{ "type": "genome", "identifier": "GCA_011772305.1", "organism": "Gammaproteobacteria bacterium", "title": "Gammaproteobacteria bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "Maharaja Krishnakumarsinhji Bhavnagar University", "publication": [ {} ], "properties": { "assembly_accession": "GCA_011772305.1", "bioproject": "PRJNA598413", "biosample": "SAMN13684457", "wgs_master": "WVZX00000000.1", "refseq_category": "na", "taxid": "1913989", "species_taxid": "1913989", "organism_name": "Gammaproteobacteria bacterium", "infraspecific_name": "", "isolate": "CS4-C084", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/03/30", "asm_name": "ASM1177230v1", "submitter": "Maharaja Krishnakumarsinhji Bhavnagar University", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/011/772/305/GCA_011772305.1_ASM1177230v1", "excluded_from_refseq": "derived from metagenome; genus undefined", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-03-30", "dateModified": "2020-03-30", "datePublished": "2020-03-30", "_annotation": { "sample_count": 1, "sample_organism": [ "Gammaproteobacteria bacterium" ], "sample_taxid": [ "1913989" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "India: Gulf of Khambhat" ], "sample_host_location_id": [], "data_size": "1.057 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 79.17, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3803886", "Number of Sequences": "99", "Longest Sequences (bp)": "218242", "N50 (bp)": "74003", "Gap Ratio (%)": "0.974477", "GCcontent (%)": "65.1", "Number of CDSs": "3556", "Average Protein Length": "310.9", "Coding Ratio (%)": "87.2", "Number of rRNAs": "1", "Number of tRNAs": "39", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Thioalbus denitrificans", "strain": "strain=DSM 26407", "accession": "GCA_003337735.1", "taxid": 547122, "species_taxid": 547122, "relation_to_type": "type", "validated": true, "ani": 76.6013, "matched_fragments": 157, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Inmirania thermothiophila", "strain": "strain=DSM 100275", "accession": "GCA_003751635.1", "taxid": 1750597, "species_taxid": 1750597, "relation_to_type": "type", "validated": true, "ani": 76.3977, "matched_fragments": 186, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thioalkalivibrio denitrificans", "strain": "strain=ALJD", "accession": "GCA_002000365.1", "taxid": 108003, "species_taxid": 108003, "relation_to_type": "type", "validated": true, "ani": 76.2932, "matched_fragments": 78, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thioalkalivibrio thiocyanodenitrificans", "strain": "strain=ARhD 1", "accession": "GCA_000378965.1", "taxid": 243063, "species_taxid": 243063, "relation_to_type": "type", "validated": true, "ani": 76.142, "matched_fragments": 73, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thioalkalivibrio sulfidiphilus", "strain": "strain=HL-EbGR7", "accession": "GCA_000021985.1", "taxid": 1033854, "species_taxid": 1033854, "relation_to_type": "type", "validated": true, "ani": 76.1406, "matched_fragments": 103, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thioflavicoccus mobilis", "strain": "strain=8321", "accession": "GCA_000327045.1", "taxid": 80679, "species_taxid": 80679, "relation_to_type": "type", "validated": true, "ani": 76.1374, "matched_fragments": 99, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Immundisolibacter cernigliae", "strain": "strain=TR3.2", "accession": "GCA_001697225.1", "taxid": 1810504, "species_taxid": 1810504, "relation_to_type": "type", "validated": true, "ani": 76.1243, "matched_fragments": 105, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thiohalobacter thiocyanaticus", "strain": "strain=Hrh1", "accession": "GCA_003932505.1", "taxid": 585455, "species_taxid": 585455, "relation_to_type": "type", "validated": true, "ani": 76.1019, "matched_fragments": 121, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thiohalocapsa marina", "strain": "strain=DSM 19078", "accession": "GCA_008632335.1", "taxid": 424902, "species_taxid": 424902, "relation_to_type": "type", "validated": true, "ani": 76.056, "matched_fragments": 100, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas thermotolerans", "strain": "strain=DSM 14292", "accession": "GCA_000364625.1", "taxid": 157784, "species_taxid": 157784, "relation_to_type": "type", "validated": true, "ani": 75.9729, "matched_fragments": 91, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Plasticicumulans lactativorans", "strain": "strain=DSM 25287", "accession": "GCA_004341245.1", "taxid": 1133106, "species_taxid": 1133106, "relation_to_type": "type", "validated": true, "ani": 75.8945, "matched_fragments": 190, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thiohalospira halophila", "strain": "strain=HL 3", "accession": "GCA_900112605.1", "taxid": 381300, "species_taxid": 381300, "relation_to_type": "type", "validated": true, "ani": 75.8621, "matched_fragments": 77, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halorhodospira halophila", "strain": "strain=SL1", "accession": "GCA_000015585.1", "taxid": 1053, "species_taxid": 1053, "relation_to_type": "suspected-type", "validated": true, "ani": 75.8473, "matched_fragments": 84, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Allochromatium tepidum", "strain": "strain=NZ", "accession": "GCA_018409545.1", "taxid": 553982, "species_taxid": 553982, "relation_to_type": "type", "validated": true, "ani": 75.8286, "matched_fragments": 103, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas sagittaria", "strain": "strain=JCM 18195", "accession": "GCA_900115715.1", "taxid": 1135990, "species_taxid": 1135990, "relation_to_type": "type", "validated": true, "ani": 75.7309, "matched_fragments": 111, "total_fragments": 1222, "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": 75.7141, "matched_fragments": 81, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Fulvimonas soli", "strain": "strain=LMG 19981", "accession": "GCA_006352285.1", "taxid": 155197, "species_taxid": 155197, "relation_to_type": "type", "validated": true, "ani": 75.6679, "matched_fragments": 139, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas linyingensis", "strain": "strain=LMG 25967", "accession": "GCA_900109175.1", "taxid": 915471, "species_taxid": 915471, "relation_to_type": "type", "validated": true, "ani": 75.6352, "matched_fragments": 112, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Fulvimonas soli", "strain": "strain=DSM 14263", "accession": "GCA_003148905.1", "taxid": 155197, "species_taxid": 155197, "relation_to_type": "type", "validated": true, "ani": 75.6209, "matched_fragments": 150, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas aromaticivorans", "strain": "strain=MAP12", "accession": "GCA_019097855.1", "taxid": 2849492, "species_taxid": 2849492, "relation_to_type": "type", "validated": true, "ani": 75.606, "matched_fragments": 102, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Solimonas fluminis", "strain": "strain=HR-BB", "accession": "GCA_002930645.1", "taxid": 2086571, "species_taxid": 2086571, "relation_to_type": "type", "validated": true, "ani": 75.5765, "matched_fragments": 92, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter tataouinensis", "strain": "strain=TTB310", "accession": "GCA_000215705.1", "taxid": 94132, "species_taxid": 94132, "relation_to_type": "type", "validated": true, "ani": 75.5212, "matched_fragments": 113, "total_fragments": 1222, "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": 75.4261, "matched_fragments": 61, "total_fragments": 1222, "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": 75.4214, "matched_fragments": 59, "total_fragments": 1222, "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": 75.42, "matched_fragments": 59, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas psychrotolerans", "strain": "strain=DSM 15758", "accession": "GCA_012985915.1", "taxid": 237610, "species_taxid": 237610, "relation_to_type": "suspected-type", "validated": true, "ani": 75.4109, "matched_fragments": 83, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas psychrotolerans", "strain": "strain=DSM 15758", "accession": "GCA_900102665.1", "taxid": 237610, "species_taxid": 237610, "relation_to_type": "suspected-type", "validated": true, "ani": 75.399, "matched_fragments": 84, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas oryzihabitans", "strain": "strain=DSM 6835", "accession": "GCA_012986195.1", "taxid": 47885, "species_taxid": 47885, "relation_to_type": "suspected-type", "validated": true, "ani": 75.381, "matched_fragments": 76, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acidovorax wautersii", "strain": "strain=DSM 27981", "accession": "GCA_900113035.1", "taxid": 1177982, "species_taxid": 1177982, "relation_to_type": "type", "validated": true, "ani": 75.2189, "matched_fragments": 95, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudorhodoferax soli", "strain": "strain=DSM 21634", "accession": "GCA_003337555.1", "taxid": 545864, "species_taxid": 545864, "relation_to_type": "type", "validated": true, "ani": 75.0268, "matched_fragments": 120, "total_fragments": 1222, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 79.17, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_011775625.1", "gtdb_species": "s__JAABYT01 sp011775625", "ani": 99.7339, "matched_fragments": 931, "total_fragments": 1222, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__HK1;f__HK1;g__JAABYT01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.82", "min_intra_species_ani": "99.55", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.76", "num_clustered_genomes": 18, "status": "conclusive" }, { "accession": "GCA_009937425.1", "gtdb_species": "s__JAABYT01 sp009937425", "ani": 78.3561, "matched_fragments": 545, "total_fragments": 1222, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__HK1;f__HK1;g__JAABYT01", "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_011051655.1", "gtdb_species": "s__DRKS01 sp011051655", "ani": 76.6557, "matched_fragments": 77, "total_fragments": 1222, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Chromatiales;f__Sedimenticolaceae;g__DRKS01", "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_003337735.1", "gtdb_species": "s__Thioalbus denitrificans", "ani": 76.6013, "matched_fragments": 157, "total_fragments": 1222, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__DSM-26407;f__DSM-26407;g__Thioalbus", "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_014762505.1", "gtdb_species": "s__SpSt-1174 sp014762505", "ani": 76.4726, "matched_fragments": 104, "total_fragments": 1222, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__SpSt-1174;f__SpSt-1174;g__SpSt-1174", "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_011051715.1", "gtdb_species": "s__HyVt-443 sp011051715", "ani": 76.4155, "matched_fragments": 93, "total_fragments": 1222, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Chromatiales;f__Sedimenticolaceae;g__HyVt-443", "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_002000365.1", "gtdb_species": "s__Thioalkalivibrio_A denitrificans", "ani": 76.318, "matched_fragments": 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"d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Chromatiales;f__Chromatiaceae;g__Allochromatium", "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_018240295.1", "gtdb_species": "s__Plasticicumulans sp003962905", "ani": 75.8127, "matched_fragments": 150, "total_fragments": 1222, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Competibacterales;f__Competibacteraceae;g__Plasticicumulans", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.50", "min_intra_species_ani": "98.50", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.84", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001650425.1", "gtdb_species": "s__Pseudomonas_B oryzihabitans_B", "ani": 75.7238, "matched_fragments": 70, "total_fragments": 1222, "gtdb_taxonomy": 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