{"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": {"$": "http://www.nexml.org/2009", "nex": "http://www.nexml.org/2009", "ot": "http://purl.org/opentree-terms#", "xhtml": "http://www.w3.org/1999/xhtml/vocab#", "xsd": "http://www.w3.org/2001/XMLSchema#", "xsi": "http://www.w3.org/2001/XMLSchema-instance"}, "^ot:agents": {"agent": [{"@description": "Open Tree NexSON validation", "@id": "peyotl-validator", "@name": "api.opentreeoflife.org/validate", "@url": "https://github.com/OpenTreeOfLife/peyotl", "@version": "0.0.4a", "invocation": {"commandLine": [], "otherProperty": [{"name": "pythonVersion", "value": "3.10.12"}, {"name": "pythonImplementation", "value": "CPython"}]}}, {"@description": "Web-based interface for submitting, editing, and reviewing studies in the Open Tree of Life project.", "@id": "opentree-curation-webapp", "@name": "OpenTree curation webapp", "@url": "https://github.com/OpenTreeOfLife/opentree", "@version": "0.0.0"}]}, "^ot:annotationEvents": {"annotation": [{"@dateCreated": "2025-03-06T01:27:47.131Z", "@description": "Aids for mapping study OTUs to OTT taxa", "@id": "otu-mapping-hints", "@passedChecks": true, "@preserve": true, "@wasAssociatedWithAgentId": "opentree-curation-webapp", "message": [{"@code": "OTU_MAPPING_HINTS", "@humanMessageType": "NONE", "@severity": "INFO", "data": {"autoAcceptExactMatches": true, "searchContext": {"$": "All life"}, "substitutions": {"substitution": [{"@active": false, "@valid": true, "new": {"$": ""}, "old": {"$": ""}}]}, "useFuzzyMatching": false}, "refersTo": {"@top": {"$": "meta"}}}]}, {"@dateCreated": "2025-03-06T01:27:47.131Z", "@description": "Describes external namesets merged into this study", "@id": "merged-namesets-metadata", "@passedChecks": true, "@preserve": true, "@wasAssociatedWithAgentId": "opentree-curation-webapp", "message": [{"@code": "MERGED_NAMESET_INFO", "@humanMessageType": "NONE", "@severity": "INFO", "data": {"namesets": {"nameset": []}}, "refersTo": {"@top": {"$": "meta"}}}]}, {"@dateCreated": "2025-03-06T01:27:47.131Z", "@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": "DengWang2023Phthiraptera.nwk", "@size": 181, "@type": "newick", "@url": "/curator/download/supporting_files.doc.9f6e58367353bd0b.44656e6757616e67323032335068746869726170746572612e6e776b.nwk", "description": {"$": "Source data for tree(s) 'tree1'"}, "sourceForTree": [{"$": "tree1"}]}, {"@filename": "image.png", "@size": 611, "@type": "", "@url": "/curator/supporting_files/download/supporting_files.doc.8584a4be95bbefeb.696d6167652e706e67.png", "description": {"$": ""}, "sourceForTree": []}, {"@filename": "image.png", "@size": 906, "@type": "", "@url": "/curator/supporting_files/download/supporting_files.doc.ab78d70e41be0987.696d6167652e706e67.png", "description": {"$": ""}, "sourceForTree": []}, {"@filename": "image.png", "@size": 1808, "@type": "", "@url": "/curator/supporting_files/download/supporting_files.doc.acf701bfd9e7bfd4.696d6167652e706e67.png", "description": {"$": ""}, "sourceForTree": []}, {"@filename": "image.png", "@size": 2168, "@type": "", "@url": "/curator/supporting_files/download/supporting_files.doc.acf3198a8b6bd015.696d6167652e706e67.png", "description": {"$": ""}, "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": "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"}]}]}, "^ot:candidateTreeForSynthesis": [], "^ot:comment": "", "^ot:curatorName": ["dchesters"], "^ot:dataDeposit": {"@href": ""}, "^ot:focalClade": 684934, "^ot:focalCladeOTTTaxonName": "Ischnocera", "^ot:otusElementOrder": ["otus1"], "^ot:studyId": "ot_2623", "^ot:studyPublication": {"@href": "https://doi.org/10.1016/j.ijppaw.2022.12.004"}, "^ot:studyPublicationReference": "Deng, Y.-P., Wang, W., Fu, Y.-T., Nie, Y., Xie, Y., & Liu, G.-H. (2023). Morphological and molecular evidence reveals a new species of chewing louse Pancola ailurus n. sp. (Phthiraptera: Trichodectidae) from the endangered Chinese red panda Ailurus styani. International Journal for Parasitology: Parasites and Wildlife, 20, 31\u201338. https://doi.org/10.1016/j.ijppaw.2022.12.004\n", "^ot:studyYear": 2023, "^ot:tag": [], "^ot:treesElementOrder": ["trees1"], "^xhtml:license": {"@href": "https://creativecommons.org/licenses/by/3.0/", "@name": "CC-BY 3.0"}, "highestMintedElementIDs": {"agent": 0, "annotation": 0, "edge": 16, "message": 0, "node": 17, "otu": 9, "otus": 2, "tree": 1, "trees": 2}, "otusById": {"otus1": {"otuById": {"otu1": {"^ot:originalLabel": "Liposcelis bostrychophila", "^ot:ottId": 1076848, "^ot:ottTaxonName": "Liposcelis bostrychophila"}, "otu2": {"^ot:originalLabel": "Damalinia meyeri", "^ot:ottId": 252242, "^ot:ottTaxonName": "Damalinia meyeri"}, "otu3": {"^ot:originalLabel": "Bovicola ovis", "^ot:ottId": 750487, "^ot:ottTaxonName": "Bovicola ovis"}, "otu4": {"^ot:originalLabel": "Bovicola caprae", "^ot:ottId": 3438678, "^ot:ottTaxonName": "Bovicola caprae"}, "otu5": {"^ot:originalLabel": "Bovicola bovis", "^ot:ottId": 203384, "^ot:ottTaxonName": "Bovicola bovis"}, "otu6": {"^ot:originalLabel": "Felicola subrostratus", "^ot:ottId": 577713, "^ot:ottTaxonName": "Felicola subrostratus"}, "otu7": {"^ot:originalLabel": "Pancola ailurus"}, "otu8": {"^ot:originalLabel": "Geomydoecus aurei", "^ot:ottId": 504235, "^ot:ottTaxonName": "Geomydoecus aurei"}, "otu9": {"^ot:originalLabel": "Trichodectes canis", "^ot:ottId": 747941, "^ot:ottTaxonName": "Trichodectes canis"}}}}, "treesById": {"trees1": {"@otus": "otus1", "^ot:treeElementOrder": ["tree1"], "treeById": {"tree1": {"@label": "Fig. 3, ML", "@xsi:type": "nex:FloatTree", "^ot:branchLengthDescription": "", "^ot:branchLengthMode": "ot:undefined", "^ot:curatedType": "Maximum likelihood ", "^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"}}, "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"}}, "node3": {"edge10": {"@source": "node3", "@target": "node11"}, "edge3": {"@source": "node3", "@target": "node4"}}, "node4": {"edge4": {"@source": "node4", "@target": "node5"}, "edge5": {"@source": "node4", "@target": "node6"}}, "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": {"@otu": "otu8"}, "node17": {"@otu": "otu9"}, "node2": {"@otu": "otu1"}, "node3": {}, "node4": {}, "node5": {"@otu": "otu2"}, "node6": {}, "node7": {"@otu": "otu3"}, "node8": {}, "node9": {"@otu": "otu4"}}}}}}}}, "branch2sha": {"master": "c33806c9ee11db205ee8c02a42e31b1c3128e299"}, "commentHTML": "", "duplicateStudyIDs": [], "shardName": "phylesystem-1", "versionHistory": [{"id": "fb1a9e200eb1c3c0afdd90597e299aadae759216", "author_name": "dchesters", "author_email": "dc0357548934@live.co.uk", "date": "Thu, 6 Mar 2025 01:29:41 +0000", "date_ISO_8601": "2025-03-06 01:29:41 +0000", "relative_date": "1 year, 2 months ago", "message_subject": "Initial commit Deng, Wang et al. (2023)", "message_body": "DengWang2023Phthiraptera.nwk\n\n(Update document 'ot_2623' via OpenTree API)"}, {"id": "13a554d9f1bf2c35f6dbdadb128857072c4c1ffa", "author_name": "dchesters", "author_email": "dc0357548934@live.co.uk", "date": "Thu, 6 Mar 2025 01:27:40 +0000", "date_ISO_8601": "2025-03-06 01:27:40 +0000", "relative_date": "1 year, 2 months ago", "message_subject": "Update document 'ot_2623' via OpenTree API"}]}