{"sha": "c33806c9ee11db205ee8c02a42e31b1c3128e299", "data": {"nexml": {"@about": "#study", "@generator": "Open Tree API", "@id": "study", "@nexml2json": "1.2.1", "@nexmljson": "http://purl.org/opentree/nexson", "@version": "0.9", "@xmlns": {"$": "http://www.nexml.org/2009", "nex": "http://www.nexml.org/2009", "ot": "http://purl.org/opentree-terms#", "xhtml": "http://www.w3.org/1999/xhtml/vocab#", "xsd": "http://www.w3.org/2001/XMLSchema#", "xsi": "http://www.w3.org/2001/XMLSchema-instance"}, "^ot:agents": {"agent": [{"@description": "Open Tree NexSON validation", "@id": "peyotl-validator", "@name": "api.opentreeoflife.org/validate", "@url": "https://github.com/OpenTreeOfLife/peyotl", "@version": "0.0.4a", "invocation": {"commandLine": [], "otherProperty": [{"name": "pythonVersion", "value": "3.10.12"}, {"name": "pythonImplementation", "value": "CPython"}]}}, {"@description": "Web-based interface for submitting, editing, and reviewing studies in the Open Tree of Life project.", "@id": "opentree-curation-webapp", "@name": "OpenTree curation webapp", "@url": "https://github.com/OpenTreeOfLife/opentree", "@version": "0.0.0"}]}, "^ot:annotationEvents": {"annotation": [{"@dateCreated": "2025-02-16T07:32:19.466Z", "@description": "Aids for mapping study OTUs to OTT taxa", "@id": "otu-mapping-hints", "@passedChecks": true, "@preserve": true, "@wasAssociatedWithAgentId": "opentree-curation-webapp", "message": [{"@code": "OTU_MAPPING_HINTS", "@humanMessageType": "NONE", "@severity": "INFO", "data": {"autoAcceptExactMatches": true, "searchContext": {"$": "All life"}, "substitutions": {"substitution": [{"@active": false, "@valid": true, "new": {"$": ""}, "old": {"$": ""}}]}, "useFuzzyMatching": false}, "refersTo": {"@top": {"$": "meta"}}}]}, {"@dateCreated": "2025-02-16T07:32:19.466Z", "@description": "Describes external namesets merged into this study", "@id": "merged-namesets-metadata", "@passedChecks": true, "@preserve": true, "@wasAssociatedWithAgentId": "opentree-curation-webapp", "message": [{"@code": "MERGED_NAMESET_INFO", "@humanMessageType": "NONE", "@severity": "INFO", "data": {"namesets": {"nameset": []}}, "refersTo": {"@top": {"$": "meta"}}}]}, {"@dateCreated": "2025-02-16T07:32:19.466Z", "@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": "BarkerWhiting2003Phthiraptera.nwk", "@size": 760, "@type": "newick", "@url": "/curator/download/supporting_files.doc.8154949b09cf50d7.4261726b657257686974696e67323030335068746869726170746572612e6e776b.nwk", "description": {"$": "Source data for tree(s) 'tree1'"}, "sourceForTree": [{"$": "tree1"}]}, {"@filename": "image.png", "@size": 556, "@type": "", "@url": "/curator/supporting_files/download/supporting_files.doc.afdcec890b03fe66.696d6167652e706e67.png", "description": {"$": ""}, "sourceForTree": []}, {"@filename": "image.png", "@size": 2054, "@type": "", "@url": "/curator/supporting_files/download/supporting_files.doc.91feac0959dd51f4.696d6167652e706e67.png", "description": {"$": ""}, "sourceForTree": []}, {"@filename": "image.png", "@size": 2262, "@type": "", "@url": "/curator/supporting_files/download/supporting_files.doc.9430f2d4cff17eb8.696d6167652e706e67.png", "description": {"$": ""}, "sourceForTree": []}]}}, "refersTo": {"@top": {"$": "meta"}}}]}, {"@id": "peyotl-validator-event", "@description": "Open Tree NexSON validation", "@wasAssociatedWithAgentId": "peyotl-validator", "@passedChecks": true, "@preserve": false, "message": [{"@code": "MULTIPLE_TIPS_MAPPED_TO_OTT_ID", "data": ["otu12", "otu18", "otu3"], "refersTo": {"@top": "otus", "@idref": "otus1", "@otusID": "otus1"}, "@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"}, {"@code": "MISSING_OPTIONAL_KEY", "data": ["^ot:ottId"], "refersTo": {"@top": "otus", "@idref": ["otu12", "otu18", "otu3"], "@otusID": "otus1", "@otuID": ["otu12", "otu18", "otu3"]}, "@severity": "WARNING"}]}]}, "^ot:candidateTreeForSynthesis": [], "^ot:comment": "", "^ot:curatorName": ["dchesters"], "^ot:dataDeposit": {"@href": ""}, "^ot:focalCladeOTTTaxonName": "", "^ot:otusElementOrder": ["otus1"], "^ot:studyId": "ot_2435", "^ot:studyPublication": {"@href": "https://doi.org/10.1046/j.1463-6409.2003.00120.x"}, "^ot:studyPublicationReference": "Barker, S. C., Whiting, M., Johnson, K. P., & Murrell, A. (2003). Phylogeny of the lice (Insecta, Phthiraptera) inferred from small subunit rRNA. Zoologica Scripta, 32(5), 407\u2013414. Portico. https://doi.org/10.1046/j.1463-6409.2003.00120.x\n", "^ot:studyYear": 2003, "^ot:tag": [], "^ot:treesElementOrder": ["trees1"], "highestMintedElementIDs": {"agent": 0, "annotation": 0, "edge": 66, "message": 0, "node": 67, "otu": 34, "otus": 2, "tree": 1, "trees": 2}, "otusById": {"otus1": {"otuById": {"otu1": {"^ot:originalLabel": "Liposcelis sp", "^ot:ottId": 433879, "^ot:ottTaxonName": "Liposcelis"}, "otu10": {"^ot:originalLabel": "Colimenopon urocolius", "^ot:ottId": 333812, "^ot:ottTaxonName": "Colimenopon urocolius"}, "otu11": {"^ot:originalLabel": "Machaerilaemus sp", "^ot:ottId": 1019440, "^ot:ottTaxonName": "Machaerilaemus"}, "otu12": {"^ot:originalLabel": "Haematomyzus elephantus"}, "otu13": {"^ot:originalLabel": "Pediculus humanus", "^ot:ottId": 1034004, "^ot:ottTaxonName": "Pediculus humanus"}, "otu14": {"^ot:originalLabel": "Pthirus pubis", "^ot:ottId": 1033989, "^ot:ottTaxonName": "Pthirus pubis"}, "otu15": {"^ot:originalLabel": "Pedicinus sp", "^ot:ottId": 125174, "^ot:ottTaxonName": "Pedicinus"}, "otu16": {"^ot:originalLabel": "Lepidophthirus macrorihini", "^ot:ottId": 750484, "^ot:ottTaxonName": "Lepidophthirus macrorihini"}, "otu17": {"^ot:originalLabel": "Hoplopleura pacifica", "^ot:ottId": 750485, "^ot:ottTaxonName": "Hoplopleura pacifica"}, "otu18": {"^ot:originalLabel": "Haematopinus pacochoeri"}, "otu19": {"^ot:originalLabel": "Neohaematopinus sciuri", "^ot:ottId": 959374, "^ot:ottTaxonName": "Neohaematopinus sciuri"}, "otu2": {"^ot:originalLabel": "Trinoton querquedulae", "^ot:ottId": 3639, "^ot:ottTaxonName": "Trinoton querquedulae"}, "otu20": {"^ot:originalLabel": "Linognathus vituli", "^ot:ottId": 125171, "^ot:ottTaxonName": "Linognathus vituli"}, "otu21": {"^ot:originalLabel": "Pectinopygus sulae", "^ot:ottId": 750480, "^ot:ottTaxonName": "Pectinopygus sulae"}, "otu22": {"^ot:originalLabel": "Degeeriella fulva", "^ot:ottId": 176102, "^ot:ottTaxonName": "Degeeriella fulva"}, "otu23": {"^ot:originalLabel": "Bovicola ovis", "^ot:ottId": 750487, "^ot:ottTaxonName": "Bovicola ovis"}, "otu24": {"^ot:originalLabel": "Felicola subrostratus", "^ot:ottId": 577713, "^ot:ottTaxonName": "Felicola subrostratus"}, "otu25": {"^ot:originalLabel": "Austrophilopterus subsimilis", "^ot:ottId": 751429, "^ot:ottTaxonName": "Austrophilopterus subsimilis"}, "otu26": {"^ot:originalLabel": "Craspedorrhynchus platystomus", "^ot:ottId": 176112, "^ot:ottTaxonName": "Craspedorrhynchus platystomus"}, "otu27": {"^ot:originalLabel": "Colilipeurus colius", "^ot:ottId": 1054297, "^ot:ottTaxonName": "Colilipeurus colius"}, "otu28": {"^ot:originalLabel": "Campanulotes compar", "^ot:ottId": 365137, "^ot:ottTaxonName": "Campanulotes compar"}, "otu29": {"^ot:originalLabel": "Goniodes dissimilis", "^ot:ottId": 3438740, "^ot:ottTaxonName": "Goniodes dissimilis"}, "otu3": {"^ot:altLabel": "Ricinus", "^ot:originalLabel": "Ricinus sp"}, "otu30": {"^ot:originalLabel": "Fulicoffula longipila", "^ot:ottId": 1051175, "^ot:ottTaxonName": "Fulicoffula longipila"}, "otu31": {"^ot:originalLabel": "Columbicola columbae", "^ot:ottId": 97828, "^ot:ottTaxonName": "Columbicola columbae"}, "otu32": {"^ot:originalLabel": "Neophilopterus incompletus", "^ot:ottId": 176110, "^ot:ottTaxonName": "Neophilopterus incompletus"}, "otu33": {"^ot:originalLabel": "Anatoecus icterodes", "^ot:ottId": 187186, "^ot:ottTaxonName": "Anatoecus icterodes"}, "otu34": {"^ot:originalLabel": "Cirrophthirius testudinarius", "^ot:ottId": 1051176, "^ot:ottTaxonName": "Cirrophthirius testudinarius"}, "otu4": {"^ot:originalLabel": "Laemobothrion atrum", "^ot:ottId": 3634, "^ot:ottTaxonName": "Laemobothrion atrum"}, "otu5": {"^ot:originalLabel": "Gliricola porcelli", "^ot:ottId": 176108, "^ot:ottTaxonName": "Gliricola porcelli"}, "otu6": {"^ot:originalLabel": "Boopia uncinata", "^ot:ottId": 3439650, "^ot:ottTaxonName": "Boopia uncinata"}, "otu7": {"^ot:originalLabel": "Heterodoxus calabyi", "^ot:ottId": 1010372, "^ot:ottTaxonName": "Heterodoxus calabyi"}, "otu8": {"^ot:originalLabel": "Latumcephalum sp", "^ot:ottId": 1010378, "^ot:ottTaxonName": "Latumcephalum"}, "otu9": {"^ot:originalLabel": "Dennyus hirundinis", "^ot:ottId": 41181, "^ot:ottTaxonName": "Dennyus hirundinis"}}}}, "treesById": {"trees1": {"@otus": "otus1", "^ot:treeElementOrder": ["tree1"], "treeById": {"tree1": {"@label": "Fig. 2", "@xsi:type": "nex:FloatTree", "^ot:branchLengthDescription": "", "^ot:branchLengthMode": "ot:undefined", "^ot:curatedType": "Maximum parsimony ", "^ot:inGroupClade": "node3", "^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"}, "edge2": {"@source": "node1", "@target": "node3"}}, "node10": {"edge10": {"@source": "node10", "@target": "node11"}, "edge17": {"@source": "node10", "@target": "node18"}}, "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"}, "edge16": {"@source": "node15", "@target": "node17"}}, "node18": {"edge18": {"@source": "node18", "@target": "node19"}, "edge19": {"@source": "node18", "@target": "node20"}}, "node20": {"edge20": {"@source": "node20", "@target": "node21"}, "edge21": {"@source": "node20", "@target": "node22"}}, "node23": {"edge23": {"@source": "node23", "@target": "node24"}, "edge40": {"@source": "node23", "@target": "node41"}}, "node24": {"edge24": {"@source": "node24", "@target": "node25"}, "edge25": {"@source": "node24", "@target": "node26"}}, "node26": {"edge26": {"@source": "node26", "@target": "node27"}, "edge29": {"@source": "node26", "@target": "node30"}}, "node27": {"edge27": {"@source": "node27", "@target": "node28"}, "edge28": {"@source": "node27", "@target": "node29"}}, "node3": {"edge22": {"@source": "node3", "@target": "node23"}, "edge3": {"@source": "node3", "@target": "node4"}}, "node30": {"edge30": {"@source": "node30", "@target": "node31"}, "edge31": {"@source": "node30", "@target": "node32"}}, "node32": {"edge32": {"@source": "node32", "@target": "node33"}, "edge33": {"@source": "node32", "@target": "node34"}}, "node34": {"edge34": {"@source": "node34", "@target": "node35"}, "edge35": {"@source": "node34", "@target": "node36"}}, "node36": {"edge36": {"@source": "node36", "@target": "node37"}, "edge37": {"@source": "node36", "@target": "node38"}}, "node38": {"edge38": {"@source": "node38", "@target": "node39"}, "edge39": {"@source": "node38", "@target": "node40"}}, "node4": {"edge4": {"@source": "node4", "@target": "node5"}, "edge5": {"@source": "node4", "@target": "node6"}}, "node41": {"edge41": {"@source": "node41", "@target": "node42"}, "edge42": {"@source": "node41", "@target": "node43"}}, "node43": {"edge43": {"@source": "node43", "@target": "node44"}, "edge44": {"@source": "node43", "@target": "node45"}}, "node45": {"edge45": {"@source": "node45", "@target": "node46"}, "edge48": {"@source": "node45", "@target": "node49"}}, "node46": {"edge46": {"@source": "node46", "@target": "node47"}, "edge47": {"@source": "node46", "@target": "node48"}}, "node49": {"edge49": {"@source": "node49", "@target": "node50"}, "edge58": {"@source": "node49", "@target": "node59"}}, "node50": {"edge50": {"@source": "node50", "@target": "node51"}, "edge51": {"@source": "node50", "@target": "node52"}}, "node52": {"edge52": {"@source": "node52", "@target": "node53"}, "edge55": {"@source": "node52", "@target": "node56"}}, "node53": {"edge53": {"@source": "node53", "@target": "node54"}, "edge54": {"@source": "node53", "@target": "node55"}}, "node56": {"edge56": {"@source": "node56", "@target": "node57"}, "edge57": {"@source": "node56", "@target": "node58"}}, "node59": {"edge59": {"@source": "node59", "@target": "node60"}, "edge60": {"@source": "node59", "@target": "node61"}}, "node6": {"edge6": {"@source": "node6", "@target": "node7"}, "edge9": {"@source": "node6", "@target": "node10"}}, "node61": {"edge61": {"@source": "node61", "@target": "node62"}, "edge62": {"@source": "node61", "@target": "node63"}}, "node63": {"edge63": {"@source": "node63", "@target": "node64"}, "edge64": {"@source": "node63", "@target": "node65"}}, "node65": {"edge65": {"@source": "node65", "@target": "node66"}, "edge66": {"@source": "node65", "@target": "node67"}}, "node7": {"edge7": {"@source": "node7", "@target": "node8"}, "edge8": {"@source": "node7", "@target": "node9"}}}, "nodeById": {"node1": {"@root": true}, "node10": {}, "node11": {}, "node12": {"@otu": "otu5"}, "node13": {}, "node14": {"@otu": "otu6"}, "node15": {}, "node16": {"@otu": "otu7"}, "node17": {"@otu": "otu8"}, "node18": {}, "node19": {"@otu": "otu9"}, "node2": {"@otu": "otu1"}, "node20": {}, "node21": {"@otu": "otu10"}, "node22": {"@otu": "otu11"}, "node23": {}, "node24": {}, "node25": {"@otu": "otu12"}, "node26": {}, "node27": {}, "node28": {"@otu": "otu13"}, "node29": {"@otu": "otu14"}, "node3": {}, "node30": {}, "node31": {"@otu": "otu15"}, "node32": {}, "node33": {"@otu": "otu16"}, "node34": {}, "node35": {"@otu": "otu17"}, "node36": {}, "node37": {"@otu": "otu18"}, "node38": {}, "node39": {"@otu": "otu19"}, "node4": {}, "node40": {"@otu": "otu20"}, "node41": {}, "node42": {"@otu": "otu21"}, "node43": {}, "node44": {"@otu": "otu22"}, "node45": {}, "node46": {}, "node47": {"@otu": "otu23"}, "node48": {"@otu": "otu24"}, "node49": {}, "node5": {"@otu": "otu2"}, "node50": {}, "node51": {"@otu": "otu25"}, "node52": {}, "node53": {}, "node54": {"@otu": "otu26"}, "node55": {"@otu": "otu27"}, "node56": {}, "node57": {"@otu": "otu28"}, "node58": {"@otu": "otu29"}, "node59": {}, "node6": {}, "node60": {"@otu": "otu30"}, "node61": {}, "node62": {"@otu": "otu31"}, "node63": {}, "node64": {"@otu": "otu32"}, "node65": {}, "node66": {"@otu": "otu33"}, "node67": {"@otu": "otu34"}, "node7": {}, "node8": {"@otu": "otu3"}, "node9": {"@otu": "otu4"}}}}}}}}, "branch2sha": {"master": "c33806c9ee11db205ee8c02a42e31b1c3128e299"}, "commentHTML": "", "duplicateStudyIDs": [], "shardName": "phylesystem-1", "versionHistory": [{"id": "81fdd7eb13dfa8b6c3ed45744a0ba5265c203d2f", "author_name": "dchesters", "author_email": "dc0357548934@live.co.uk", "date": "Sun, 16 Feb 2025 07:34:45 +0000", "date_ISO_8601": "2025-02-16 07:34:45 +0000", "relative_date": "1 year, 2 months ago", "message_subject": "Initial commit of Barker, Whiting et al. (2003)", "message_body": "BarkerWhiting2003Phthiraptera.nwk\nSingle gene tree, low priority\n\n(Update document 'ot_2435' via OpenTree API)"}, {"id": "12f8832e25dd477dc00ca8bbc53d9f517d811ed3", "author_name": "dchesters", "author_email": "dc0357548934@live.co.uk", "date": "Sun, 16 Feb 2025 07:32:13 +0000", "date_ISO_8601": "2025-02-16 07:32:13 +0000", "relative_date": "1 year, 2 months ago", "message_subject": "Update document 'ot_2435' via OpenTree API"}]}