": "strain=DSM 18339", "accession": "GCA_000429365.1", "taxid": 337702, "species_taxid": 337702, "relation_to_type": "type", "validated": true, "ani": 77.7969, "matched_fragments": 330, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseibacterium elongatum", "strain": "strain=DFL-43", "accession": "GCA_000590925.1", "taxid": 159346, "species_taxid": 159346, "relation_to_type": "type", "validated": true, "ani": 77.712, "matched_fragments": 342, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseovarius indicus", "strain": "strain=DSM 26383", "accession": "GCA_008728195.1", "taxid": 540747, "species_taxid": 540747, "relation_to_type": "type", "validated": true, "ani": 77.6924, "matched_fragments": 352, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseovarius indicus", "strain": "strain=B108", "accession": "GCA_001441635.1", "taxid": 540747, "species_taxid": 540747, "relation_to_type": "type", "validated": true, "ani": 77.6911, "matched_fragments": 345, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseovarius lutimaris", "strain": "strain=DSM 28463", "accession": "GCA_900115165.1", "taxid": 1005928, "species_taxid": 1005928, "relation_to_type": "type", "validated": true, "ani": 77.6765, "matched_fragments": 307, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseovarius indicus", "strain": "strain=DSM 26383", "accession": "GCA_900112725.1", "taxid": 540747, "species_taxid": 540747, "relation_to_type": "type", "validated": true, "ani": 77.6254, "matched_fragments": 364, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dinoroseobacter shibae", "strain": "strain=DFL 12", "accession": "GCA_000018145.1", "taxid": 215813, "species_taxid": 215813, "relation_to_type": "type", "validated": true, "ani": 77.604, "matched_fragments": 327, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus yeei", "strain": "strain=ATCC BAA-599", "accession": "GCA_000622145.1", "taxid": 147645, "species_taxid": 147645, "relation_to_type": "type", "validated": true, "ani": 77.5186, "matched_fragments": 309, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseovarius aestuarii", "strain": "strain=KCTC 22174", "accession": "GCA_019966515.1", "taxid": 475083, "species_taxid": 475083, "relation_to_type": "type", "validated": true, "ani": 77.4902, "matched_fragments": 272, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus yeei", "strain": "strain=G1212", "accession": "GCA_002196965.1", "taxid": 147645, "species_taxid": 147645, "relation_to_type": "type", "validated": true, "ani": 77.4603, "matched_fragments": 305, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus lutimaris", "strain": "strain=CECT 8525", "accession": "GCA_003337565.1", "taxid": 1490030, "species_taxid": 1490030, "relation_to_type": "type", "validated": true, "ani": 77.4516, "matched_fragments": 300, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alexandriicola marinus", "strain": "strain=LZ-14", "accession": "GCA_004000435.1", "taxid": 2081710, "species_taxid": 2081710, "relation_to_type": "type", "validated": true, "ani": 77.4161, "matched_fragments": 304, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Palleronia rufa", "strain": "strain=MOLA 401", "accession": "GCA_000743715.1", "taxid": 1530186, "species_taxid": 1530186, "relation_to_type": "type", "validated": true, "ani": 77.3272, "matched_fragments": 282, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus denitrificans", "strain": "strain=NBRC 102528", "accession": "GCA_007989485.1", "taxid": 266, "species_taxid": 266, "relation_to_type": "type", "validated": true, "ani": 77.2736, "matched_fragments": 316, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus denitrificans", "strain": "strain=DSM 413", "accession": "GCA_900100045.1", "taxid": 266, "species_taxid": 266, "relation_to_type": "type", "validated": true, "ani": 77.2605, "matched_fragments": 327, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mangrovicoccus ximenensis", "strain": "strain=T1lg56", "accession": "GCA_003056725.1", "taxid": 1911570, "species_taxid": 1911570, "relation_to_type": "type", "validated": true, "ani": 77.2172, "matched_fragments": 285, "total_fragments": 1173, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 79.63, "contamination": 2.08, "strain_heterogeneity": 100.0 }, "gtdb_result": [ { "accession": "GCF_900142185.1", "gtdb_species": "s__Lutimaribacter pacificus", "ani": 78.9059, "matched_fragments": 447, "total_fragments": 1173, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Lutimaribacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014196965.1", "gtdb_species": "s__Actibacterium_A naphthalenivorans", "ani": 78.7004, "matched_fragments": 404, "total_fragments": 1173, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Actibacterium_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.28", "min_intra_species_ani": "97.38", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.89", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_002285435.1", "gtdb_species": "s__Actibacterium ureilyticum", "ani": 78.617, "matched_fragments": 459, "total_fragments": 1173, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Actibacterium", "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_018139985.1", "gtdb_species": "s__JAGSOU01 sp018139985", "ani": 78.5518, "matched_fragments": 442, "total_fragments": 1173, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__JAGSOU01", "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": "GCA_017792445.1", "gtdb_species": "s__Rhodobacter_B sp017792445", "ani": 78.484, "matched_fragments": 507, "total_fragments": 1173, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Rhodobacter_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": "GCA_019061145.1", "gtdb_species": "s__ASV31 sp019061145", "ani": 78.4581, "matched_fragments": 433, "total_fragments": 1173, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__ASV31", "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_000744955.1", "gtdb_species": "s__Actibacterium sp000744955", "ani": 78.4538, "matched_fragments": 421, "total_fragments": 1173, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Actibacterium", "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_000011965.2", "gtdb_species": "s__Ruegeria_B pomeroyi", "ani": 78.4261, "matched_fragments": 444, 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"gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Muriiphilus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.34", "min_intra_species_ani": "98.34", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001078595.1", "gtdb_species": "s__Rhodobacter_B lobularis", "ani": 78.2887, "matched_fragments": 510, "total_fragments": 1173, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Rhodobacter_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_018219815.1", "gtdb_species": "s__Thalassobius aquimarinus", "ani": 78.2198, "matched_fragments": 411, "total_fragments": 1173, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Thalassobius", "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_900100005.1", "gtdb_species": "s__Lutimaribacter saemankumensis", "ani": 78.19, "matched_fragments": 375, "total_fragments": 1173, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Lutimaribacter", "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_900142665.1", "gtdb_species": "s__Roseovarius pacificus", "ani": 78.1642, "matched_fragments": 349, "total_fragments": 1173, "gtdb_taxonomy": 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