{"sha": "2aa180baef3c5e313da1e7f09c83ce2c0467b457", "data": {"nexml": {"@about": "#study", "@generator": "Open Tree API", "@id": "study", "@nexml2json": "1.2.1", "@nexmljson": "http://purl.org/opentree/nexson", "@version": "0.9", "@xmlns": {"$": "http://www.nexml.org/2009", "nex": "http://www.nexml.org/2009", "ot": "http://purl.org/opentree-terms#", "xhtml": "http://www.w3.org/1999/xhtml/vocab#", "xsd": "http://www.w3.org/2001/XMLSchema#", "xsi": "http://www.w3.org/2001/XMLSchema-instance"}, "^ot:agents": {"agent": [{"@description": "Open Tree NexSON validation", "@id": "peyotl-validator", "@name": "api.opentreeoflife.org/validate", "@url": "https://github.com/OpenTreeOfLife/peyotl", "@version": "0.0.4a", "invocation": {"commandLine": [], "otherProperty": [{"name": "pythonVersion", "value": "3.10.12"}, {"name": "pythonImplementation", "value": "CPython"}]}}, {"@description": "Web-based interface for submitting, editing, and reviewing studies in the Open Tree of Life project.", "@id": "opentree-curation-webapp", "@name": "OpenTree curation webapp", "@url": "https://github.com/OpenTreeOfLife/opentree", "@version": "0.0.0"}]}, "^ot:annotationEvents": {"annotation": [{"@dateCreated": "2025-02-20T02:28:01.413Z", "@description": "Aids for mapping study OTUs to OTT taxa", "@id": "otu-mapping-hints", "@passedChecks": true, "@preserve": true, "@wasAssociatedWithAgentId": "opentree-curation-webapp", "message": [{"@code": "OTU_MAPPING_HINTS", "@humanMessageType": "NONE", "@severity": "INFO", "data": {"autoAcceptExactMatches": true, "searchContext": {"$": "Insects"}, "substitutions": {"substitution": [{"@active": false, "@valid": true, "new": {"$": ""}, "old": {"$": ""}}]}, "useFuzzyMatching": false}, "refersTo": {"@top": {"$": "meta"}}}]}, {"@dateCreated": "2025-02-20T02:28:01.413Z", "@description": "Describes external namesets merged into this study", "@id": "merged-namesets-metadata", "@passedChecks": true, "@preserve": true, "@wasAssociatedWithAgentId": "opentree-curation-webapp", "message": [{"@code": "MERGED_NAMESET_INFO", "@humanMessageType": "NONE", "@severity": "INFO", "data": {"namesets": {"nameset": []}}, "refersTo": {"@top": {"$": "meta"}}}]}, {"@dateCreated": "2025-02-20T02:28:01.413Z", "@description": "Describes supporting data files for this study", "@id": "supporting-files-metadata", "@passedChecks": true, "@preserve": true, "@wasAssociatedWithAgentId": "opentree-curation-webapp", "message": [{"@code": "SUPPORTING_FILE_INFO", "@humanMessageType": "NONE", "@severity": "INFO", "data": {"@movedToPermanentArchive": false, "files": {"file": [{"@filename": "Borkent2014Ceratopogonidae.nwk", "@size": 479, "@type": "newick", "@url": "/curator/download/supporting_files.doc.a8372908df751e54.426f726b656e743230313443657261746f706f676f6e696461652e6e776b.nwk", "description": {"$": "Source data for tree(s) 'tree1'"}, "sourceForTree": [{"$": "tree1"}]}, {"@filename": "image.png", "@size": 741, "@type": "", "@url": "/curator/supporting_files/download/supporting_files.doc.a145e91b4b9e79d0.696d6167652e706e67.png", "description": {"$": ""}, "sourceForTree": []}, {"@filename": "image.png", "@size": 1239, "@type": "", "@url": "/curator/supporting_files/download/supporting_files.doc.b5b93699d5d66f58.696d6167652e706e67.png", "description": {"$": ""}, "sourceForTree": []}, {"@filename": "image.png", "@size": 1387, "@type": "", "@url": "/curator/supporting_files/download/supporting_files.doc.ad05d3b729916ad8.696d6167652e706e67.png", "description": {"$": ""}, "sourceForTree": []}, {"@filename": "image.png", "@size": 2222, "@type": "", "@url": "/curator/supporting_files/download/supporting_files.doc.a88b0599d29d804e.696d6167652e706e67.png", "description": {"$": ""}, "sourceForTree": []}, {"@filename": "image.png", "@size": 3066, "@type": "", "@url": "/curator/supporting_files/download/supporting_files.doc.8189c68fe32396b9.696d6167652e706e67.png", "description": {"$": ""}, "sourceForTree": []}]}}, "refersTo": {"@top": {"$": "meta"}}}]}, {"@id": "peyotl-validator-event", "@description": "Open Tree NexSON validation", "@wasAssociatedWithAgentId": "peyotl-validator", "@passedChecks": true, "@preserve": false, "message": [{"@code": "MISSING_OPTIONAL_KEY", "data": ["^ot:ottId"], "refersTo": {"@top": "otus", "@idref": "otu17", "@otusID": "otus1", "@otuID": "otu17"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["^ot:comment"], "refersTo": {"@top": "nexml", "@idref": "study"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["highestMintedElementIDs"], "refersTo": {"@top": "nexml", "@idref": "study"}, "@severity": "WARNING"}, {"@code": "MISSING_OPTIONAL_KEY", "data": ["^ot:branchLengthTimeUnit"], "refersTo": {"@top": "trees", "@idref": "tree1", "@treesID": "trees1", "@treeID": "tree1"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["^ot:nodeLabelMode", "^ot:nodeLabelTimeUnit", "^ot:reasonsToExcludeFromSynthesis"], "refersTo": {"@top": "trees", "@idref": "tree1", "@treesID": "trees1", "@treeID": "tree1"}, "@severity": "WARNING"}]}]}, "^ot:candidateTreeForSynthesis": [], "^ot:comment": "", "^ot:curatorName": ["dchesters"], "^ot:dataDeposit": {"@href": ""}, "^ot:focalClade": 250528, "^ot:focalCladeOTTTaxonName": "Ceratopogonidae", "^ot:otusElementOrder": ["otus1"], "^ot:studyId": "ot_2486", "^ot:studyPublication": {"@href": "https://doi.org/10.11646/zootaxa.3879.1.1"}, "^ot:studyPublicationReference": "BORKENT, A. (2014). The Pupae of the Biting Midges of the World (Diptera: Ceratopogonidae), With a Generic Key and Analysis of the Phylogenetic Relationships Between Genera. Zootaxa, 3879(1). https://doi.org/10.11646/zootaxa.3879.1.1\n", "^ot:studyYear": 2014, "^ot:tag": [], "^ot:treesElementOrder": ["trees1"], "highestMintedElementIDs": {"agent": 0, "annotation": 0, "edge": 56, "message": 0, "node": 57, "otu": 29, "otus": 2, "tree": 1, "trees": 2}, "otusById": {"otus1": {"otuById": {"otu1": {"^ot:originalLabel": "Leptoconops sp", "^ot:ottId": 1096892, "^ot:ottTaxonName": "Leptoconops"}, "otu10": {"^ot:originalLabel": "Schizonyxhelea sp", "^ot:ottId": 4466208, "^ot:ottTaxonName": "Schizonyxhelea"}, "otu11": {"^ot:originalLabel": "Baeodasymyia sp", "^ot:ottId": 4466764, "^ot:ottTaxonName": "Baeodasymyia"}, "otu12": {"^ot:originalLabel": "Serromyia sp", "^ot:ottId": 777259, "^ot:ottTaxonName": "Serromyia"}, "otu13": {"^ot:originalLabel": "Allohelea sp", "^ot:ottId": 4466731, "^ot:ottTaxonName": "Allohelea"}, "otu14": {"^ot:originalLabel": "Monohelea sp", "^ot:ottId": 777261, "^ot:ottTaxonName": "Monohelea"}, "otu15": {"^ot:originalLabel": "Echinohelea sp", "^ot:ottId": 4467003, "^ot:ottTaxonName": "Echinohelea"}, "otu16": {"^ot:originalLabel": "Clinohelea sp", "^ot:ottId": 4466478, "^ot:ottTaxonName": "Clinohelea"}, "otu17": {"^ot:altLabel": "Heteromyia", "^ot:originalLabel": "Heteromyia sp"}, "otu18": {"^ot:originalLabel": "Hebetula sp", "^ot:ottId": 4467033, "^ot:ottTaxonName": "Hebetula"}, "otu19": {"^ot:originalLabel": "Johannsenomyia sp", "^ot:ottId": 4466325, "^ot:ottTaxonName": "Johannsenomyia"}, "otu2": {"^ot:originalLabel": "Austroconops sp", "^ot:ottId": 1096889, "^ot:ottTaxonName": "Austroconops"}, "otu20": {"^ot:originalLabel": "Lanatomyia sp", "^ot:ottId": 4466560, "^ot:ottTaxonName": "Lanatomyia"}, "otu21": {"^ot:originalLabel": "Nilobezzia sp", "^ot:ottId": 4466883, "^ot:ottTaxonName": "Nilobezzia"}, "otu22": {"^ot:originalLabel": "Jenkinshelea sp", "^ot:ottId": 4467189, "^ot:ottTaxonName": "Jenkinshelea"}, "otu23": {"^ot:originalLabel": "Macropeza sp", "^ot:ottId": 4467094, "^ot:ottTaxonName": "Macropeza"}, "otu24": {"^ot:originalLabel": "Probezzia sp", "^ot:ottId": 131063, "^ot:ottTaxonName": "Probezzia"}, "otu25": {"^ot:originalLabel": "Sphaeromias sp", "^ot:ottId": 4466569, "^ot:ottTaxonName": "Sphaeromias"}, "otu26": {"^ot:originalLabel": "Xenohelea sp", "^ot:ottId": 4465838, "^ot:ottTaxonName": "Xenohelea"}, "otu27": {"^ot:originalLabel": "Homohelea sp", "^ot:ottId": 4466293, "^ot:ottTaxonName": "Homohelea"}, "otu28": {"^ot:originalLabel": "Palpomyia sp", "^ot:ottId": 4465900, "^ot:ottTaxonName": "Palpomyia"}, "otu29": {"^ot:originalLabel": "Paryphoconus sp", "^ot:ottId": 4466774, "^ot:ottTaxonName": "Paryphoconus"}, "otu3": {"^ot:originalLabel": "Dasyhelea sp", "^ot:ottId": 722891, "^ot:ottTaxonName": "Dasyhelea"}, "otu4": {"^ot:originalLabel": "Atrichopogon sp", "^ot:ottId": 705680, "^ot:ottTaxonName": "Atrichopogon"}, "otu5": {"^ot:originalLabel": "Forcipomyia sp", "^ot:ottId": 705678, "^ot:ottTaxonName": "Forcipomyia"}, "otu6": {"^ot:originalLabel": "Culicoides sp", "^ot:ottId": 722888, "^ot:ottTaxonName": "Culicoides"}, "otu7": {"^ot:originalLabel": "Ceratopogon sp", "^ot:ottId": 705687, "^ot:ottTaxonName": "Ceratopogon"}, "otu8": {"^ot:originalLabel": "Alluaudomyia sp", "^ot:ottId": 4467208, "^ot:ottTaxonName": "Alluaudomyia"}, "otu9": {"^ot:originalLabel": "Stilobezzia sp", "^ot:ottId": 131064, "^ot:ottTaxonName": "Stilobezzia"}}}}, "treesById": {"trees1": {"@otus": "otus1", "^ot:treeElementOrder": ["tree1"], "treeById": {"tree1": {"@label": "Figs. 80,81", "@xsi:type": "nex:FloatTree", "^ot:branchLengthDescription": "", "^ot:branchLengthMode": "ot:undefined", "^ot:curatedType": "", "^ot:inGroupClade": "node5", "^ot:nodeLabelMode": "", "^ot:nodeLabelTimeUnit": "", "^ot:outGroupEdge": "", "^ot:reasonsToExcludeFromSynthesis": [], "^ot:rootNodeId": "node1", "^ot:specifiedRoot": "node1", "^ot:tag": [], "^ot:unrootedTree": false, "edgeBySourceId": {"node1": {"edge1": {"@source": "node1", "@target": "node2"}, "edge4": {"@source": "node1", "@target": "node5"}}, "node11": {"edge11": {"@source": "node11", "@target": "node12"}, "edge12": {"@source": "node11", "@target": "node13"}}, "node13": {"edge13": {"@source": "node13", "@target": "node14"}, "edge14": {"@source": "node13", "@target": "node15"}}, "node15": {"edge15": {"@source": "node15", "@target": "node16"}, "edge22": {"@source": "node15", "@target": "node23"}}, "node16": {"edge16": {"@source": "node16", "@target": "node17"}, "edge17": {"@source": "node16", "@target": "node18"}}, "node18": {"edge18": {"@source": "node18", "@target": "node19"}, "edge19": {"@source": "node18", "@target": "node20"}}, "node2": {"edge2": {"@source": "node2", "@target": "node3"}, "edge3": {"@source": "node2", "@target": "node4"}}, "node20": {"edge20": {"@source": "node20", "@target": "node21"}, "edge21": {"@source": "node20", "@target": "node22"}}, "node23": {"edge23": {"@source": "node23", "@target": "node24"}, "edge24": {"@source": "node23", "@target": "node25"}}, "node25": {"edge25": {"@source": "node25", "@target": "node26"}, "edge28": {"@source": "node25", "@target": "node29"}}, "node26": {"edge26": {"@source": "node26", "@target": "node27"}, "edge27": {"@source": "node26", "@target": "node28"}}, "node29": {"edge29": {"@source": "node29", "@target": "node30"}, "edge30": {"@source": "node29", "@target": "node31"}}, "node31": {"edge31": {"@source": "node31", "@target": "node32"}, "edge32": {"@source": "node31", "@target": "node33"}}, "node33": {"edge33": {"@source": "node33", "@target": "node34"}, "edge34": {"@source": "node33", "@target": "node35"}}, "node35": {"edge35": {"@source": "node35", "@target": "node36"}, "edge36": {"@source": "node35", "@target": "node37"}}, "node37": {"edge37": {"@source": "node37", "@target": "node38"}, "edge48": {"@source": "node37", "@target": "node49"}}, "node38": {"edge38": {"@source": "node38", "@target": "node39"}, "edge41": {"@source": "node38", "@target": "node42"}}, "node39": {"edge39": {"@source": "node39", "@target": "node40"}, "edge40": {"@source": "node39", "@target": "node41"}}, "node42": {"edge42": {"@source": "node42", "@target": "node43"}, "edge43": {"@source": "node42", "@target": "node44"}}, "node44": {"edge44": {"@source": "node44", "@target": "node45"}, "edge45": {"@source": "node44", "@target": "node46"}}, "node46": {"edge46": {"@source": "node46", "@target": "node47"}, "edge47": {"@source": "node46", "@target": "node48"}}, "node49": {"edge49": {"@source": "node49", "@target": "node50"}, "edge54": {"@source": "node49", "@target": "node55"}}, "node5": {"edge10": {"@source": "node5", "@target": "node11"}, "edge5": {"@source": "node5", "@target": "node6"}}, "node50": {"edge50": {"@source": "node50", "@target": "node51"}, "edge51": {"@source": "node50", "@target": "node52"}}, "node52": {"edge52": {"@source": "node52", "@target": "node53"}, "edge53": {"@source": "node52", "@target": "node54"}}, "node55": {"edge55": {"@source": "node55", "@target": "node56"}, "edge56": {"@source": "node55", "@target": "node57"}}, "node6": {"edge6": {"@source": "node6", "@target": "node7"}, "edge7": {"@source": "node6", "@target": "node8"}}, "node8": {"edge8": {"@source": "node8", "@target": "node9"}, "edge9": {"@source": "node8", "@target": "node10"}}}, "nodeById": {"node1": {"@root": true}, "node10": {"@otu": "otu5"}, "node11": {}, "node12": {"@otu": "otu6"}, "node13": {}, "node14": {"@otu": "otu7"}, "node15": {}, "node16": {}, "node17": {"@otu": "otu8"}, "node18": {}, "node19": {"@otu": "otu9"}, "node2": {}, "node20": {}, "node21": {"@otu": "otu10"}, "node22": {"@otu": "otu11"}, "node23": {}, "node24": {"@otu": "otu12"}, "node25": {}, "node26": {}, "node27": {"@otu": "otu13"}, "node28": {"@otu": "otu14"}, "node29": {}, "node3": {"@otu": "otu1"}, "node30": {"@otu": "otu15"}, "node31": {}, "node32": {"@otu": "otu16"}, "node33": {}, "node34": {"@otu": "otu17"}, "node35": {}, "node36": {"@otu": "otu18"}, "node37": {}, "node38": {}, "node39": {}, "node4": {"@otu": "otu2"}, "node40": {"@otu": "otu19"}, "node41": {"@otu": "otu20"}, "node42": {}, "node43": {"@otu": "otu21"}, "node44": {}, "node45": {"@otu": "otu22"}, "node46": {}, "node47": {"@otu": "otu23"}, "node48": {"@otu": "otu24"}, "node49": {}, "node5": {}, "node50": {}, "node51": {"@otu": "otu25"}, "node52": {}, "node53": {"@otu": "otu26"}, "node54": {"@otu": "otu27"}, "node55": {}, "node56": {"@otu": "otu28"}, "node57": {"@otu": "otu29"}, "node6": {}, "node7": {"@otu": "otu3"}, "node8": {}, "node9": {"@otu": "otu4"}}}}}}}}, "branch2sha": {"master": "2aa180baef3c5e313da1e7f09c83ce2c0467b457"}, "commentHTML": "", "duplicateStudyIDs": [], "shardName": "phylesystem-1", "versionHistory": [{"id": "df2bf9dc982cee3b3686e5955e120bdbcc6966ce", "author_name": "dchesters", "author_email": "dc0357548934@live.co.uk", "date": "Thu, 20 Feb 2025 02:31:58 +0000", "date_ISO_8601": "2025-02-20 02:31:58 +0000", "relative_date": "1 year, 2 months ago", "message_subject": "Initial commit Borkent (2014)", "message_body": "Borkent2014Ceratopogonidae.nwk\nPolyphylys ommited from transcription (preferentially retaining type genera).\n\n(Update document 'ot_2486' via OpenTree API)"}, {"id": "1dfc80e16fc606c29ed774c4a4bc4ec58d80b77b", "author_name": "dchesters", "author_email": "dc0357548934@live.co.uk", "date": "Thu, 20 Feb 2025 02:27:56 +0000", "date_ISO_8601": "2025-02-20 02:27:56 +0000", "relative_date": "1 year, 2 months ago", "message_subject": "Update document 'ot_2486' via OpenTree API"}]}