{"sha": "19ec8a2da4b35c55075f155f9fb4d01281774fe5", "data": {"nexml": {"@about": "#study", "@generator": "Open Tree API", "@id": "study", "@nexml2json": "1.2.1", "@nexmljson": "http://purl.org/opentree/nexson", "@version": "0.9", "@xmlns": {"$": "http://www.nexml.org/2009", "nex": "http://www.nexml.org/2009", "ot": "http://purl.org/opentree-terms#", "xhtml": "http://www.w3.org/1999/xhtml/vocab#", "xsd": "http://www.w3.org/2001/XMLSchema#", "xsi": "http://www.w3.org/2001/XMLSchema-instance"}, "^ot:agents": {"agent": [{"@description": "Open Tree NexSON validation", "@id": "peyotl-validator", "@name": "api.opentreeoflife.org/validate", "@url": "https://github.com/OpenTreeOfLife/peyotl", "@version": "0.0.4a", "invocation": {"commandLine": [], "otherProperty": [{"name": "pythonVersion", "value": "3.10.12"}, {"name": "pythonImplementation", "value": "CPython"}]}}, {"@description": "Web-based interface for submitting, editing, and reviewing studies in the Open Tree of Life project.", "@id": "opentree-curation-webapp", "@name": "OpenTree curation webapp", "@url": "https://github.com/OpenTreeOfLife/opentree", "@version": "0.0.0"}]}, "^ot:annotationEvents": {"annotation": [{"@dateCreated": "2025-02-06T18:56:33.408Z", "@description": "Aids for mapping study OTUs to OTT taxa", "@id": "otu-mapping-hints", "@passedChecks": true, "@preserve": true, "@wasAssociatedWithAgentId": "opentree-curation-webapp", "message": [{"@code": "OTU_MAPPING_HINTS", "@humanMessageType": "NONE", "@severity": "INFO", "data": {"autoAcceptExactMatches": true, "searchContext": {"$": "Insects"}, "substitutions": {"substitution": [{"@active": false, "@valid": true, "new": {"$": ""}, "old": {"$": ""}}]}, "useFuzzyMatching": true}, "refersTo": {"@top": {"$": "meta"}}}]}, {"@dateCreated": "2025-02-06T18:56:33.408Z", "@description": "Describes external namesets merged into this study", "@id": "merged-namesets-metadata", "@passedChecks": true, "@preserve": true, "@wasAssociatedWithAgentId": "opentree-curation-webapp", "message": [{"@code": "MERGED_NAMESET_INFO", "@humanMessageType": "NONE", "@severity": "INFO", "data": {"namesets": {"nameset": []}}, "refersTo": {"@top": {"$": "meta"}}}]}, {"@dateCreated": "2025-02-06T18:56:33.408Z", "@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": "Colophina_tree.tre", "@size": 253, "@type": "newick", "@url": "/curator/download/supporting_files.doc.ad30208e8d69ab02.436f6c6f7068696e615f747265652e747265.tre", "description": {"$": "Source data for tree(s) 'tree2'"}, "sourceForTree": [{"$": "tree2"}]}]}}, "refersTo": {"@top": {"$": "meta"}}}]}, {"@id": "peyotl-validator-event", "@description": "Open Tree NexSON validation", "@wasAssociatedWithAgentId": "peyotl-validator", "@passedChecks": true, "@preserve": false, "message": [{"@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": "tree2", "@treesID": "trees1", "@treeID": "tree2"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["^ot:nodeLabelMode", "^ot:nodeLabelTimeUnit", "^ot:reasonsToExcludeFromSynthesis"], "refersTo": {"@top": "trees", "@idref": "tree2", "@treesID": "trees1", "@treeID": "tree2"}, "@severity": "WARNING"}]}]}, "^ot:candidateTreeForSynthesis": [], "^ot:comment": "", "^ot:curatorName": ["LouisBell-Roberts"], "^ot:dataDeposit": {"@href": ""}, "^ot:focalClade": 436306, "^ot:focalCladeOTTTaxonName": "Eriosomatini", "^ot:otusElementOrder": ["otus1"], "^ot:studyId": "ot_2394", "^ot:studyPublication": {"@href": "https://doi.org/10.1101/2022.08.19.501651"}, "^ot:studyPublicationReference": "Uematsu, K., Kutsukake, M., Shigenobu, S., Yang, M.-M., Shibao, H., & Fukatsu, T. (2022). Seasonal polyphenism underlies the origin of a sterile caste in aphids. https://doi.org/10.1101/2022.08.19.501651\n", "^ot:studyYear": 2022, "^ot:tag": [], "^ot:treesElementOrder": ["trees1"], "^xhtml:license": {"@href": "https://creativecommons.org/licenses/by/4.0/deed.en", "@name": "CC BY 4.0"}, "highestMintedElementIDs": {"agent": 0, "annotation": 0, "edge": 27, "message": 0, "node": 29, "otu": 16, "otus": 3, "tree": 2, "trees": 3}, "otusById": {"otus1": {"otuById": {"otu1": {"^ot:originalLabel": "Eriosoma ulmi", "^ot:ottId": 298033, "^ot:ottTaxonName": "Eriosoma ulmi"}, "otu10": {"^ot:originalLabel": "Pemphigus gairi", "^ot:ottId": 298036, "^ot:ottTaxonName": "Pemphigus gairi"}, "otu11": {"^ot:originalLabel": "Acyrthosiphon pisum", "^ot:ottId": 814484, "^ot:ottTaxonName": "Acyrthosiphon pisum"}, "otu12": {"^ot:originalLabel": "Eriosoma lanigerum", "^ot:ottId": 116657, "^ot:ottTaxonName": "Eriosoma lanigerum"}, "otu13": {"^ot:originalLabel": "Colophina clematicola", "^ot:ottId": 3446224, "^ot:ottTaxonName": "Colophina clematicola"}, "otu14": {"^ot:originalLabel": "Colophina clematis", "^ot:ottId": 171074, "^ot:ottTaxonName": "Colophina clematis"}, "otu15": {"^ot:originalLabel": "Colophina monstrifica", "^ot:ottId": 3446225, "^ot:ottTaxonName": "Colophina monstrifica"}, "otu16": {"^ot:originalLabel": "Colophina arma", "^ot:ottId": 3446226, "^ot:ottTaxonName": "Colophina arma"}, "otu2": {"^ot:originalLabel": "Pemphigus microsetosus", "^ot:ottId": 968355, "^ot:ottTaxonName": "Pemphigus microsetosus"}, "otu3": {"^ot:originalLabel": "Pemphigus populi", "^ot:ottId": 661096, "^ot:ottTaxonName": "Pemphigus populi"}, "otu4": {"^ot:originalLabel": "Pemphigus populitransversus", "^ot:ottId": 1055415, "^ot:ottTaxonName": "Pemphigus populitransversus"}, "otu5": {"^ot:originalLabel": "Pemphigus spurothecae", "^ot:ottId": 211255, "^ot:ottTaxonName": "Pemphigus spyrothecae"}, "otu6": {"^ot:originalLabel": "Pemphigus protospirae", "^ot:ottId": 298038, "^ot:ottTaxonName": "Pemphigus protospirae"}, "otu7": {"^ot:originalLabel": "Pemphigus obesinymphae", "^ot:ottId": 779320, "^ot:ottTaxonName": "Pemphigus obesinymphae"}, "otu8": {"^ot:originalLabel": "Pemphigus trehernei", "^ot:ottId": 298040, "^ot:ottTaxonName": "Pemphigus trehernei"}, "otu9": {"^ot:originalLabel": "Pemphigus bursarius", "^ot:ottId": 1063537, "^ot:ottTaxonName": "Pemphigus bursarius"}}}}, "treesById": {"trees1": {"@otus": "otus1", "^ot:treeElementOrder": ["tree2"], "treeById": {"tree2": {"@label": "Fig S2", "@xsi:type": "nex:FloatTree", "^ot:branchLengthDescription": "NA", "^ot:branchLengthMode": "ot:other", "^ot:curatedType": "Maximum likelihood ", "^ot:inGroupClade": "node21", "^ot:nodeLabelMode": "", "^ot:nodeLabelTimeUnit": "", "^ot:outGroupEdge": "", "^ot:reasonsToExcludeFromSynthesis": [], "^ot:rootNodeId": "node19", "^ot:specifiedRoot": "node19", "^ot:tag": [], "^ot:unrootedTree": false, "edgeBySourceId": {"node19": {"edge18": {"@length": 5.246299, "@source": "node19", "@target": "node20"}, "edge19": {"@length": 5.279661, "@source": "node19", "@target": "node21"}}, "node21": {"edge20": {"@length": 1.879402, "@source": "node21", "@target": "node22"}, "edge21": {"@length": 0.867416, "@source": "node21", "@target": "node23"}}, "node23": {"edge22": {"@length": 1.223279, "@source": "node23", "@target": "node24"}, "edge23": {"@length": 0.845175, "@source": "node23", "@target": "node25"}}, "node25": {"edge24": {"@length": 0.333622, "@source": "node25", "@target": "node26"}, "edge25": {"@length": 0.144569, "@source": "node25", "@target": "node27"}}, "node27": {"edge26": {"@length": 0.200173, "@source": "node27", "@target": "node28"}, "edge27": {"@length": 0.244656, "@source": "node27", "@target": "node29"}}}, "nodeById": {"node19": {"@root": true}, "node20": {"@otu": "otu11"}, "node21": {}, "node22": {"@otu": "otu12"}, "node23": {}, "node24": {"@otu": "otu13"}, "node25": {}, "node26": {"@otu": "otu14"}, "node27": {}, "node28": {"@otu": "otu15"}, "node29": {"@otu": "otu16"}}}}}}}}, "branch2sha": {"master": "19ec8a2da4b35c55075f155f9fb4d01281774fe5"}, "commentHTML": "", "duplicateStudyIDs": [], "shardName": "phylesystem-1", "versionHistory": [{"id": "61136565e91576c1e436328dbd3398b65dfb12eb", "author_name": "LouisBell-Roberts", "author_email": "ANONYMOUS", "date": "Thu, 6 Feb 2025 19:03:46 +0000", "date_ISO_8601": "2025-02-06 19:03:46 +0000", "relative_date": "1 year, 3 months ago", "message_subject": "Eriosomatini", "message_body": "(Update document 'ot_2394' via OpenTree API)"}, {"id": "e64365cea12f44e27a9c81cebe24732af9d08c53", "author_name": "LouisBell-Roberts", "author_email": "ANONYMOUS", "date": "Thu, 6 Feb 2025 18:56:24 +0000", "date_ISO_8601": "2025-02-06 18:56:24 +0000", "relative_date": "1 year, 3 months ago", "message_subject": "Update document 'ot_2394' via OpenTree API"}]}