{"sha": "19ec8a2da4b35c55075f155f9fb4d01281774fe5", "data": {"nexml": {"@generator": "Phylografter nexml-json exporter", "@id": "study", "@nexml2json": "1.2.1", "@nexmljson": "http://purl.org/opentree/nexson", "@version": "0.9", "@xmlns": {"$": "http://www.nexml.org/2009", "nex": "http://www.nexml.org/2009", "ot": "http://purl.org/opentree-terms#", "xsd": "http://www.w3.org/2001/XMLSchema#", "xsi": "http://www.w3.org/2001/XMLSchema-instance"}, "^ot:agents": {"agent": [{"@description": "validator of NexSON constraints as well as constraints that would allow a study to be imported into the Open Tree of Life's phylogenetic synthesis tools", "@id": "peyotl-validator", "@name": "validate_ot_nexson.py", "@url": "https://github.com/OpenTreeOfLife/peyotl", "@version": "0.0.4a", "invocation": {"commandLine": ["--embed", "--agent-only"], "otherProperty": [{"name": "pythonVersion", "value": "2.7.5+"}, {"name": "pythonImplementation", "value": "CPython"}]}}, {"@description": "Web-based interface for submitting, editing, and reviewing studies in the Open Tree of Life project.", "@id": "opentree-curation-webapp", "@name": "OpenTree curation webapp", "@url": "https://github.com/OpenTreeOfLife/opentree", "@version": "0.0.0"}]}, "^ot:annotationEvents": {"annotation": [{"@dateCreated": "2015-10-19T17:31:03.459Z", "@description": "Aids for mapping study OTUs to OTT taxa", "@id": "otu-mapping-hints", "@passedChecks": true, "@preserve": true, "@wasAssociatedWithAgentId": "opentree-curation-webapp", "message": [{"@code": "OTU_MAPPING_HINTS", "@humanMessageType": "NONE", "@severity": "INFO", "data": {"searchContext": {"$": "All life"}, "substitutions": {"substitution": [{"@active": false, "@valid": true, "new": {"$": ""}, "old": {"$": ""}}]}, "useFuzzyMatching": false}, "refersTo": {"@top": {"$": "meta"}}}]}, {"@dateCreated": "2015-10-19T17:31:03.459Z", "@description": "Describes supporting data files for this study", "@id": "supporting-files-metadata", "@passedChecks": true, "@preserve": true, "@wasAssociatedWithAgentId": "opentree-curation-webapp", "message": [{"@code": "SUPPORTING_FILE_INFO", "@humanMessageType": "NONE", "@severity": "INFO", "data": {"@movedToPermanentArchive": false, "files": {"file": []}}, "refersTo": {"@top": {"$": "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": ["^ot:nodeLabelMode", "^ot:nodeLabelTimeUnit"], "refersTo": {"@top": "trees", "@idref": "tree856", "@treesID": "trees580", "@treeID": "tree856"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["^ot:nodeLabelMode", "^ot:nodeLabelTimeUnit"], "refersTo": {"@top": "trees", "@idref": "tree857", "@treesID": "trees580", "@treeID": "tree857"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["^ot:nodeLabelMode", "^ot:nodeLabelTimeUnit"], "refersTo": {"@top": "trees", "@idref": "tree858", "@treesID": "trees580", "@treeID": "tree858"}, "@severity": "WARNING"}]}]}, "^ot:candidateTreeForSynthesis": [], "^ot:comment": "", "^ot:curatorName": ["Jiabin Deng", "Joseph W. Brown"], "^ot:dataDeposit": {"@href": "http://purl.org/phylo/treebase/phylows/study/TB2:S1359"}, "^ot:focalClade": 258488, "^ot:focalCladeOTTTaxonName": "Liliales", "^ot:notIntendedForSynthesis": false, "^ot:otusElementOrder": ["otus580"], "^ot:studyId": "pg_580", "^ot:studyPublication": {"@href": "http://dx.doi.org/10.1111/j.0014-3820.2002.tb01334.x"}, "^ot:studyPublicationReference": "Thomas B. Patterson, Thomas J. Givnish. 2002. Phylogeny, concerted convergence, and phylogenetic niche conservatism in the core Liliales: Insights from rbcL and ndhF sequence data. Evolution 56 (2): 233-252", "^ot:studyYear": 2002, "^ot:tag": [], "^ot:treesElementOrder": ["trees580"], "otusById": {"otus580": {"otuById": {"otu172210": {"^ot:originalLabel": "Erythronium albidum", "^ot:ottId": 19156, "^ot:ottTaxonName": "Erythronium albidum", "^ot:treebaseOTUId": "Tl14430"}, "otu172211": {"^ot:originalLabel": "Erythronium japonicum", "^ot:ottId": 545825, "^ot:ottTaxonName": "Erythronium japonicum", "^ot:treebaseOTUId": "Tl14441"}, "otu172212": {"^ot:originalLabel": "Lilium superbum", "^ot:ottId": 592254, "^ot:ottTaxonName": "Lilium superbum", "^ot:treebaseOTUId": "Tl14454"}, "otu172213": {"^ot:originalLabel": "Campynema linearis", "^ot:ottId": 747064, "^ot:ottTaxonName": "Campynema lineare", "^ot:treebaseOTUId": "Tl14976"}, "otu172214": {"^ot:originalLabel": "Clintonia borealis", "^ot:ottId": 520109, "^ot:ottTaxonName": "Clintonia borealis", "^ot:treebaseOTUId": "Tl159480"}, "otu172215": {"^ot:originalLabel": "Medeola virginiana", "^ot:ottId": 833033, "^ot:ottTaxonName": "Medeola virginiana", "^ot:treebaseOTUId": "Tl159487"}, "otu172216": {"^ot:originalLabel": "Veratrum viride", "^ot:ottId": 453154, "^ot:ottTaxonName": "Veratrum viride", "^ot:treebaseOTUId": "Tl159512"}, "otu172217": {"^ot:originalLabel": "Uvularia sessilifolia", "^ot:ottId": 375378, "^ot:ottTaxonName": "Uvularia sessilifolia", "^ot:treebaseOTUId": "Tl159517"}, "otu172218": {"^ot:originalLabel": "Nomocharis pardanthina", "^ot:ottId": 388162, "^ot:ottTaxonName": "Nomocharis pardanthina", "^ot:treebaseOTUId": "Tl37775"}, "otu172219": {"^ot:originalLabel": "Calochortus apiculatus", "^ot:ottId": 116495, "^ot:ottTaxonName": "Calochortus apiculatus", "^ot:treebaseOTUId": "Tl37776"}, "otu172220": {"^ot:originalLabel": "Veratrum viride-album", "^ot:ottId": 603943, "^ot:ottTaxonName": "Veratrum", "^ot:treebaseOTUId": "Tl37777"}, "otu172221": {"^ot:originalLabel": "Calochortus weedii", "^ot:ottId": 19152, "^ot:ottTaxonName": "Calochortus weedii", "^ot:treebaseOTUId": "Tl37778"}, "otu172222": {"^ot:originalLabel": "Cardiocrinum giganteum", "^ot:ottId": 616507, "^ot:ottTaxonName": "Cardiocrinum giganteum", "^ot:treebaseOTUId": "Tl37779"}, "otu172223": {"^ot:originalLabel": "Fritillaria meleagris-agrestis", "^ot:ottId": 19154, "^ot:ottTaxonName": "Fritillaria meleagris", "^ot:treebaseOTUId": "Tl37780"}, "otu172224": {"^ot:originalLabel": "Ripogonum elseyanum", "^ot:ottId": 90936, "^ot:ottTaxonName": "Rhipogonum elseyanum", "^ot:treebaseOTUId": "Tl37781"}, "otu172225": {"^ot:originalLabel": "Androcymbium ciliolatum", "^ot:ottId": 643228, "^ot:ottTaxonName": "Androcymbium ciliolatum", "^ot:treebaseOTUId": "Tl37782"}, "otu172226": {"^ot:originalLabel": "Lloydia serotina", "^ot:ottId": 388168, "^ot:ottTaxonName": "Lloydia serotina", "^ot:treebaseOTUId": "Tl37783"}, "otu172227": {"^ot:originalLabel": "Tricyrtis affinis", "^ot:ottId": 62301, "^ot:ottTaxonName": "Tricyrtis affinis", "^ot:treebaseOTUId": "Tl37784"}, "otu172228": {"^ot:originalLabel": "Tulipa kolpakowskiana", "^ot:ottId": 995737, "^ot:ottTaxonName": "Tulipa kolpakowskiana", "^ot:treebaseOTUId": "Tl37785"}, "otu172229": {"^ot:originalLabel": "Philesia buxifolia", "^ot:ottId": 913595, "^ot:ottTaxonName": "Philesia magellanica", "^ot:treebaseOTUId": "Tl37786"}, "otu172230": {"^ot:originalLabel": "Alstroemeria sp.", "^ot:ottId": 442515, "^ot:ottTaxonName": "Alstroemeria", "^ot:treebaseOTUId": "Tl37787"}, "otu172231": {"^ot:originalLabel": "Calochortus luteus", "^ot:ottId": 19161, "^ot:ottTaxonName": "Calochortus luteus", "^ot:treebaseOTUId": "Tl37789"}, "otu172232": {"^ot:originalLabel": "Streptopus amplexifolius", "^ot:ottId": 540379, "^ot:ottTaxonName": "Streptopus amplexifolius", "^ot:treebaseOTUId": "Tl37790"}, "otu172233": {"^ot:originalLabel": "Cardiocrinum yunanense", "^ot:ottId": 116482, "^ot:ottTaxonName": "Cardiocrinum giganteum var. yunnanense", "^ot:treebaseOTUId": "Tl37791"}, "otu172234": {"^ot:originalLabel": "Streptopus roseus", "^ot:ottId": 62285, "^ot:ottTaxonName": "Streptopus lanceolatus", "^ot:treebaseOTUId": "Tl37792"}, "otu172235": {"^ot:originalLabel": "Erythronium albidum-japonicum", "^ot:ottId": 19156, "^ot:ottTaxonName": "Erythronium albidum", "^ot:treebaseOTUId": "Tl37793"}, "otu172236": {"^ot:originalLabel": "Gagea wilczekii", "^ot:ottId": 19149, "^ot:ottTaxonName": "Gagea wilczekii", "^ot:treebaseOTUId": "Tl37794"}, "otu172237": {"^ot:originalLabel": "Calochortus balsensis", "^ot:ottId": 19162, "^ot:ottTaxonName": "Calochortus balsensis", "^ot:treebaseOTUId": "Tl37795"}, "otu172238": {"^ot:originalLabel": "Scoliopus bigelovii", "^ot:ottId": 76101, "^ot:ottTaxonName": "Scoliopus bigelovii", "^ot:treebaseOTUId": "Tl37796"}, "otu172239": {"^ot:originalLabel": "Lilium kelleyanum-superbum", "^ot:ottId": 19147, "^ot:ottTaxonName": "Lilium kelleyanum", "^ot:treebaseOTUId": "Tl37797"}, "otu172240": {"^ot:originalLabel": "Smilax hispida-glauca", "^ot:ottId": 498690, "^ot:ottTaxonName": "Smilax hispida", "^ot:treebaseOTUId": "Tl37798"}, "otu172241": {"^ot:originalLabel": "Prosartes maculata", "^ot:ottId": 520141, "^ot:ottTaxonName": "Prosartes maculata", "^ot:treebaseOTUId": "Tl37799"}, "otu172242": {"^ot:originalLabel": "Calochortus albus", "^ot:ottId": 736866, "^ot:ottTaxonName": "Calochortus albus", "^ot:treebaseOTUId": "Tl37800"}, "otu172243": {"^ot:originalLabel": "Tricyrtis latifolia-latifolius", "^ot:ottId": 575263, "^ot:ottTaxonName": "Tricyrtis latifolia", "^ot:treebaseOTUId": "Tl37801"}, "otu172244": {"^ot:originalLabel": "Notholirion bulbiferum", "^ot:ottId": 167416, "^ot:ottTaxonName": "Notholirion bulbuliferum", "^ot:treebaseOTUId": "Tl37802"}, "otu172245": {"^ot:originalLabel": "Tricyrtis latifolius", "^ot:ottId": 575263, "^ot:ottTaxonName": "Tricyrtis latifolia", "^ot:treebaseOTUId": "Tl37803"}, "otu172246": {"^ot:originalLabel": "Smilax glauca", "^ot:ottId": 995721, "^ot:ottTaxonName": "Smilax glauca", "^ot:treebaseOTUId": "Tl37804"}, "otu172247": {"^ot:originalLabel": "Fritillaria agrestis", "^ot:ottId": 478500, "^ot:ottTaxonName": "Fritillaria agrestis", "^ot:treebaseOTUId": "Tl37805"}, "otu172248": {"^ot:originalLabel": "Veratrum album", "^ot:ottId": 603938, "^ot:ottTaxonName": "Veratrum album", "^ot:treebaseOTUId": "Tl37806"}, "otu172249": {"^ot:originalLabel": "Fritillaria meleagris", "^ot:ottId": 19154, "^ot:ottTaxonName": "Fritillaria meleagris", "^ot:treebaseOTUId": "Tl37807"}, "otu172250": {"^ot:originalLabel": "Smilax hispida", "^ot:ottId": 498690, "^ot:ottTaxonName": "Smilax hispida", "^ot:treebaseOTUId": "Tl37809"}, "otu172251": {"^ot:originalLabel": "Tricyrtis latifolia", "^ot:ottId": 575263, "^ot:ottTaxonName": "Tricyrtis latifolia", "^ot:treebaseOTUId": "Tl37810"}, "otu172252": {"^ot:originalLabel": "Lilium kelleyanum", "^ot:ottId": 19147, "^ot:ottTaxonName": "Lilium kelleyanum", "^ot:treebaseOTUId": "Tl37811"}}}}, "treesById": {"trees580": {"@otus": "otus580", "^ot:treeElementOrder": ["tree856", "tree857", "tree858"], "treeById": {"tree856": {"@label": "Fig. 2 (combined data)", "@xsi:type": "nex:FloatTree", "^ot:branchLengthDescription": "", "^ot:branchLengthMode": "ot:undefined", "^ot:branchLengthTimeUnit": "Myr", "^ot:curatedType": "Maximum parsimony ", "^ot:inGroupClade": "node347540", "^ot:nodeLabelMode": "", "^ot:nodeLabelTimeUnit": "", "^ot:outGroupEdge": "", "^ot:rootNodeId": "node347536", "^ot:specifiedRoot": "node347536", "^ot:tag": [], "^ot:unrootedTree": false, "edgeBySourceId": {"node347536": {"edge347537": {"@source": "node347536", "@target": "node347537"}, "edge347593": {"@source": "node347536", "@target": "node347593"}}, "node347537": {"edge347538": {"@source": "node347537", "@target": "node347538"}, "edge347587": {"@source": "node347537", "@target": "node347587"}, "edge347592": {"@source": "node347537", "@target": "node347592"}}, "node347538": {"edge347539": {"@source": "node347538", "@target": "node347539"}, "edge347584": {"@source": "node347538", "@target": "node347584"}}, "node347539": {"edge347540": {"@source": "node347539", "@target": "node347540"}, "edge347583": {"@source": "node347539", "@target": "node347583"}}, "node347540": {"edge347541": {"@source": "node347540", "@target": "node347541"}, "edge347561": {"@source": "node347540", "@target": "node347561"}}, "node347541": {"edge347542": {"@source": "node347541", "@target": "node347542"}, "edge347555": {"@source": "node347541", "@target": "node347555"}}, "node347542": {"edge347543": {"@source": "node347542", "@target": "node347543"}, "edge347552": {"@source": "node347542", "@target": "node347552"}}, "node347543": {"edge347544": {"@source": "node347543", "@target": "node347544"}, "edge347551": {"@source": "node347543", "@target": "node347551"}}, "node347544": {"edge347545": {"@source": "node347544", "@target": "node347545"}, "edge347548": {"@source": "node347544", "@target": "node347548"}}, "node347545": {"edge347546": {"@source": "node347545", "@target": "node347546"}, "edge347547": {"@source": "node347545", "@target": "node347547"}}, "node347548": {"edge347549": {"@source": "node347548", "@target": "node347549"}, "edge347550": {"@source": "node347548", "@target": "node347550"}}, "node347552": {"edge347553": {"@source": "node347552", "@target": "node347553"}, "edge347554": {"@source": "node347552", "@target": "node347554"}}, "node347555": {"edge347556": {"@source": "node347555", "@target": "node347556"}, "edge347557": {"@source": "node347555", "@target": "node347557"}, "edge347558": {"@source": "node347555", "@target": "node347558"}}, "node347558": {"edge347559": {"@source": "node347558", "@target": "node347559"}, "edge347560": {"@source": "node347558", "@target": "node347560"}}, "node347561": {"edge347562": {"@source": "node347561", "@target": "node347562"}, "edge347580": {"@source": "node347561", "@target": "node347580"}}, "node347562": {"edge347563": {"@source": "node347562", "@target": "node347563"}, "edge347574": {"@source": "node347562", "@target": "node347574"}, "edge347577": {"@source": "node347562", "@target": "node347577"}}, "node347563": {"edge347564": {"@source": "node347563", "@target": "node347564"}, "edge347573": {"@source": "node347563", "@target": "node347573"}}, "node347564": {"edge347565": {"@source": "node347564", "@target": "node347565"}, "edge347568": {"@source": "node347564", "@target": "node347568"}}, "node347565": {"edge347566": {"@source": "node347565", "@target": "node347566"}, "edge347567": {"@source": "node347565", "@target": "node347567"}}, "node347568": {"edge347569": {"@source": "node347568", "@target": "node347569"}, "edge347570": {"@source": "node347568", "@target": "node347570"}}, "node347570": {"edge347571": {"@source": "node347570", "@target": "node347571"}, "edge347572": {"@source": "node347570", "@target": "node347572"}}, "node347574": {"edge347575": {"@source": "node347574", "@target": "node347575"}, "edge347576": {"@source": "node347574", "@target": "node347576"}}, "node347577": {"edge347578": {"@source": "node347577", "@target": "node347578"}, "edge347579": {"@source": "node347577", "@target": "node347579"}}, "node347580": {"edge347581": {"@source": "node347580", "@target": "node347581"}, "edge347582": {"@source": "node347580", "@target": "node347582"}}, "node347584": {"edge347585": {"@source": "node347584", "@target": "node347585"}, "edge347586": {"@source": "node347584", "@target": "node347586"}}, "node347587": {"edge347588": {"@source": "node347587", "@target": "node347588"}, "edge347589": {"@source": "node347587", "@target": "node347589"}}, "node347589": {"edge347590": {"@source": "node347589", "@target": "node347590"}, "edge347591": {"@source": "node347589", "@target": "node347591"}}}, "nodeById": {"node347536": {"@root": true}, "node347537": {}, "node347538": {}, "node347539": {}, "node347540": {}, "node347541": {}, "node347542": {}, "node347543": {}, "node347544": {}, "node347545": {}, "node347546": {"@otu": "otu172242"}, "node347547": {"@otu": "otu172219"}, "node347548": {}, "node347549": {"@otu": "otu172237"}, "node347550": {"@otu": "otu172231"}, "node347551": {"@otu": "otu172221"}, "node347552": {}, "node347553": {"@otu": "otu172227"}, "node347554": {"@otu": "otu172243"}, "node347555": {}, "node347556": {"@otu": "otu172241"}, "node347557": {"@otu": "otu172238"}, "node347558": {}, "node347559": {"@otu": "otu172232"}, "node347560": {"@otu": "otu172234"}, "node347561": {}, "node347562": {}, "node347563": {}, "node347564": {}, "node347565": {}, "node347566": {"@otu": "otu172222"}, "node347567": {"@otu": "otu172233"}, "node347568": {}, "node347569": {"@otu": "otu172223"}, "node347570": {}, "node347571": {"@otu": "otu172239"}, "node347572": {"@otu": "otu172218"}, "node347573": {"@otu": "otu172244"}, "node347574": {}, "node347575": {"@otu": "otu172235"}, "node347576": {"@otu": "otu172228"}, "node347577": {}, "node347578": {"@otu": "otu172236"}, "node347579": {"@otu": "otu172226"}, "node347580": {}, "node347581": {"@otu": "otu172214"}, "node347582": {"@otu": "otu172215"}, "node347583": {"@otu": "otu172240"}, "node347584": {}, "node347585": {"@otu": "otu172229"}, "node347586": {"@otu": "otu172224"}, "node347587": {}, "node347588": {"@otu": "otu172230"}, "node347589": {}, "node347590": {"@otu": "otu172225"}, "node347591": {"@otu": "otu172217"}, "node347592": {"@otu": "otu172220"}, "node347593": {"@otu": "otu172213"}}}, "tree857": {"@label": "Fig 1A (rbcL)", "@xsi:type": "nex:FloatTree", "^ot:branchLengthDescription": "", "^ot:branchLengthMode": "ot:undefined", "^ot:branchLengthTimeUnit": "Myr", "^ot:curatedType": "Maximum parsimony ", "^ot:inGroupClade": "node347598", "^ot:nodeLabelMode": "", "^ot:nodeLabelTimeUnit": "", "^ot:outGroupEdge": "", "^ot:rootNodeId": "node347594", "^ot:specifiedRoot": "node347594", "^ot:tag": [], "^ot:unrootedTree": false, "edgeBySourceId": {"node347594": {"edge347595": {"@source": "node347594", "@target": "node347595"}, "edge347649": {"@source": "node347594", "@target": "node347649"}}, "node347595": {"edge347596": {"@source": "node347595", "@target": "node347596"}, "edge347648": {"@source": "node347595", "@target": "node347648"}}, "node347596": {"edge347597": {"@source": "node347596", "@target": "node347597"}, "edge347643": {"@source": "node347596", "@target": "node347643"}}, "node347597": {"edge347598": {"@source": "node347597", "@target": "node347598"}, "edge347638": {"@source": "node347597", "@target": "node347638"}}, "node347598": {"edge347599": {"@source": "node347598", "@target": "node347599"}, "edge347606": {"@source": "node347598", "@target": "node347606"}, "edge347628": {"@source": "node347598", "@target": "node347628"}}, "node347599": {"edge347600": {"@source": "node347599", "@target": "node347600"}, "edge347601": {"@source": "node347599", "@target": "node347601"}, "edge347602": {"@source": "node347599", "@target": "node347602"}, "edge347605": {"@source": "node347599", "@target": "node347605"}}, "node347602": {"edge347603": {"@source": "node347602", "@target": "node347603"}, "edge347604": {"@source": "node347602", "@target": "node347604"}}, "node347606": {"edge347607": {"@source": "node347606", "@target": "node347607"}, "edge347625": {"@source": "node347606", "@target": "node347625"}}, "node347607": {"edge347608": {"@source": "node347607", "@target": "node347608"}, "edge347622": {"@source": "node347607", "@target": "node347622"}}, "node347608": {"edge347609": {"@source": "node347608", "@target": "node347609"}, "edge347619": {"@source": "node347608", "@target": "node347619"}}, "node347609": {"edge347610": {"@source": "node347609", "@target": "node347610"}, "edge347618": {"@source": "node347609", "@target": "node347618"}}, "node347610": {"edge347611": {"@source": "node347610", "@target": "node347611"}, "edge347614": {"@source": "node347610", "@target": "node347614"}}, "node347611": {"edge347612": {"@source": "node347611", "@target": "node347612"}, "edge347613": {"@source": "node347611", "@target": "node347613"}}, "node347614": {"edge347615": {"@source": "node347614", "@target": "node347615"}, "edge347616": {"@source": "node347614", "@target": "node347616"}, "edge347617": {"@source": "node347614", "@target": "node347617"}}, "node347619": {"edge347620": {"@source": "node347619", "@target": "node347620"}, "edge347621": {"@source": "node347619", "@target": "node347621"}}, "node347622": {"edge347623": {"@source": "node347622", "@target": "node347623"}, "edge347624": {"@source": "node347622", "@target": "node347624"}}, "node347625": {"edge347626": {"@source": "node347625", "@target": "node347626"}, "edge347627": {"@source": "node347625", "@target": "node347627"}}, "node347628": {"edge347629": {"@source": "node347628", "@target": "node347629"}, "edge347635": {"@source": "node347628", "@target": "node347635"}}, "node347629": {"edge347630": {"@source": "node347629", "@target": "node347630"}, "edge347631": {"@source": "node347629", "@target": "node347631"}, "edge347632": {"@source": "node347629", "@target": "node347632"}}, "node347632": {"edge347633": {"@source": "node347632", "@target": "node347633"}, "edge347634": {"@source": "node347632", "@target": "node347634"}}, "node347635": {"edge347636": {"@source": "node347635", "@target": "node347636"}, "edge347637": {"@source": "node347635", "@target": "node347637"}}, "node347638": {"edge347639": {"@source": "node347638", "@target": "node347639"}, "edge347642": {"@source": "node347638", "@target": "node347642"}}, "node347639": {"edge347640": {"@source": "node347639", "@target": "node347640"}, "edge347641": {"@source": "node347639", "@target": "node347641"}}, "node347643": {"edge347644": {"@source": "node347643", "@target": "node347644"}, "edge347645": {"@source": "node347643", "@target": "node347645"}}, "node347645": {"edge347646": {"@source": "node347645", "@target": "node347646"}, "edge347647": {"@source": "node347645", "@target": "node347647"}}}, "nodeById": {"node347594": {"@root": true}, "node347595": {}, "node347596": {}, "node347597": {}, "node347598": {}, "node347599": {}, "node347600": {"@otu": "otu172242"}, "node347601": {"@otu": "otu172219"}, "node347602": {}, "node347603": {"@otu": "otu172237"}, "node347604": {"@otu": "otu172231"}, "node347605": {"@otu": "otu172221"}, "node347606": {}, "node347607": {}, "node347608": {}, "node347609": {}, "node347610": {}, "node347611": {}, "node347612": {"@otu": "otu172222"}, "node347613": {"@otu": "otu172233"}, "node347614": {}, "node347615": {"@otu": "otu172247"}, "node347616": {"@otu": "otu172212"}, "node347617": {"@otu": "otu172218"}, "node347618": {"@otu": "otu172244"}, "node347619": {}, "node347620": {"@otu": "otu172236"}, "node347621": {"@otu": "otu172226"}, "node347622": {}, "node347623": {"@otu": "otu172211"}, "node347624": {"@otu": "otu172228"}, "node347625": {}, "node347626": {"@otu": "otu172214"}, "node347627": {"@otu": "otu172215"}, "node347628": {}, "node347629": {}, "node347630": {"@otu": "otu172241"}, "node347631": {"@otu": "otu172238"}, "node347632": {}, "node347633": {"@otu": "otu172232"}, "node347634": {"@otu": "otu172234"}, "node347635": {}, "node347636": {"@otu": "otu172227"}, "node347637": {"@otu": "otu172245"}, "node347638": {}, "node347639": {}, "node347640": {"@otu": "otu172229"}, "node347641": {"@otu": "otu172224"}, "node347642": {"@otu": "otu172246"}, "node347643": {}, "node347644": {"@otu": "otu172230"}, "node347645": {}, "node347646": {"@otu": "otu172225"}, "node347647": {"@otu": "otu172217"}, "node347648": {"@otu": "otu172248"}, "node347649": {"@otu": "otu172213"}}}, "tree858": {"@label": "Fig. 1B (ndhF)", "@xsi:type": "nex:FloatTree", "^ot:branchLengthDescription": "", "^ot:branchLengthMode": "ot:undefined", "^ot:branchLengthTimeUnit": "Myr", "^ot:curatedType": "Maximum parsimony ", "^ot:inGroupClade": "node347655", "^ot:nodeLabelMode": "", "^ot:nodeLabelTimeUnit": "", "^ot:outGroupEdge": "", "^ot:rootNodeId": "node347650", "^ot:specifiedRoot": "node347650", "^ot:tag": [], "^ot:unrootedTree": false, "edgeBySourceId": {"node347650": {"edge347651": {"@source": "node347650", "@target": "node347651"}, "edge347707": {"@source": "node347650", "@target": "node347707"}}, "node347651": {"edge347652": {"@source": "node347651", "@target": "node347652"}, "edge347702": {"@source": "node347651", "@target": "node347702"}}, "node347652": {"edge347653": {"@source": "node347652", "@target": "node347653"}, "edge347701": {"@source": "node347652", "@target": "node347701"}}, "node347653": {"edge347654": {"@source": "node347653", "@target": "node347654"}, "edge347698": {"@source": "node347653", "@target": "node347698"}}, "node347654": {"edge347655": {"@source": "node347654", "@target": "node347655"}, "edge347697": {"@source": "node347654", "@target": "node347697"}}, "node347655": {"edge347656": {"@source": "node347655", "@target": "node347656"}, "edge347675": {"@source": "node347655", "@target": "node347675"}}, "node347656": {"edge347657": {"@source": "node347656", "@target": "node347657"}, "edge347668": {"@source": "node347656", "@target": "node347668"}}, "node347657": {"edge347658": {"@source": "node347657", "@target": "node347658"}, "edge347665": {"@source": "node347657", "@target": "node347665"}}, "node347658": {"edge347659": {"@source": "node347658", "@target": "node347659"}, "edge347662": {"@source": "node347658", "@target": "node347662"}, "edge347663": {"@source": "node347658", "@target": "node347663"}, "edge347664": {"@source": "node347658", "@target": "node347664"}}, "node347659": {"edge347660": {"@source": "node347659", "@target": "node347660"}, "edge347661": {"@source": "node347659", "@target": "node347661"}}, "node347665": {"edge347666": {"@source": "node347665", "@target": "node347666"}, "edge347667": {"@source": "node347665", "@target": "node347667"}}, "node347668": {"edge347669": {"@source": "node347668", "@target": "node347669"}, "edge347670": {"@source": "node347668", "@target": "node347670"}}, "node347670": {"edge347671": {"@source": "node347670", "@target": "node347671"}, "edge347672": {"@source": "node347670", "@target": "node347672"}}, "node347672": {"edge347673": {"@source": "node347672", "@target": "node347673"}, "edge347674": {"@source": "node347672", "@target": "node347674"}}, "node347675": {"edge347676": {"@source": "node347675", "@target": "node347676"}, "edge347694": {"@source": "node347675", "@target": "node347694"}}, "node347676": {"edge347677": {"@source": "node347676", "@target": "node347677"}, "edge347688": {"@source": "node347676", "@target": "node347688"}, "edge347691": {"@source": "node347676", "@target": "node347691"}}, "node347677": {"edge347678": {"@source": "node347677", "@target": "node347678"}, "edge347687": {"@source": "node347677", "@target": "node347687"}}, "node347678": {"edge347679": {"@source": "node347678", "@target": "node347679"}, "edge347682": {"@source": "node347678", "@target": "node347682"}}, "node347679": {"edge347680": {"@source": "node347679", "@target": "node347680"}, "edge347681": {"@source": "node347679", "@target": "node347681"}}, "node347682": {"edge347683": {"@source": "node347682", "@target": "node347683"}, "edge347684": {"@source": "node347682", "@target": "node347684"}}, "node347684": {"edge347685": {"@source": "node347684", "@target": "node347685"}, "edge347686": {"@source": "node347684", "@target": "node347686"}}, "node347688": {"edge347689": {"@source": "node347688", "@target": "node347689"}, "edge347690": {"@source": "node347688", "@target": "node347690"}}, "node347691": {"edge347692": {"@source": "node347691", "@target": "node347692"}, "edge347693": {"@source": "node347691", "@target": "node347693"}}, "node347694": {"edge347695": {"@source": "node347694", "@target": "node347695"}, "edge347696": {"@source": "node347694", "@target": "node347696"}}, "node347698": {"edge347699": {"@source": "node347698", "@target": "node347699"}, "edge347700": {"@source": "node347698", "@target": "node347700"}}, "node347702": {"edge347703": {"@source": "node347702", "@target": "node347703"}, "edge347704": {"@source": "node347702", "@target": "node347704"}}, "node347704": {"edge347705": {"@source": "node347704", "@target": "node347705"}, "edge347706": {"@source": "node347704", "@target": "node347706"}}}, "nodeById": {"node347650": {"@root": true}, "node347651": {}, "node347652": {}, "node347653": {}, "node347654": {}, "node347655": {}, "node347656": {}, "node347657": {}, "node347658": {}, "node347659": {}, "node347660": {"@otu": "otu172242"}, "node347661": {"@otu": "otu172219"}, "node347662": {"@otu": "otu172237"}, "node347663": {"@otu": "otu172231"}, "node347664": {"@otu": "otu172221"}, "node347665": {}, "node347666": {"@otu": "otu172227"}, "node347667": {"@otu": "otu172251"}, "node347668": {}, "node347669": {"@otu": "otu172241"}, "node347670": {}, "node347671": {"@otu": "otu172238"}, "node347672": {}, "node347673": {"@otu": "otu172232"}, "node347674": {"@otu": "otu172234"}, "node347675": {}, "node347676": {}, "node347677": {}, "node347678": {}, "node347679": {}, "node347680": {"@otu": "otu172222"}, "node347681": {"@otu": "otu172233"}, "node347682": {}, "node347683": {"@otu": "otu172249"}, "node347684": {}, "node347685": {"@otu": "otu172252"}, "node347686": {"@otu": "otu172218"}, "node347687": {"@otu": "otu172244"}, "node347688": {}, "node347689": {"@otu": "otu172210"}, "node347690": {"@otu": "otu172228"}, "node347691": {}, "node347692": {"@otu": "otu172236"}, "node347693": {"@otu": "otu172226"}, "node347694": {}, "node347695": {"@otu": "otu172214"}, "node347696": {"@otu": "otu172215"}, "node347697": {"@otu": "otu172250"}, "node347698": {}, "node347699": {"@otu": "otu172229"}, "node347700": {"@otu": "otu172224"}, "node347701": {"@otu": "otu172216"}, "node347702": {}, "node347703": {"@otu": "otu172230"}, "node347704": {}, "node347705": {"@otu": "otu172225"}, "node347706": {"@otu": "otu172217"}, "node347707": {"@otu": "otu172213"}}}}}}}}, "branch2sha": {"master": "19ec8a2da4b35c55075f155f9fb4d01281774fe5"}, "commentHTML": "", "duplicateStudyIDs": [], "shardName": "phylesystem-1", "versionHistory": [{"id": "fdd93e554c44f3ce126be91a4b2ece674b4dfebf", "author_name": "Joseph W. Brown", "author_email": "ANONYMOUS", "date": "Mon, 19 Oct 2015 17:37:22 +0000", "date_ISO_8601": "2015-10-19 17:37:22 +0000", "relative_date": "11 years ago", "message_subject": "metadata", "message_body": "(Update document 'pg_580' via OpenTree API)"}, {"id": "cb05d5f94c9c26b26b0d44d16fd6859210cb4147", "author_name": "Joseph W. Brown", "author_email": "ANONYMOUS", "date": "Mon, 19 Oct 2015 17:36:04 +0000", "date_ISO_8601": "2015-10-19 17:36:04 +0000", "relative_date": "11 years ago", "message_subject": "metadata", "message_body": "(Update document 'pg_580' via OpenTree API)"}, {"id": "da286beabc76cb423d20059af175993d05d569ef", "author_name": "Joseph W. Brown", "author_email": "ANONYMOUS", "date": "Mon, 19 Oct 2015 17:35:17 +0000", "date_ISO_8601": "2015-10-19 17:35:17 +0000", "relative_date": "11 years ago", "message_subject": "metadata", "message_body": "(Update document 'pg_580' via OpenTree API)"}, {"id": "d33fb39501605772a074dffc82affa5344ea9a94", "author_name": "Mark T. Holder", "author_email": "mtholder@gmail.com", "date": "Wed, 11 Jun 2014 22:18:34 -0500", "date_ISO_8601": "2014-06-11 22:18:34 -0500", "relative_date": "12 years ago", "message_subject": "corrected study ids"}, {"id": "593d6fbab385716dc0a12f3fc95133e8b7479b37", "author_name": "Mark T. Holder", "author_email": "mtholder@gmail.com", "date": "Tue, 29 Apr 2014 20:05:19 -0500", "date_ISO_8601": "2014-04-29 20:05:19 -0500", "relative_date": "12 years ago", "message_subject": "initial commit with phylografter files from 29 Apr, 2014"}]}