[ { "id": 3, "organism": "Anaerotruncus colihominis DSM 17241", "description": "Anaerotruncus colihominis DSM 17241", "qualifiers": { "sop": "http://hmpdacc.org/doc/CommonGeneAnnotation_SOP.pdf", "host": "Homo sapiens", "strain": "DSM 17241", "assembly": "PCAP", "projectName": "Anaerotruncus colihominis DSM 17241", "project_type": "Reference Genome", "estimatedSize": "3719000", "type-material": "type strain of Anaerotruncus colihominis", "collectionDate": "not determined", "hostTaxonomyID": "9606", "isolationSource": "missing", "sequencingMethod": "454-GS20, Sanger", "investigationType": "missing", "numberOfReplicons": "not determined", "geographicLocation": "not determined", "environmentalMedium": "biological product [ENVO:02000043]", "environmentalPackage": "missing", "latitudeAndLongitude": "not determined", "nucleicAcidExtraction": "not determined", "misc_param:HMPBodySite": "not determined", "misc_param:HMPSupersite": "gastrointestinal_tract", "referenceForBiomaterial": "not determined", "sourceMaterialIdentifiers": "DSM 17241, CCUG 45055, CIP 107754, WAL 14565", "isolationAndGrowthCondition": "not determined", "broad-scaleEnvironmentalContext": "terrestrial biome [ENVO:00000446]", "local-scaleEnvironmentalContext": "human-associated habitat [ENVO:00009003]", "finishingStrategy(depthOfCoverage)": "Level 3: Improved-High-Quality Draft6x;36" } }, { "id": 4, "organism": "Bacteroides stercoris ATCC 43183", "description": "MIGS Cultured Bacterial/Archaeal sample from Bacteroides stercoris ATCC 43183", "qualifiers": { "sop": "http://hmpdacc.org/doc/CommonGeneAnnotation_SOP.pdf", "host": "Homo sapiens", "strain": "ATCC 43183", "assembly": "Newbler, PCAP", "projectName": "Bacteroides stercoris ATCC 43183", "project_type": "Reference Genome", "estimatedSize": "4009000", "type-material": "type strain of Bacteroides stercoris", "collectionDate": "not determined", "hostTaxonomyID": "9606", "isolationSource": "missing", "sequencingMethod": "454-GS20, Sanger", "investigationType": "missing", "numberOfReplicons": "not determined", "geographicLocation": "not determined", "environmentalMedium": "biological product [ENVO:02000043]", "environmentalPackage": "missing", "latitudeAndLongitude": "not determined", "nucleicAcidExtraction": "not determined", "misc_param:HMPBodySite": "not determined", "misc_param:HMPSupersite": "gastrointestinal_tract", "referenceForBiomaterial": "not determined", "sourceMaterialIdentifiers": "ATCC 43183, CIP 104203T, JCM 9496", "isolationAndGrowthCondition": "not determined", "broad-scaleEnvironmentalContext": "terrestrial biome [ENVO:00000446]", "local-scaleEnvironmentalContext": "human-associated habitat [ENVO:00009003]", "finishingStrategy(depthOfCoverage)": "Level 3: Improved-High-Quality Draft8.8x;41" } }, { "id": 7, "organism": "Erysipelatoclostridium ramosum DSM 1402", "description": "Clostridium ramosum DSM 1402", "qualifiers": { "sop": "http://hmpdacc.org/doc/CommonGeneAnnotation_SOP.pdf", "host": "Homo sapiens", "strain": "DSM 1402", "assembly": "PCAP", "projectName": "Clostridium ramosum VPI 0427, DSM 1402", "project_type": "Reference Genome", "estimatedSize": "3235000", "type-material": "type strain of Erysipelatoclostridium ramosum", "collectionDate": "not determined", "hostTaxonomyID": "9606", "isolationSource": "missing", "sequencingMethod": "454-GS20, Sanger", "investigationType": "missing", "numberOfReplicons": "not determined", "geographicLocation": "not determined", "environmentalMedium": "biological product [ENVO:02000043]", "environmentalPackage": "missing", "latitudeAndLongitude": "not determined", "nucleicAcidExtraction": "not determined", "misc_param:HMPBodySite": "not determined", "misc_param:HMPSupersite": "gastrointestinal_tract", "referenceForBiomaterial": "not determined", "sourceMaterialIdentifiers": "DSM 1402, ATCC 25582, NCIB 10673", "isolationAndGrowthCondition": "not determined", "broad-scaleEnvironmentalContext": "terrestrial biome [ENVO:00000446]", "local-scaleEnvironmentalContext": "human-associated habitat [ENVO:00009003]", "finishingStrategy(depthOfCoverage)": "Level 3: Improved-High-Quality Draft10x;36" } }, { "id": 8, "organism": "Dorea formicigenerans ATCC 27755", "description": "MIGS Cultured Bacterial/Archaeal sample from Dorea formicigenerans ATCC 27755", "qualifiers": { "sop": "http://hmpdacc.org/doc/CommonGeneAnnotation_SOP.pdf", "host": "Homo sapiens", "strain": "ATCC 27755", "assembly": "PCAP", "projectName": "Dorea formicigenerans ATCC 27755", "project_type": "Reference Genome", "estimatedSize": "3186000", "type-material": "type strain of Dorea formicigenerans", "collectionDate": "not determined", "hostTaxonomyID": "9606", "isolationSource": "missing", "sequencingMethod": "454, Sanger", "investigationType": "missing", "numberOfReplicons": "not determined", "geographicLocation": "not determined", "environmentalMedium": "biological product [ENVO:02000043]", "environmentalPackage": "missing", "latitudeAndLongitude": "not determined", "nucleicAcidExtraction": "not determined", "misc_param:HMPBodySite": "not determined", "misc_param:HMPSupersite": "gastrointestinal_tract", "referenceForBiomaterial": "not determined", "sourceMaterialIdentifiers": "ATCC 27755", "isolationAndGrowthCondition": "not determined", "broad-scaleEnvironmentalContext": "terrestrial biome [ENVO:00000446]", "local-scaleEnvironmentalContext": "human-associated habitat [ENVO:00009003]", "finishingStrategy(depthOfCoverage)": "Level 3: Improved-High-Quality Draft7.5x;16" } }, { "id": 12, "organism": "Catenibacterium mitsuokai DSM 15897", "description": "Catenibacterium mitsuokai DSM 15897", "qualifiers": { "sop": "http://hmpdacc.org/doc/CommonGeneAnnotation_SOP.pdf", "host": "Homo sapiens", "strain": "DSM 15897", "assembly": "Newbler v. 2.0.00.20", "projectName": "Catenibacterium mitsuokai DSM 15897", "project_type": "Reference Genome", "estimatedSize": "2671000", "type-material": "type strain of Catenibacterium mitsuokai", "collectionDate": "not determined", "hostTaxonomyID": "9606", "isolationSource": "missing", "sequencingMethod": "454-GS-FLX", "investigationType": "missing", "numberOfReplicons": "not determined", "geographicLocation": "not determined", "environmentalMedium": "biological product [ENVO:02000043]", "environmentalPackage": "missing", "latitudeAndLongitude": "not determined", "nucleicAcidExtraction": "not determined", "misc_param:HMPBodySite": "not determined", "misc_param:HMPSupersite": "gastrointestinal_tract", "referenceForBiomaterial": "not determined", "sourceMaterialIdentifiers": "DSM 15897, JCM 10609", "isolationAndGrowthCondition": "not determined", "broad-scaleEnvironmentalContext": "terrestrial biome [ENVO:00000446]", "local-scaleEnvironmentalContext": "human-associated habitat [ENVO:00009003]", "finishingStrategy(depthOfCoverage)": "Level 2: High-Quality Draft46.6x;475" } }, { "id": 14, "organism": "Bacteroides coprocola DSM 17136", "description": "Bacteroides coprocola DSM 17136", "qualifiers": { "sop": "http://hmpdacc.org/doc/CommonGeneAnnotation_SOP.pdf", "host": "Homo sapiens", "strain": "DSM 17136", "assembly": "PCAP", "projectName": "Bacteroides coprocola M16, DSM 17136", "project_type": "Reference Genome", "estimatedSize": "4296000", "type-material": "type strain of Bacteroides coprocola", "collectionDate": "not determined", "hostTaxonomyID": "9606", "isolationSource": "missing", "sequencingMethod": "454-GS20, Sanger", "investigationType": "missing", "numberOfReplicons": "not determined", "geographicLocation": "not determined", "environmentalMedium": "biological product [ENVO:02000043]", "environmentalPackage": "missing", "latitudeAndLongitude": "not determined", "nucleicAcidExtraction": "not determined", "misc_param:HMPBodySite": "not determined", "misc_param:HMPSupersite": "gastrointestinal_tract", "referenceForBiomaterial": "not determined", "sourceMaterialIdentifiers": "DSM 17136, JCM 12979", "isolationAndGrowthCondition": "not determined", "broad-scaleEnvironmentalContext": "terrestrial biome [ENVO:00000446]", "local-scaleEnvironmentalContext": "human-associated habitat [ENVO:00009003]", "finishingStrategy(depthOfCoverage)": "Level 3: Improved-High-Quality Draft8.8x;569" } }, { "id": 15, "organism": "Bacteroides intestinalis DSM 17393", "description": "Bacteroides intestinalis DSM 17393", "qualifiers": { "sop": "http://hmpdacc.org/doc/CommonGeneAnnotation_SOP.pdf", "host": "Homo sapiens", "strain": "DSM 17393", "assembly": "Newbler, PCAP", "projectName": "Bacteroides intestinalis 341, DSM 17393", "project_type": "Reference Genome", "estimatedSize": "6053000", "type-material": "type strain of Bacteroides intestinalis", "collectionDate": "not determined", "hostTaxonomyID": "9606", "isolationSource": "missing", "sequencingMethod": "454-GS20, Sanger", "investigationType": "missing", "numberOfReplicons": "not determined", "geographicLocation": "not determined", "environmentalMedium": "biological product [ENVO:02000043]", "environmentalPackage": "missing", "latitudeAndLongitude": "not determined", "nucleicAcidExtraction": "not determined", "misc_param:HMPBodySite": "not determined", "misc_param:HMPSupersite": "gastrointestinal_tract", "referenceForBiomaterial": "not determined", "sourceMaterialIdentifiers": "DSM 17393, JCM 13265", "isolationAndGrowthCondition": "not determined", "broad-scaleEnvironmentalContext": "terrestrial biome [ENVO:00000446]", "local-scaleEnvironmentalContext": "human-associated habitat [ENVO:00009003]", "finishingStrategy(depthOfCoverage)": "Level 3: Improved-High-Quality Draft7x;9" } }, { "id": 22, "organism": "[Ruminococcus] lactaris ATCC 29176", "description": "MIGS Cultured Bacterial/Archaeal sample from Ruminococcus lactaris ATCC 29176", "qualifiers": { "sop": "http://hmpdacc.org/doc/CommonGeneAnnotation_SOP.pdf", "host": "Homo sapiens", "strain": "ATCC 29176", "assembly": "Newbler, PCAP", "projectName": "Ruminococcus lactaris ATCC 29176", "project_type": "Reference Genome", "estimatedSize": "2730000", "type-material": "type strain of Ruminococcus lactaris", "collectionDate": "not determined", "hostTaxonomyID": "9606", "isolationSource": "missing", "sequencingMethod": "Sanger, 454-GS20", "cultureCollection": "ATCC:29176", "investigationType": "missing", "numberOfReplicons": "not determined", "geographicLocation": "not determined", "environmentalMedium": "biological product [ENVO:02000043]", "environmentalPackage": "missing", "latitudeAndLongitude": "not determined", "nucleicAcidExtraction": "not determined", "misc_param:HMPBodySite": "not determined", "misc_param:HMPSupersite": "gastrointestinal_tract", "referenceForBiomaterial": "not determined", "sourceMaterialIdentifiers": "ATCC 29176", "isolationAndGrowthCondition": "not determined", "broad-scaleEnvironmentalContext": "terrestrial biome [ENVO:00000446]", "local-scaleEnvironmentalContext": "human-associated habitat [ENVO:00009003]", "finishingStrategy(depthOfCoverage)": "Level 3: Improved-High-Quality Draft11x;81" } }, { "id": 25, "organism": "Marvinbryantia formatexigens DSM 14469", "description": "Marvinbryantia formatexigens DSM 14469", "qualifiers": { "sop": "http://hmpdacc.org/doc/CommonGeneAnnotation_SOP.pdf", "host": "Homo sapiens", "strain": "DSM 14469", "assembly": "Newbler v. 2.0.00.20", "projectName": "Marvinbryantia formatexigens I-52, DSM 14469", "project_type": "Reference Genome", "estimatedSize": "4500000", "type-material": "type strain of Marvinbryantia formatexigens", "collectionDate": "not determined", "hostTaxonomyID": "9606", "isolationSource": "missing", "sequencingMethod": "454-GS-FLX, Sanger", "investigationType": "missing", "numberOfReplicons": "not determined", "geographicLocation": "not determined", "environmentalMedium": "biological product [ENVO:02000043]", "environmentalPackage": "missing", "latitudeAndLongitude": "not determined", "nucleicAcidExtraction": "not determined", "misc_param:HMPBodySite": "not determined", "misc_param:HMPSupersite": "gastrointestinal_tract", "referenceForBiomaterial": "not determined", "sourceMaterialIdentifiers": "DSM 14469", "isolationAndGrowthCondition": "not determined", "broad-scaleEnvironmentalContext": "terrestrial biome [ENVO:00000446]", "local-scaleEnvironmentalContext": "human-associated habitat [ENVO:00009003]", "finishingStrategy(depthOfCoverage)": "Level 3: Improved-High-Quality Draft14.1x;123" } }, { "id": 28, "organism": "Bacteroides plebeius DSM 17135", "description": "Bacteroides plebeius DSM 17135", "qualifiers": { "sop": "http://hmpdacc.org/doc/CommonGeneAnnotation_SOP.pdf", "host": "Homo sapiens", "strain": "DSM 17135", "assembly": "Newbler, PCAP", "projectName": "Bacteroides plebeius M12, DSM 17135", "project_type": "Reference Genome", "estimatedSize": "4421000", "type-material": "type strain of Bacteroides plebeius", "collectionDate": "not determined", "hostTaxonomyID": "9606", "isolationSource": "missing", "sequencingMethod": "454-GS20, Sanger", "investigationType": "missing", "numberOfReplicons": "not determined", "geographicLocation": "not determined", "environmentalMedium": "biological product [ENVO:02000043]", "environmentalPackage": "missing", "latitudeAndLongitude": "not determined", "nucleicAcidExtraction": "not determined", "misc_param:HMPBodySite": "not determined", "misc_param:HMPSupersite": "gastrointestinal_tract", "referenceForBiomaterial": "not determined", "sourceMaterialIdentifiers": "DSM 17135", "isolationAndGrowthCondition": "not determined", "broad-scaleEnvironmentalContext": "terrestrial biome [ENVO:00000446]", "local-scaleEnvironmentalContext": "human-associated habitat [ENVO:00009003]", "finishingStrategy(depthOfCoverage)": "Level 3: Improved-High-Quality Draft7.9x;30" } }, { "id": 29, "organism": "Bacteroides dorei DSM 17855", "description": "Bacteroides dorei DSM 17855", "qualifiers": { "sop": "http://hmpdacc.org/doc/CommonGeneAnnotation_SOP.pdf", "host": "Homo sapiens", "strain": "DSM 17855", "assembly": "Newbler v. post-1.1.03-Dev_01252007", "projectName": "Bacteroides dorei DSM 17855", "project_type": "Reference Genome", "estimatedSize": "5488000", "type-material": "type strain of Bacteroides dorei", "collectionDate": "not determined", "hostTaxonomyID": "9606", "isolationSource": "missing", "sequencingMethod": "454-GS-FLX", "investigationType": "missing", "numberOfReplicons": "not determined", "geographicLocation": "not determined", "environmentalMedium": "biological product [ENVO:02000043]", "environmentalPackage": "missing", "latitudeAndLongitude": "not determined", "nucleicAcidExtraction": "not determined", "misc_param:HMPBodySite": "not determined", "misc_param:HMPSupersite": "gastrointestinal_tract", "referenceForBiomaterial": "not determined", "sourceMaterialIdentifiers": "DSM 17855, JCM 13471", "isolationAndGrowthCondition": "not determined", "broad-scaleEnvironmentalContext": "terrestrial biome [ENVO:00000446]", "local-scaleEnvironmentalContext": "human-associated habitat [ENVO:00009003]", "finishingStrategy(depthOfCoverage)": "Level 2: High-Quality Draft38.4x;288" } }, { "id": 30, "organism": "Methylorubrum extorquens PA1", "description": "Generic sample from Methylobacterium extorquens PA1", "qualifiers": { "strain": "PA1" } }, { "id": 31, "organism": "Methanococcus maripaludis C7", "description": "Generic sample from Methanococcus maripaludis C7", "qualifiers": { "strain": "C7" } }, { "id": 32, "organism": "Nitrosopumilus maritimus SCM1", "description": "Generic sample from Nitrosopumilus maritimus SCM1", "qualifiers": { "strain": "SCM1", "type-material": "type strain of Nitrosopumilus maritimus" } }, { "id": 34, "organism": "Ralstonia pickettii 12D", "description": "Generic sample from Ralstonia pickettii 12D", "qualifiers": { "strain": "12D" } }, { "id": 36, "organism": "[Bacillus] selenitireducens MLS10", "description": "Generic sample from Bacillus selenitireducens MLS10", "qualifiers": { "strain": "MLS10", "type-material": "type strain of Bacillus selenitireducens" } }, { "id": 37, "organism": "Methylorubrum extorquens CM4", "description": "Generic sample from Methylobacterium chloromethanicum CM4", "qualifiers": { "strain": "CM4", "type-material": "type strain of Methylobacterium chloromethanicum" } }, { "id": 38, "organism": "Methylorubrum populi BJ001", "description": "Generic sample from Methylobacterium populi BJ001", "qualifiers": { "strain": "BJ001", "type-material": "type strain of Methylorubrum populi" } }, { "id": 39, "organism": "Desulfatibacillum aliphaticivorans", "description": "Generic sample from Desulfatibacillum alkenivorans AK-01", "qualifiers": { "note": "Originally submitted as Desulfatibacillum alkenivorans AK-01 but changed in April 2019 because of ANI results to Desulfatibacillum aliphaticivorans", "strain": "AK-1" } }, { "id": 40, "organism": "Methanococcus voltae A3", "description": "Generic sample from Methanococcus voltae A3", "qualifiers": { "strain": "A3" } }, { "id": 41, "organism": "Anaeromyxobacter sp. K", "description": "Generic sample from Anaeromyxobacter sp. K", "qualifiers": { "strain": "K" } }, { "id": 42, "organism": "Elusimicrobium minutum Pei191", "description": "Generic sample from Elusimicrobium minutum Pei191", "qualifiers": { "strain": "Pei191", "type-material": "type strain of Elusimicrobium minutum" } }, { "id": 43, "organism": "Methylobacterium nodulans ORS 2060", "description": "Generic sample from Methylobacterium nodulans ORS 2060", "qualifiers": { "strain": "ORS 2060", "type-material": "type strain of Methylobacterium nodulans" } }, { "id": 44, "organism": "Burkholderia ambifaria MEX-5", "description": "Generic sample from Burkholderia ambifaria MEX-5", "qualifiers": { "strain": "MEX-5" } }, { "id": 45, "organism": "Methylocella silvestris BL2", "description": "Generic sample from Methylocella silvestris BL2", "qualifiers": { "strain": "BL2", "type-material": "type strain of Methylocella silvestris" } }, { "id": 46, "organism": "Burkholderia ambifaria IOP40-10", "description": "Generic sample from Burkholderia ambifaria IOP40-10", "qualifiers": { "strain": "IOP40-10" } }, { "id": 47, "organism": "Paenibacillus sp. JDR-2", "description": "Generic sample from Paenibacillus sp. JDR-2", "qualifiers": { "strain": "JDR-2" } }, { "id": 48, "organism": "Thauera sp. MZ1T", "description": "Generic sample from Thauera sp. MZ1T", "qualifiers": { "strain": "MZ1T" } }, { "id": 49, "organism": "Rhodopseudomonas palustris TIE-1", "description": "Generic sample from Rhodopseudomonas palustris TIE-1", "qualifiers": { "strain": "TIE-1" } }, { "id": 50, "organism": "Anaeromyxobacter dehalogenans 2CP-1", "description": "Generic sample from Anaeromyxobacter dehalogenans 2CP-1", "qualifiers": { "strain": "2CP1" } } ]