{"sha": "c33806c9ee11db205ee8c02a42e31b1c3128e299", "data": {"nexml": {"@about": "#study", "@generator": "Open Tree API", "@id": "study", "@nexml2json": "0.0.0", "@nexmljson": "http://purl.org/opentree/nexson", "@version": "0.9", "@xmlns": {"$": "http://www.nexml.org/2009", "nex": "http://www.nexml.org/2009", "ot": "http://purl.org/opentree-terms#", "xhtml": "http://www.w3.org/1999/xhtml/vocab#", "xsd": "http://www.w3.org/2001/XMLSchema#", "xsi": "http://www.w3.org/2001/XMLSchema-instance"}, "highestMintedElementIDs": {"agent": 0, "annotation": 0, "edge": 24, "message": 0, "node": 25, "otu": 13, "otus": 2, "tree": 1, "trees": 2}, "otus": {"@id": "otus1", "otu": [{"@id": "otu1", "@about": "#otu1", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Heleomyza sp"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 685262}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Heleomyza"}]}, {"@id": "otu10", "@about": "#otu10", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Neomeoneurites sp"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 4410943}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Neomeoneurites"}]}, {"@id": "otu11", "@about": "#otu11", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Hemeromyia sp"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 788045}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Hemeromyia"}]}, {"@id": "otu12", "@about": "#otu12", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Meoneura sp"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 940841}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Meoneura"}]}, {"@id": "otu13", "@about": "#otu13", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Carnus sp"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 4410948}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Carnus"}]}, {"@id": "otu2", "@about": "#otu2", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Clusia sp"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 923500}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Clusia (genus in Opisthokonta)"}]}, {"@id": "otu3", "@about": "#otu3", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Acartophthalmus sp"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 465647}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Acartophthalmus"}]}, {"@id": "otu4", "@about": "#otu4", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Canace sp"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 6262970}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Canace"}]}, {"@id": "otu5", "@about": "#otu5", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Cryptochetum sp"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 372190}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Cryptochetum"}]}, {"@id": "otu6", "@about": "#otu6", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Chlorops sp"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 808440}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Chlorops"}]}, {"@id": "otu7", "@about": "#otu7", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:altLabel", "@datatype": "xsd:string", "$": "Milichia"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Milichia sp"}]}, {"@id": "otu8", "@about": "#otu8", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Inbiomyia sp"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 415801}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Inbiomyia"}]}, {"@id": "otu9", "@about": "#otu9", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Australimyza sp"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 992110}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Australimyza"}]}], "@about": "#otus1"}, "trees": {"@otus": "otus1", "@id": "trees1", "tree": [{"@label": "Fig. 13a", "@xsi:type": "nex:FloatTree", "node": [{"@root": true, "@id": "node1", "@about": "#node1"}, {"@otu": "otu1", "@id": "node2", "@about": "#node2", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@id": "node3", "@about": "#node3"}, {"@otu": "otu2", "@id": "node4", "@about": "#node4", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@id": "node5", "@about": "#node5"}, {"@id": "node15", "@about": "#node15"}, {"@id": "node16", "@about": "#node16"}, {"@otu": "otu8", "@id": "node17", "@about": "#node17", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@otu": "otu9", "@id": "node18", "@about": "#node18", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@id": "node19", "@about": "#node19"}, {"@otu": "otu10", "@id": "node20", "@about": "#node20", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@id": "node21", "@about": "#node21"}, {"@otu": "otu11", "@id": "node22", "@about": "#node22", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@id": "node23", "@about": "#node23"}, {"@otu": "otu12", "@id": "node24", "@about": "#node24", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@otu": "otu13", "@id": "node25", "@about": "#node25", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@id": "node6", "@about": "#node6"}, {"@otu": "otu3", "@id": "node7", "@about": "#node7", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@id": "node8", "@about": "#node8"}, {"@otu": "otu4", "@id": "node9", "@about": "#node9", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@id": "node10", "@about": "#node10"}, {"@otu": "otu5", "@id": "node11", "@about": "#node11", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@id": "node12", "@about": "#node12"}, {"@otu": "otu6", "@id": "node13", "@about": "#node13", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@otu": "otu7", "@id": "node14", "@about": "#node14", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}], "edge": [{"@source": "node1", "@target": "node2", "@id": "edge1", "@about": "#edge1"}, {"@source": "node1", "@target": "node3", "@id": "edge2", "@about": "#edge2"}, {"@source": "node3", "@target": "node4", "@id": "edge3", "@about": "#edge3"}, {"@source": "node3", "@target": "node5", "@id": "edge4", "@about": "#edge4"}, {"@source": "node5", "@target": "node15", "@id": "edge14", "@about": "#edge14"}, {"@source": "node15", "@target": "node16", "@id": "edge15", "@about": "#edge15"}, {"@source": "node16", "@target": "node17", "@id": "edge16", "@about": "#edge16"}, {"@source": "node16", "@target": "node18", "@id": "edge17", "@about": "#edge17"}, {"@source": "node15", "@target": "node19", "@id": "edge18", "@about": "#edge18"}, {"@source": "node19", "@target": "node20", "@id": "edge19", "@about": "#edge19"}, {"@source": "node19", "@target": "node21", "@id": "edge20", "@about": "#edge20"}, {"@source": "node21", "@target": "node22", "@id": "edge21", "@about": "#edge21"}, {"@source": "node21", "@target": "node23", "@id": "edge22", "@about": "#edge22"}, {"@source": "node23", "@target": "node24", "@id": "edge23", "@about": "#edge23"}, {"@source": "node23", "@target": "node25", "@id": "edge24", "@about": "#edge24"}, {"@source": "node5", "@target": "node6", "@id": "edge5", "@about": "#edge5"}, {"@source": "node6", "@target": "node7", "@id": "edge6", "@about": "#edge6"}, {"@source": "node6", "@target": "node8", "@id": "edge7", "@about": "#edge7"}, {"@source": "node8", "@target": "node9", "@id": "edge8", "@about": "#edge8"}, {"@source": "node8", "@target": "node10", "@id": "edge9", "@about": "#edge9"}, {"@source": "node10", "@target": "node11", "@id": "edge10", "@about": "#edge10"}, {"@source": "node10", "@target": "node12", "@id": "edge11", "@about": "#edge11"}, {"@source": "node12", "@target": "node13", "@id": "edge12", "@about": "#edge12"}, {"@source": "node12", "@target": "node14", "@id": "edge13", "@about": "#edge13"}], "@id": "tree1", "@about": "#tree1", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:branchLengthDescription", "@datatype": "xsd:string", "$": ""}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:branchLengthMode", "@datatype": "xsd:string", "$": "ot:undefined"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:curatedType", "@datatype": "xsd:string", "$": "Maximum parsimony "}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:inGroupClade", "@datatype": "xsd:string", "$": "node3"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:nodeLabelMode", "@datatype": "xsd:string", "$": ""}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:nodeLabelTimeUnit", "@datatype": "xsd:string", "$": ""}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:outGroupEdge", "@datatype": "xsd:string", "$": ""}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:specifiedRoot", "@datatype": "xsd:string", "$": "node1"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:unrootedTree", "@datatype": "xsd:boolean", "$": false}]}], "@about": "#trees1"}, "meta": [{"agent": [{"@description": "Open Tree NexSON validation", "@id": "peyotl-validator", "@name": "api.opentreeoflife.org/validate", "@url": "https://github.com/OpenTreeOfLife/peyotl", "@version": "0.0.4a", "invocation": {"commandLine": [], "otherProperty": [{"name": "pythonVersion", "value": "3.10.12"}, {"name": "pythonImplementation", "value": "CPython"}]}, "@about": "#peyotl-validator"}, {"@description": "Web-based interface for submitting, editing, and reviewing studies in the Open Tree of Life project.", "@id": "opentree-curation-webapp", "@name": "OpenTree curation webapp", "@url": "https://github.com/OpenTreeOfLife/opentree", "@version": "0.0.0", "@about": "#opentree-curation-webapp"}], "@xsi:type": "nex:LiteralMeta", "@property": "ot:agents"}, {"annotation": [{"@dateCreated": "2025-02-26T12:01:24.737Z", "@description": "Aids for mapping study OTUs to OTT taxa", "@id": "otu-mapping-hints", "@passedChecks": true, "@preserve": true, "@wasAssociatedWithAgentId": "opentree-curation-webapp", "message": [{"@code": "OTU_MAPPING_HINTS", "@humanMessageType": "NONE", "@severity": "INFO", "data": {"autoAcceptExactMatches": true, "searchContext": {"$": "Insects"}, "substitutions": {"substitution": [{"@active": false, "@valid": true, "new": {"$": ""}, "old": {"$": ""}}]}, "useFuzzyMatching": false}, "refersTo": {"@top": {"$": "meta"}}}], "@about": "#otu-mapping-hints"}, {"@dateCreated": "2025-02-26T12:01:24.736Z", "@description": "Describes external namesets merged into this study", "@id": "merged-namesets-metadata", "@passedChecks": true, "@preserve": true, "@wasAssociatedWithAgentId": "opentree-curation-webapp", "message": [{"@code": "MERGED_NAMESET_INFO", "@humanMessageType": "NONE", "@severity": "INFO", "data": {"namesets": {"nameset": []}}, "refersTo": {"@top": {"$": "meta"}}}], "@about": "#merged-namesets-metadata"}, {"@dateCreated": "2025-02-26T12:01:24.736Z", "@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": "Buck2006Carnoidea.nwk", "@size": 201, "@type": "newick", "@url": "/curator/download/supporting_files.doc.a714fabef72b0552.4275636b323030364361726e6f696465612e6e776b.nwk", "description": {"$": "Source data for tree(s) 'tree1'"}, "sourceForTree": [{"$": "tree1"}]}, {"@filename": "image.png", "@size": 701, "@type": "", "@url": "/curator/supporting_files/download/supporting_files.doc.966147e30b44fdfc.696d6167652e706e67.png", "description": {"$": ""}, "sourceForTree": []}, {"@filename": "image.png", "@size": 897, "@type": "", "@url": "/curator/supporting_files/download/supporting_files.doc.bc8accd9def05d83.696d6167652e706e67.png", "description": {"$": ""}, "sourceForTree": []}, {"@filename": "image.png", "@size": 1234, "@type": "", "@url": "/curator/supporting_files/download/supporting_files.doc.8b399934cbb7cb20.696d6167652e706e67.png", "description": {"$": ""}, "sourceForTree": []}, {"@filename": "image.png", "@size": 1894, "@type": "", "@url": "/curator/supporting_files/download/supporting_files.doc.9d3541132221aaa3.696d6167652e706e67.png", "description": {"$": ""}, "sourceForTree": []}, {"@filename": "image.png", "@size": 5124, "@type": "", "@url": "/curator/supporting_files/download/supporting_files.doc.b3ca3b20f5b89f8d.696d6167652e706e67.png", "description": {"$": ""}, "sourceForTree": []}]}}, "refersTo": {"@top": {"$": "meta"}}}], "@about": "#supporting-files-metadata"}, {"@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": "otu7", "@otusID": "otus1", "@otuID": "otu7"}, "@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"}], "@about": "#peyotl-validator-event"}], "@xsi:type": "nex:LiteralMeta", "@property": "ot:annotationEvents"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:comment", "@datatype": "xsd:string", "$": ""}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:curatorName", "@datatype": "xsd:string", "$": "dchesters"}, {"@href": "", "@xsi:type": "nex:ResourceMeta", "@rel": "ot:dataDeposit"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:focalClade", "@datatype": "xsd:int", "$": 758892}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:focalCladeOTTTaxonName", "@datatype": "xsd:string", "$": "Carnoidea"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:studyId", "@datatype": "xsd:string", "$": "ot_2522"}, {"@href": "https://doi.org/10.1111/j.1365-3113.2006.00328.x", "@xsi:type": "nex:ResourceMeta", "@rel": "ot:studyPublication"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:studyPublicationReference", "@datatype": "xsd:string", "$": "Buck, M. (2006). A new family and genus of acalypterate flies from the Neotropical region, with a phylogenetic analysis of Carnoidea family relationships (Diptera, Schizophora). Systematic Entomology, 31(3), 377\u2013404. Portico. https://doi.org/10.1111/j.1365-3113.2006.00328.x\n"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:studyYear", "@datatype": "xsd:int", "$": 2006}]}}, "branch2sha": {"master": "c33806c9ee11db205ee8c02a42e31b1c3128e299"}, "commentHTML": "", "duplicateStudyIDs": [], "shardName": "phylesystem-1", "versionHistory": [{"id": "ed2ee846a874691398fefdc756adb33aac5b2f55", "author_name": "dchesters", "author_email": "dc0357548934@live.co.uk", "date": "Wed, 26 Feb 2025 12:03:53 +0000", "date_ISO_8601": "2025-02-26 12:03:53 +0000", "relative_date": "1 year, 2 months ago", "message_subject": "Initial commit Buck (2006)", "message_body": "Buck2006Carnoidea.nwk\nPhylogeny has some higher taxa, text states 'A list of taxa examined for the morphological study ...  is available online', although this cannot be found. Thus, relabelled with type genus.\n\n(Update document 'ot_2522' via OpenTree API)"}, {"id": "b71bd5d4b0d1a898e040fce90085649fcfe3cef9", "author_name": "dchesters", "author_email": "dc0357548934@live.co.uk", "date": "Wed, 26 Feb 2025 12:01:20 +0000", "date_ISO_8601": "2025-02-26 12:01:20 +0000", "relative_date": "1 year, 2 months ago", "message_subject": "Update document 'ot_2522' via OpenTree API"}]}