{"sha": "1bbbe21bdd9a32ef81abeb3f038a977fdc0e8e7b", "data": {"nexml": {"@generator": "org.nexml.model.impl.DocumentImpl", "@id": "S12931", "@nexml2json": "1.2.1", "@version": "0.9", "@xmlns": {"$": "http://www.nexml.org/2009", "dc": "http://purl.org/dc/elements/1.1/", "dcterms": "http://purl.org/dc/terms/", "nex": "http://www.nexml.org/2009", "prism": "http://prismstandard.org/namespaces/1.2/basic/", "rdf": "http://www.w3.org/1999/02/22-rdf-syntax-ns#", "rdfs": "http://www.w3.org/2000/01/rdf-schema#", "skos": "http://www.w3.org/2004/02/skos/core#", "tb": "http://purl.org/phylo/treebase/2.0/terms#", "xsd": "http://www.w3.org/2001/XMLSchema#", "xsi": "http://www.w3.org/2001/XMLSchema-instance"}, "^dc:contributor": "Shibatta O.A.", "^dc:creator": "Shibatta O.A.", "^dc:date": "2012-07-02", "^dc:title": "Sistem\u00e1tica e evolu\u00e7\u00e3o da fam\u00edlia Pseudopimelodidae (Ostariophysi, Siluriformes), com a revis\u00e3o taxon\u00f4mica de g\u00eanero Pseudopimelodus.", "^dcterms:bibliographicCitation": "Shibatta O.A. 1998. Sistem\u00e1tica e evolu\u00e7\u00e3o da fam\u00edlia Pseudopimelodidae (Ostariophysi, Siluriformes), com a revis\u00e3o taxon\u00f4mica de g\u00eanero Pseudopimelodus., S\u00e3o Carlos, Universidade Federal S\u00e3o Carlos.", "^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": "2.7.9"}, {"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": "2016-02-15T19:27:54.639Z", "@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": {"$": "Vertebrates"}, "substitutions": {"substitution": [{"@active": false, "@valid": true, "new": {"$": ""}, "old": {"$": ""}}]}, "useFuzzyMatching": false}, "refersTo": {"@top": {"$": "meta"}}}]}, {"@dateCreated": "2016-02-15T19:27:54.639Z", "@description": "Describes supporting data files for this study", "@id": "supporting-files-metadata", "@passedChecks": true, "@preserve": true, "@wasAssociatedWithAgentId": "opentree-curation-webapp", "message": [{"@code": "SUPPORTING_FILE_INFO", "@humanMessageType": "NONE", "@severity": "INFO", "data": {"@movedToPermanentArchive": false, "files": {"file": []}}, "refersTo": {"@top": {"$": "meta"}}}]}, {"@id": "peyotl-validator-event", "@description": "Open Tree NexSON validation", "@wasAssociatedWithAgentId": "peyotl-validator", "@passedChecks": true, "@preserve": false, "message": [{"@code": "UNRECOGNIZED_KEY", "data": ["^dc:contributor", "^dc:creator", "^dc:date", "^dc:title", "^dcterms:bibliographicCitation", "^ot:comment", "^prism:creationDate", "^prism:modificationDate", "^prism:publicationDate", "^prism:section", "^skos:changeNote", "^skos:historyNote", "^tb:identifier.study", "^tb:title.study"], "refersTo": {"@top": "nexml", "@idref": "S12931"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["@label"], "refersTo": {"@top": "trees", "@idref": "Tb17887", "@treesID": "Tb17887"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["^skos:historyNote"], "refersTo": {"@top": "trees", "@idref": "Tb17887", "@treesID": "Tb17887"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["^skos:prefLabel"], "refersTo": {"@top": "otus", "@idref": "Tl832829", "@otusID": "Tls26558", "@otuID": "Tl832829"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["@label"], "refersTo": {"@top": "otus", "@idref": "Tls26558", "@otusID": "Tls26558"}, "@severity": "WARNING"}, {"@code": "MULTIPLE_TIPS_MAPPED_TO_OTT_ID", "data": ["Tl832827", "Tl832828", "Tl832829", "Tl832830", "Tl832832", "Tl832833", "Tl832834", "Tl832836", "Tl832839", "Tl832841", "Tl832845", "Tl832848", "Tl832850", "Tl832851", "Tl832854", "Tl832855", "Tl832859"], "refersTo": {"@top": "otus", "@idref": "Tls26558", "@otusID": "Tls26558"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["^skos:historyNote"], "refersTo": {"@top": "otus", "@idref": "Tls26558", "@otusID": "Tls26558"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["^ot:nodeLabelMode", "^ot:nodeLabelTimeUnit", "^tb:kind.tree", "^tb:ntax.tree", "^tb:quality.tree", "^tb:type.tree"], "refersTo": {"@top": "trees", "@idref": "Tr53933", "@treesID": "Tb17887", "@treeID": "Tr53933"}, "@severity": "WARNING"}, {"@code": "MISSING_OPTIONAL_KEY", "data": ["^ot:ottId"], "refersTo": {"@top": "otus", "@idref": ["Tl832827", "Tl832828", "Tl832829", "Tl832830", "Tl832831", "Tl832832", "Tl832833", "Tl832834", "Tl832835", "Tl832836", "Tl832837", "Tl832838", "Tl832839", "Tl832840", "Tl832841", "Tl832842", "Tl832843", "Tl832844", "Tl832845", "Tl832846", "Tl832847", "Tl832848", "Tl832849", "Tl832850", "Tl832851", "Tl832852", "Tl832853", "Tl832854", "Tl832855", "Tl832856", "Tl832857", "Tl832858", "Tl832859"], "@otusID": "Tls26558", "@otuID": ["Tl832827", "Tl832828", "Tl832829", "Tl832830", "Tl832831", "Tl832832", "Tl832833", "Tl832834", "Tl832835", "Tl832836", "Tl832837", "Tl832838", "Tl832839", "Tl832840", "Tl832841", "Tl832842", "Tl832843", "Tl832844", "Tl832845", "Tl832846", "Tl832847", "Tl832848", "Tl832849", "Tl832850", "Tl832851", "Tl832852", "Tl832853", "Tl832854", "Tl832855", "Tl832856", "Tl832857", "Tl832858", "Tl832859"]}, "@severity": "WARNING"}]}]}, "^ot:candidateTreeForSynthesis": ["Tr53933"], "^ot:comment": "", "^ot:curatorName": ["Mariangeles Arce H."], "^ot:dataDeposit": {"@href": "http://purl.org/phylo/treebase/phylows/study/TB2:S12931"}, "^ot:focalClade": 488972, "^ot:focalCladeOTTTaxonName": "Pseudopimelodidae", "^ot:notIntendedForSynthesis": false, "^ot:otusElementOrder": ["Tls26558"], "^ot:studyId": "ot_599", "^ot:studyPublication": {"@href": ""}, "^ot:studyPublicationReference": "Shibatta O.A. 1998. Sistem\u00e1tica e evolu\u00e7\u00e3o da fam\u00edlia Pseudopimelodidae (Ostariophysi, Siluriformes), com a revis\u00e3o taxon\u00f4mica de g\u00eanero Pseudopimelodus., S\u00e3o Carlos, Universidade Federal S\u00e3o Carlos.", "^ot:studyYear": 1998, "^ot:tag": [], "^ot:taxonLinkPrefixes": {"@ubio": "http://www.ubio.org/authority/metadata.php?lsid=urn:lsid:ubio.org:namebank:", "@uniprot": "http://purl.uniprot.org/taxonomy/"}, "^ot:treesElementOrder": ["Tb17887"], "^prism:creationDate": "2012-06-29", "^prism:modificationDate": "2012-07-02", "^prism:publicationDate": "1998", "^prism:section": "Study", "^skos:changeNote": "Generated on Mon Feb 15 19:27:51 UTC 2016", "^skos:historyNote": "Mapped from TreeBASE schema using org.cipres.treebase.domain.nexus.nexml.NexmlDocumentWriter@2ea71eb0 $Rev: 1060 $", "^tb:identifier.study": "12931", "^tb:title.study": "Sistem\u00e1tica e evolu\u00e7\u00e3o da fam\u00edlia Pseudopimelodidae (Ostariophysi, Siluriformes), com a revis\u00e3o taxon\u00f4mica de g\u00eanero Pseudopimelodus.", "otusById": {"Tls26558": {"@label": "Untitled Taxa Block", "^skos:historyNote": "Mapped from TreeBASE schema using org.cipres.treebase.domain.nexus.nexml.NexmlOTUWriter@45a88fe7 $Rev: 1040 $", "otuById": {"Tl832827": {"^ot:originalLabel": "Lophiosilurus alexandri", "^ot:taxonLink": {"@tb:identifier.taxon": 448554, "@tb:identifier.taxonVariant": 593222, "@ubio": "2495808", "@uniprot": "490146"}}, "Tl832828": {"^ot:originalLabel": "Pseudopimelodus zungaro mangurus"}, "Tl832829": {"^ot:altLabel": "Pseudopimelodus raninus", "^ot:originalLabel": "Pseudopimelodus raninus villosus ", "^ot:taxonLink": {"@tb:identifier.taxon": 340424, "@tb:identifier.taxonVariant": 818591, "@ubio": "2528227", "@uniprot": "390400"}, "^skos:prefLabel": "Batrochoglanis raninus"}, "Tl832830": {"^ot:originalLabel": "Microglanis parahybae", "^ot:taxonLink": {"@tb:identifier.taxon": 612998, "@tb:identifier.taxonVariant": 819834, "@ubio": "2496476"}}, "Tl832831": {"^ot:originalLabel": "Pseudopimelodus mangurus", "^ot:taxonLink": {"@tb:identifier.taxon": 340491, "@tb:identifier.taxonVariant": 377199, "@ubio": "3325119", "@uniprot": "390469"}}, "Tl832832": {"^ot:originalLabel": "Pseudopimelodus zungaro zungaro de Beni"}, "Tl832833": {"^ot:originalLabel": "Pseudopimelodus raninus raninus", "^ot:taxonLink": {"@tb:identifier.taxon": 612990, "@tb:identifier.taxonVariant": 819817, "@ubio": "2500333"}}, "Tl832834": {"^ot:originalLabel": "Pseudopimelodus albomarginatus ", "^ot:taxonLink": {"@tb:identifier.taxon": 612997, "@tb:identifier.taxonVariant": 819833, "@ubio": "3862620"}}, "Tl832835": {"^ot:originalLabel": "Pinirampus pirinampu", "^ot:taxonLink": {"@tb:identifier.taxon": 296172, "@tb:identifier.taxonVariant": 346202, "@ubio": "2499321", "@uniprot": "337629"}}, "Tl832836": {"^ot:originalLabel": "Microglanis poecilus", "^ot:taxonLink": {"@tb:identifier.taxon": 612254, "@tb:identifier.taxonVariant": 818609, "@ubio": "2496478"}}, "Tl832837": {"^ot:originalLabel": "Acestrorhynchus lacustris", "^ot:taxonLink": {"@tb:identifier.taxon": 528226, "@tb:identifier.taxonVariant": 700819, "@ubio": "2486358", "@uniprot": "639293"}}, "Tl832838": {"^ot:originalLabel": "Hoplias malabaricus", "^ot:taxonLink": {"@tb:identifier.taxon": 56620, "@tb:identifier.taxonVariant": 128248, "@ubio": "2494198", "@uniprot": "27720"}}, "Tl832839": {"^ot:originalLabel": "Pseudopimelodus zungaro do rio Magdalena "}, "Tl832840": {"^ot:originalLabel": "Pseudocetopsis gobioides", "^ot:taxonLink": {"@tb:identifier.taxon": 612994, "@tb:identifier.taxonVariant": 819827, "@ubio": "2500180"}}, "Tl832841": {"^ot:originalLabel": "Pseudopimelodus fowleri", "^ot:taxonLink": {"@tb:identifier.taxon": 612989, "@tb:identifier.taxonVariant": 819816, "@ubio": "2500329"}}, "Tl832842": {"^ot:originalLabel": "Cephalosilurus fowleri", "^ot:taxonLink": {"@tb:identifier.taxon": 612989, "@tb:identifier.taxonVariant": 819813, "@ubio": "2509541"}}, "Tl832843": {"^ot:originalLabel": "Pimelodella gracilis", "^ot:taxonLink": {"@tb:identifier.taxon": 612992, "@tb:identifier.taxonVariant": 819822, "@ubio": "2499252"}}, "Tl832844": {"^ot:originalLabel": "Imparfanis piperatus; misspelling?"}, "Tl832845": {"^ot:originalLabel": "Pseudopimelodus apurensis ", "^ot:taxonLink": {"@tb:identifier.taxon": 612991, "@tb:identifier.taxonVariant": 819821, "@ubio": "2500328"}}, "Tl832846": {"^ot:originalLabel": "Pseudopimelodus pulcher", "^ot:taxonLink": {"@tb:identifier.taxon": 448551, "@tb:identifier.taxonVariant": 593218, "@ubio": "2500332", "@uniprot": "490142"}}, "Tl832847": {"^ot:originalLabel": "Pimelodus maculatus", "^ot:taxonLink": {"@tb:identifier.taxon": 442037, "@tb:identifier.taxonVariant": 583508, "@ubio": "3858294", "@uniprot": "466241"}}, "Tl832848": {"^ot:originalLabel": "Pseudopimelodus zungaro zungaro do Alto Parana"}, "Tl832849": {"^ot:originalLabel": "Zungaro zungaro", "^ot:taxonLink": {"@tb:identifier.taxon": 215694, "@tb:identifier.taxonVariant": 813374, "@ubio": "2503858", "@uniprot": "238558"}}, "Tl832850": {"^ot:originalLabel": "Microglanis parahybae de Bahia"}, "Tl832851": {"^ot:originalLabel": "Microglanis cibelae", "^ot:taxonLink": {"@tb:identifier.taxon": 612996, "@tb:identifier.taxonVariant": 819832, "@ubio": "2826424"}}, "Tl832852": {"^ot:originalLabel": "Megalonema platanus", "^ot:taxonLink": {"@tb:identifier.taxon": 612995, "@tb:identifier.taxonVariant": 819831, "@ubio": "2521798"}}, "Tl832853": {"^ot:altLabel": "Cetopsorhamdia", "^ot:originalLabel": "Cetopsorhamdia Sp.", "^ot:taxonLink": {"@tb:identifier.taxon": 296320, "@tb:identifier.taxonVariant": 346332, "@ubio": "115245", "@uniprot": "337797"}}, "Tl832854": {"^ot:originalLabel": "Grupo externo"}, "Tl832855": {"^ot:altLabel": "Microglanis iheringi", "^ot:originalLabel": "Microglanis aff. iheringi", "^ot:taxonLink": {"@tb:identifier.taxon": 296280, "@tb:identifier.taxonVariant": 346301, "@ubio": "2496474", "@uniprot": "337756"}}, "Tl832856": {"^ot:originalLabel": "Iheringichthys labrosus", "^ot:taxonLink": {"@tb:identifier.taxon": 608878, "@tb:identifier.taxonVariant": 813370, "@ubio": "2494668"}}, "Tl832857": {"^ot:originalLabel": "Microglanis cottoides", "^ot:taxonLink": {"@tb:identifier.taxon": 612999, "@tb:identifier.taxonVariant": 819838, "@ubio": "2826422"}}, "Tl832858": {"^ot:originalLabel": "Rhamdia quelen", "^ot:taxonLink": {"@tb:identifier.taxon": 154493, "@tb:identifier.taxonVariant": 229969, "@ubio": "2500908", "@uniprot": "162147"}}, "Tl832859": {"^ot:originalLabel": "Microglanis eurystoma", "^ot:taxonLink": {"@tb:identifier.taxon": 613000, "@tb:identifier.taxonVariant": 819839, "@ubio": "2826423"}}}}}, "treesById": {"Tb17887": {"@label": "Pseudopimelodidae", "@otus": "Tls26558", "^ot:treeElementOrder": ["Tr53933"], "^skos:historyNote": "Mapped from TreeBASE schema using org.cipres.treebase.domain.nexus.nexml.NexmlTreeBlockWriter@6ed495e0 $Rev: 1040 $", "treeById": {"Tr53933": {"@label": "Fig. 17+", "@xsi:type": "nex:FloatTree", "^ot:branchLengthDescription": "", "^ot:branchLengthMode": "ot:undefined", "^ot:branchLengthTimeUnit": "Myr", "^ot:curatedType": "Maximum parsimony ", "^ot:inGroupClade": "", "^ot:nodeLabelMode": "", "^ot:nodeLabelTimeUnit": "", "^ot:outGroupEdge": "", "^ot:rootNodeId": "Tn8990821", "^ot:specifiedRoot": "Tn8990821", "^ot:tag": [], "^ot:unrootedTree": false, "^tb:kind.tree": "Species Tree", "^tb:ntax.tree": 17, "^tb:quality.tree": "Unrated", "^tb:type.tree": "Single", "edgeBySourceId": {"Tn8990813": {"edge886162": {"@source": "Tn8990813", "@target": "Tn8990818"}, "edge886164": {"@source": "Tn8990813", "@target": "Tn8990837"}}, "Tn8990814": {"edge886198": {"@source": "Tn8990814", "@target": "Tn8990826"}, "edge886200": {"@source": "Tn8990814", "@target": "Tn8990834"}}, "Tn8990816": {"edge886170": {"@source": "Tn8990816", "@target": "Tn8990822"}, "edge886172": {"@source": "Tn8990816", "@target": "Tn8990824"}}, "Tn8990817": {"edge886168": {"@source": "Tn8990817", "@target": "Tn8990816"}, "edge886174": {"@source": "Tn8990817", "@target": "Tn8990838"}}, "Tn8990819": {"edge886178": {"@source": "Tn8990819", "@target": "Tn8990829"}, "edge886180": {"@source": "Tn8990819", "@target": "Tn8990825"}}, "Tn8990821": {"edge886158": {"@source": "Tn8990821", "@target": "Tn8990820"}, "edge886160": {"@source": "Tn8990821", "@target": "Tn8990813"}, "edge886166": {"@source": "Tn8990821", "@target": "Tn8990817"}}, "Tn8990831": {"edge886184": {"@source": "Tn8990831", "@target": "Tn8990827"}, "edge886186": {"@source": "Tn8990831", "@target": "Tn8990830"}, "edge886188": {"@source": "Tn8990831", "@target": "Tn8990823"}, "edge886190": {"@source": "Tn8990831", "@target": "Tn8990812"}, "edge886192": {"@source": "Tn8990831", "@target": "Tn8990835"}, "edge886194": {"@source": "Tn8990831", "@target": "Tn8990832"}}, "Tn8990833": {"edge886206": {"@source": "Tn8990833", "@target": "Tn8990836"}, "edge886208": {"@source": "Tn8990833", "@target": "Tn8990828"}}, "Tn8990834": {"edge886202": {"@source": "Tn8990834", "@target": "Tn8990815"}, "edge886204": {"@source": "Tn8990834", "@target": "Tn8990833"}}, "Tn8990838": {"edge886176": {"@source": "Tn8990838", "@target": "Tn8990819"}, "edge886182": {"@source": "Tn8990838", "@target": "Tn8990831"}, "edge886196": {"@source": "Tn8990838", "@target": "Tn8990814"}}}, "nodeById": {"Tn8990812": {"@otu": "Tl832855"}, "Tn8990813": {}, "Tn8990814": {}, "Tn8990815": {"@otu": "Tl832841"}, "Tn8990816": {}, "Tn8990817": {}, "Tn8990818": {"@otu": "Tl832828"}, "Tn8990819": {}, "Tn8990820": {"@otu": "Tl832854"}, "Tn8990821": {"@root": true}, "Tn8990822": {"@otu": "Tl832848"}, "Tn8990823": {"@otu": "Tl832850"}, "Tn8990824": {"@otu": "Tl832832"}, "Tn8990825": {"@otu": "Tl832833"}, "Tn8990826": {"@otu": "Tl832834"}, "Tn8990827": {"@otu": "Tl832830"}, "Tn8990828": {"@otu": "Tl832827"}, "Tn8990829": {"@otu": "Tl832829"}, "Tn8990830": {"@otu": "Tl832836"}, "Tn8990831": {}, "Tn8990832": {"@otu": "Tl832851"}, "Tn8990833": {}, "Tn8990834": {}, "Tn8990835": {"@otu": "Tl832859"}, "Tn8990836": {"@otu": "Tl832845"}, "Tn8990837": {"@otu": "Tl832839"}, "Tn8990838": {}}}}}}}}, "branch2sha": {"master": "1bbbe21bdd9a32ef81abeb3f038a977fdc0e8e7b"}, "commentHTML": "", "duplicateStudyIDs": [], "shardName": "phylesystem-1", "versionHistory": [{"id": "f33c4a82e084b5cf74d6310712fef387111a1a34", "author_name": "Mariangeles Arce H", "author_email": "ANONYMOUS", "date": "Mon, 15 Feb 2016 19:36:07 +0000", "date_ISO_8601": "2016-02-15 19:36:07 +0000", "relative_date": "11 years ago", "message_subject": "Problem with the rooting and selection of ingroup", "message_body": "(Update document 'ot_599' via OpenTree API)"}, {"id": "3739adeb6417ab4fccd77d06cafb56e2798c51c9", "author_name": "Mariangeles Arce H", "author_email": "ANONYMOUS", "date": "Mon, 15 Feb 2016 19:27:52 +0000", "date_ISO_8601": "2016-02-15 19:27:52 +0000", "relative_date": "11 years ago", "message_subject": "Update document 'ot_599' via OpenTree API"}]}