diff --git a/phylorefs/Fisher et al, 2007/README.md b/phylorefs/Fisher et al, 2007/README.md index 7442da5..d3d1ce5 100644 --- a/phylorefs/Fisher et al, 2007/README.md +++ b/phylorefs/Fisher et al, 2007/README.md @@ -17,10 +17,10 @@ ## Current test status * Albifolium: matched node `file1_tree1_node18`, correct node. -* Arthrocormus: **no nodes matched**, caused by [phylo2owl issue #26](https://github.com/phyloref/phylo2owl/issues/26). +* Arthrocormus: matched name `file1_tree1_node22`, correct node. * Calymperaceae: matched node `file1_tree1_node2`, correct node. * Calymperes: matched node `file1_tree1_node9`, correct node. -* Exodictyon: **no nodes matched**, caused by [phylo2owl issue #26](https://github.com/phyloref/phylo2owl/issues/26). +* Exodictyon: matched node `file1_tree1_node26`, correct node. * Exostratum: matched node `file1_tree1_node23`, correct node. * Leucophanella: matched node `file1_tree1_node49`, correct node. * Leucophanes: matched node `file1_tree1_node27`, correct node. diff --git a/phylorefs/Fisher et al, 2007/catalog-v001.xml b/phylorefs/Fisher et al, 2007/catalog-v001.xml index 25a42a2..911fcc9 100644 --- a/phylorefs/Fisher et al, 2007/catalog-v001.xml +++ b/phylorefs/Fisher et al, 2007/catalog-v001.xml @@ -3,11 +3,10 @@ - - - - - - + + + + + diff --git a/phylorefs/Fisher et al, 2007/fisher_et_al_2007.owl b/phylorefs/Fisher et al, 2007/fisher_et_al_2007.owl index 697d780..4061101 100644 --- a/phylorefs/Fisher et al, 2007/fisher_et_al_2007.owl +++ b/phylorefs/Fisher et al, 2007/fisher_et_al_2007.owl @@ -11,809 +11,1379 @@ xmlns:tbd="http://example.org/TBD#" xmlns:tnrs="http://phylotastic.org/terms/tnrs.rdf#" > - - + + + + + + + Leucophanella + + + + + Node and ((has_Descendant some (Node that tnrs:matchedName value "Syrrhopodon banksii"^^xsd:string)) and (has_Descendant some (Node that tnrs:matchedName value "Syrrhopodon involutus"^^xsd:string)) and and (excludes_lineage_to some (Node that tnrs:matchedName value "Syrrhopodon trachyphyllus"^^xsd:string))) + + nomen cladi conversum, Syrrhopodon sect. Leucophanella Besch., Bull. Soc. Bot. France 45: 60. (1898) +Stem-based definition: + +internal Specifier: Type: S. banksii Müll. Hal., Bot. Zeitung (Berlin) 16: 162. (1858) +internal Specifier: Type: S. involutus Schwägr., Sp. Musc. Frond. Suppl. 2, 1(2): 117. pl. 132. (1824) +internal Specifier: Type: S. revolutus Dozy & Molk. +external Specifier: S. trachyphyllus Mont., Sylloge Gen. Sp. Cryptog. 47. (1856) +Important synapomorphies: + +Cancellinae comprising 60–>90% of leaf area +Included terminal clades: + +involutus, banksii + + + + + Syrrhopodon mahensis - - + Syrrhopodon mahensis + + + + Mitthyridium constrictum + + + Mitthyridium constrictum - - - + + Syrrhopodon trachyphyllus + + - - - + + + - + + + + + + + + + + + + + + + + + + + + Syrrhopodon armatus + Syrrhopodon armatus - - - - - - + + + + + + + + + + + + + Leucophanes albescens + Leucophanes albescens + + + Type: Exostratum blumii (Nees ex Hampe) L. Ellis, Lindbergia 11: 22. (1985) + Exostratum blumii + + + + + + + - - - - - - - - + + + + - - + + + - + + + - - - - - - - - + + + + + - - + + + - - - - - - - - - - - - + + - - + + + + + - - - - - + + + + + + + - - + + + + + + + + (((((((((((Arthrocormus_schimperi,(Exostratum_blumii_243,Exostratum_blumii_245)Exostratum),(Exodictyon_incrassatum,((Leucophanes_seychellarum,(Leucophanes_octoblepharoides,Leucophanes_albescens),Leucophanes_glaucum),Syrrhopodon_confertus)Leucophanes))Albifolium,Syrrhopodon_muelleri),Syrrhopodon_perarmatus),((Syrrhopodon_ciliatus,(Syrrhopodon_albovaginatus_446,Syrrhopodon_albovaginatus_162)),(((Syrrhopodon_tortillis,Syrrhopodon_leprieurii),Syrrhopodon_prolifer),(Syrrhopodon_parasiticus,Syrrhopodon_trachyphyllus,(Syrrhopodon_banksii,Syrrhopodon_involutus)Leucophanella)))Trachymitrium),(Syrrhopodon_armatus,Syrrhopodon_fimbriatulus)),(((((Mitthyridium_obtusifolium,Mitthyridium_constrictum),Mitthyridium_fasciculatum),(Mitthyridium_undulatum,Mitthyridium_jungquilianum))Mitthyridium,Syrrhopodon_mahensis),(Syrrhopodon_tristichus,(Syrrhopodon_croceus,Syrrhopodon_apertus,Syrrhopodon_fissipapillatus))))Syrrhopodon,((Syrrhopodon_incompletus,(((((Calymperes_palisotii_159,Calymperes_palisotii_180),Calymperes_motleyi),(Calymperes_erosum,Calymperes_robinsonii)),((Calymperes_tenerum,Calymperes_subintegrum,(Calymperes_tuatomuense,Calymperes_pseudopodianum),Calymperes_hispidium),Calymperes_moluccense)),(((Calymperes_tahitense_320,Calymperes_tahitense_115),Calymperes_lonchophyllum),((Calymperes_afzelii_179,Calymperes_afzelii_165),Calymperes_graffeanum)))),Syrrhopodon_mauritianus)Calymperes),Syrrhopodon_japonicus),Syrrhopodon_gardneri)Calymperaceae,(Octoblepharum_Moorea_445,Octoblepharum_albidum)Octoblepharum); + - + + + + + - + + + + + + - + + - - - - - + + + + + + + + + + - - - - - - (((((((((((Arthrocormus_schimperi,(Exostratum_blumii_243,Exostratum_blumii_245)Exostratum),(Exodictyon_incrassatum,((Leucophanes_seychellarum,(Leucophanes_octoblepharoides,Leucophanes_albescens),Leucophanes_glaucum),Syrrhopodon_confertus)Leucophanes))Albifolium,Syrrhopodon_muelleri),Syrrhopodon_perarmatus),((Syrrhopodon_ciliatus,(Syrrhopodon_albovaginatus_446,Syrrhopodon_albovaginatus_162)),(((Syrrhopodon_tortillis,Syrrhopodon_leprieurii),Syrrhopodon_prolifer),(Syrrhopodon_parasiticus,Syrrhopodon_trachyphyllus,(Syrrhopodon_banksii,Syrrhopodon_involutus)Leucophanella)))Trachymitrium),(Syrrhopodon_armatus,Syrrhopodon_fimbriatulus)),(((((Mitthyridium_obtusifolium,Mitthyridium_constrictum),Mitthyridium_fasciculatum),(Mitthyridium_undulatum,Mitthyridium_jungquilianum))Mitthyridium,Syrrhopodon_mahensis),(Syrrhopodon_tristichus,(Syrrhopodon_croceus,Syrrhopodon_apertus,Syrrhopodon_fissipapillatus))))Syrrhopodon,((Syrrhopodon_incompletus,(((((Calymperes_palisotii_159,Calymperes_palisotii_180),Calymperes_motleyi),(Calymperes_erosum,Calymperes_robinsonii)),((Calymperes_tenerum,Calymperes_subintegrum,(Calymperes_tuatomuense,Calymperes_pseudopodianum),Calymperes_hispidium),Calymperes_moluccense)),(((Calymperes_tahitense_320,Calymperes_tahitense_115),Calymperes_lonchophyllum),((Calymperes_afzelii_179,Calymperes_afzelii_165),Calymperes_graffeanum)))),Syrrhopodon_mauritianus)Calymperes),Syrrhopodon_japonicus),Syrrhopodon_gardneri)Calymperaceae,(Octoblepharum_Moorea_445,Octoblepharum_albidum)Octoblepharum); - - + + + - - - - - - - - - - - - - - + + + + + + + + - - - - - - - - + + + - - - - - - - - - - + + + + + + + + - - Leucophanes octoblepharoides - - + + + + + + + + + Syrrhopodon banksii + + + + Syrrhopodon banksii + + + Type: S. banksii Müll. Hal., Bot. Zeitung (Berlin) 16: 162. (1858) + Syrrhopodon banksii + + + + + + + + + + + + + Calymperes + + Node and ((has_Descendant some (Node that tnrs:matchedName value "Calymperes lonchophyllum"^^xsd:string)) and (has_Descendant some (Node that tnrs:matchedName value "Syrrhopodon mauritianus"^^xsd:string)) and (excludes_lineage_to some (Node that tnrs:matchedName value "Syrrhopodon croceus"^^xsd:string))) + + nomen cladi conversum, Calymperes lonchophyllum Schwägr., Tab. Exhib. Calyptr. Opercul. (3). 1814 (1813). +Stem-based definition: +internal specifier: Type: Calymperes lonchophyllum Schwägr., Tab. Exhib. Calyptr. Opercul. (3). 1814 (1813). +internal specifier: Type: Syrrhopodon mauritianus Müll. Hal. ex Ångstr., Öfv. Förh. Kongl. Svenska Vet.-Akad. 33(4): 54. (1876) +external specifier: Type: Syrrhopodon croceus Mitt., J. Proc. Linn. Soc., Bot. Suppl. 1: 41. (1859) Important synapomorphies: +peristome greatly reduced or absent +sheathed or intramarginal elongate border cells +campanulate calyptrae +specialized gemmiferous leaves +Included terminal clades: afzelii, dozyanum, erosum, hispidum, incompletum, lonchophyllum, mauritianus, moluccense, motleyi, palisotii, pseudopodianum, robinsonii, subintegrum, tahitense, tenerum, tuamotuense + + + + + Syrrhopodon ciliatus + + + + + + Node and ((has_Descendant some (Node that tnrs:matchedName value "Exostratum blumii"^^xsd:string)) and and (excludes_lineage_to some (Node that tnrs:matchedName value "Arthrocormus schimperi"^^xsd:string))) + + + Exostratum + nomen cladi conversum, Exostratum blumii (Nees ex Hampe) L. Ellis, Lindbergia 11: 22. (1985) +Stem-based definition: + +internal specifier: Type: Exostratum blumii (Nees ex Hampe) L. Ellis, Lindbergia 11: 22. (1985) +internal specifier: Mishler 7/24/98(3), Queensland, Australia (uc) +external specifier: Type: Arthrocormus schimperi (Dozy & Molk.) Dozy & Molk. (= Mielichhoferia schimperi Dozy & Molk.), Musci Frond. Ined. Archip. Ind. 75. (1846) +Included terminal clade: + +blumii + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + https://treebase.org/treebase-web/search/study/taxa.html?id=1624&treeid=748 + + + ((((((((((('Arthrocormus schimperi',('Exostratum blumii 243','Exostratum blumii 245')Exostratum),('Exodictyon incrassatum',(('Leucophanes seychellarum',('Leucophanes octoblepharoides','Leucophanes albescens'),'Leucophanes glaucum'),'Syrrhopodon confertus')Leucophanes))Albifolium,'Syrrhopodon muelleri'),'Syrrhopodon perarmatus'),(('Syrrhopodon ciliatus',('Syrrhopodon albovaginatus 446','Syrrhopodon albovaginatus 162')),((('Syrrhopodon tortillis','Syrrhopodon leprieurii'),'Syrrhopodon prolifer'),('Syrrhopodon parasiticus','Syrrhopodon trachyphyllus',('Syrrhopodon banksii','Syrrhopodon involutus')Leucophanella)))Trachymitrium),('Syrrhopodon armatus','Syrrhopodon fimbriatulus')),((((('Mitthyridium obtusifolium','Mitthyridium constrictum'),'Mitthyridium fasciculatum'),('Mitthyridium undulatum','Mitthyridium jungquilianum'))Mitthyridium,'Syrrhopodon mahensis'),('Syrrhopodon tristichus',('Syrrhopodon croceus','Syrrhopodon apertus','Syrrhopodon fissipapillatus'))))Syrrhopodon,(('Syrrhopodon incompletus',((((('Calymperes palisotii 159','Calymperes palisotii 180'),'Calymperes motleyi'),('Calymperes erosum','Calymperes robinsonii')),(('Calymperes tenerum','Calymperes subintegrum',('Calymperes tuatomuense','Calymperes pseudopodianum'),'Calymperes hispidium'),'Calymperes moluccense')),((('Calymperes tahitense 320','Calymperes tahitense 115'),'Calymperes lonchophyllum'),(('Calymperes afzelii 179','Calymperes afzelii 165'),'Calymperes graffeanum')))),'Syrrhopodon mauritianus')Calymperes),'Syrrhopodon japonicus'),'Syrrhopodon gardneri')Calymperaceae,('Octoblepharum Moorea 445','Octoblepharum albidum')Octoblepharum); + + + + + + + + + + + Leucophanes + + + + + + + Albifolium + + Albifolium + + + + + + + + + + + Calymperes graffeanum + + Calymperes graffeanum + + + + + + + + + + + + + + + + + + + + + + + + + + + + + 2007 + + + Gaurav Vaidya <gaurav@ggvaidya.com> + + Fisher KM, Wall DP, Yip KL, Mishler BD (2007) The Bryologist 110(1):46-73. + None. + + + + + + + + + + + + + + + + + + + + Type: Leucophanes octoblepharoides Brid., Bryol. Univ. 1: 763. (1826) + Leucophanes octoblepharoides + + + + + + + + + + + Syrrhopodon ciliatus + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + Syrrhopodon tristichus + + Syrrhopodon tristichus + + + + + + + + + + + + + + + + Type: Octoblepharum albidum Hedw., Sp. Musc. 50. (1801) + Octoblepharum albidum + + + + + + Calymperaceae + + Calymperaceae + + + + + Exodictyon + Node and ((has_Descendant some (Node that tnrs:submittedName value "Exodictyon incrassatum (Mitt.) Cardot"^^xsd:string or tnrs:matchedName value "Exodictyon incrassatum"^^xsd:string)) and (excludes_lineage_to some (Node that tnrs:matchedName value "Leucophanes octoblepharoides"^^xsd:string))) + + + + nomen cladi conversum, Exodictyon Cardot, Rev. Bryol. Lichénol. 26: 6. (1899), excl. parte, emend Ellis in Lindbergia 11: 16 (1985) + +Stem-based definition: + +internal specifier: Type: Exodictyon Cardot, Rev. Bryol. Lichénol. 26: 6. (1899), excl. parte, emend Ellis in Lindbergia 11: 16 (1985) +internal specifier: Wall 2527, Fiji (uc) +external specifier: Type: Leucophanes octoblepharoides Brid., Bryol. Univ. 1: 763. (1826) +Included terminal clade: + +incrassatum + + + + + + + + + + + Syrrhopodon + + + + + + Syrrhopodon + + + + + Mitthyridium + + + Mitthyridium + + + + + + + + Syrrhopodon mauritianus + + + + Syrrhopodon prolifer + Syrrhopodon prolifer + + + + + + Leucophanes octoblepharoides + + Leucophanes octoblepharoides + + + + + Mitthyridium fasciculatum + Mitthyridium fasciculatum + + + + + + + + + + + + + + + + Syrrhopodon mauritianus + Type: Syrrhopodon mauritianus Müll. Hal. ex Ångstr., Öfv. Förh. Kongl. Svenska Vet.-Akad. 33(4): 54. (1876) + + + + + + + + + + + + + + Arthrocormus + + Arthrocormus schimperi + + + + + + + + + + + + + + + + Calymperes hispidium + Calymperes hispidium + + + + Exodictyon incrassatum (Mitt.) Cardot + Exodictyon incrassatum + Type: Exodictyon Cardot, Rev. Bryol. Lichénol. 26: 6. (1899), excl. parte, emend Ellis in Lindbergia 11: 16 (1985) -- Wall 2527, Fiji (uc) + + + + + + + + + + + + + + + + Syrrhopodon apertus + + Syrrhopodon apertus + + + + + + Calymperes palisotii 180 + Calymperes palisotii + + + + + + + + Leucophanes + + Leucophanes + + + + + + + + + + + + + + + + + + + + + + + + Syrrhopodon perarmatus + + + + Exodictyon incrassatum (Mitt.) Cardot + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + Syrrhopodon croceus + + + + + + + + Calymperes motleyi + + + Calymperes motleyi + + + + + + Exostratum blumii - - Syrrhopodon perarmatus - Type: Syrrhopodon perarmatus Broth. & Watts, J. & Proc. Roy. Soc. New South Wales 49: 133. (1915) + + + Mitthyridium fasciculatum + - - Calymperes erosum + + + + - Calymperes erosum - - - Leucophanes octoblepharoides + + Syrrhopodon mauritianus - - + + + + + + - - - - - - - - - ((((((((((('Arthrocormus schimperi',('Exostratum blumii 243','Exostratum blumii 245')Exostratum),('Exodictyon incrassatum',(('Leucophanes seychellarum',('Leucophanes octoblepharoides','Leucophanes albescens'),'Leucophanes glaucum'),'Syrrhopodon confertus')Leucophanes))Albifolium,'Syrrhopodon muelleri'),'Syrrhopodon perarmatus'),(('Syrrhopodon ciliatus',('Syrrhopodon albovaginatus 446','Syrrhopodon albovaginatus 162')),((('Syrrhopodon tortillis','Syrrhopodon leprieurii'),'Syrrhopodon prolifer'),('Syrrhopodon parasiticus','Syrrhopodon trachyphyllus',('Syrrhopodon banksii','Syrrhopodon involutus')Leucophanella)))Trachymitrium),('Syrrhopodon armatus','Syrrhopodon fimbriatulus')),((((('Mitthyridium obtusifolium','Mitthyridium constrictum'),'Mitthyridium fasciculatum'),('Mitthyridium undulatum','Mitthyridium jungquilianum'))Mitthyridium,'Syrrhopodon mahensis'),('Syrrhopodon tristichus',('Syrrhopodon croceus','Syrrhopodon apertus','Syrrhopodon fissipapillatus'))))Syrrhopodon,(('Syrrhopodon incompletus',((((('Calymperes palisotii 159','Calymperes palisotii 180'),'Calymperes motleyi'),('Calymperes erosum','Calymperes robinsonii')),(('Calymperes tenerum','Calymperes subintegrum',('Calymperes tuatomuense','Calymperes pseudopodianum'),'Calymperes hispidium'),'Calymperes moluccense')),((('Calymperes tahitense 320','Calymperes tahitense 115'),'Calymperes lonchophyllum'),(('Calymperes afzelii 179','Calymperes afzelii 165'),'Calymperes graffeanum')))),'Syrrhopodon mauritianus')Calymperes),'Syrrhopodon japonicus'),'Syrrhopodon gardneri')Calymperaceae,('Octoblepharum Moorea 445','Octoblepharum albidum')Octoblepharum); - - - - - https://treebase.org/treebase-web/search/study/taxa.html?id=1624&treeid=748 - - + + + + - - - - Syrrhopodon - - - - Syrrhopodon + + Syrrhopodon involutus + + - - - - - - + + Type: Calymperes lonchophyllum Schwägr., Tab. Exhib. Calyptr. Opercul. (3). 1814 (1813). + Calymperes lonchophyllum - - - - - - + + + + Calymperes lonchophyllum - - - + + Calymperes subintegrum - - - - + + + - + + - - - - Syrrhopodon fimbriatulus - - Syrrhopodon fimbriatulus - + + + - - - Octoblepharum Moorea 445 - Octoblepharum Moorea + + Calymperes lonchophyllum + + Calymperes lonchophyllum - - - + + + Mitthyridium fasciculatum + - - - + + + - - - + + Exostratum blumii 245 + Exostratum blumii + - Calymperes - Calymperes - - - Calymperes tahitense - Calymperes tahitense 320 - + + + + + + Syrrhopodon croceus + Type: Syrrhopodon croceus Mitt., J. Proc. Linn. Soc., Bot. Suppl. 1: 41. (1859) + + + + + - - + + + + + + Syrrhopodon incompletus + + Syrrhopodon incompletus - - - - - + + + - - - Arthrocormus schimperi - + + + - - - Arthrocormus schimperi - + + - - - - - Calymperes - Node and ((has_Descendant some (Node that tnrs:matchedName value "Calymperes lonchophyllum"^^xsd:string)) and (has_Descendant some (Node that tnrs:matchedName value "Syrrhopodon mauritianus"^^xsd:string)) and (excludes_lineage_to some (Node that tnrs:matchedName value "Syrrhopodon croceus"^^xsd:string))) - - nomen cladi conversum, Calymperes lonchophyllum Schwägr., Tab. Exhib. Calyptr. Opercul. (3). 1814 (1813). + + + + + + + Arthrocormus schimperi + Type: Arthrocormus schimperi (Dozy & Molk.) Dozy & Molk. (= Mielichhoferia schimperi Dozy & Molk.), Musci Frond. Ined. Archip. Ind. 75. (1846) -- Mishler 7/24/98 (5) Queensland, Australia (UC) + + + + + + + Albifolium + nomen cladi novum + Stem-based definition: -internal specifier: Type: Calymperes lonchophyllum Schwägr., Tab. Exhib. Calyptr. Opercul. (3). 1814 (1813). -internal specifier: Type: Syrrhopodon mauritianus Müll. Hal. ex Ångstr., Öfv. Förh. Kongl. Svenska Vet.-Akad. 33(4): 54. (1876) -external specifier: Type: Syrrhopodon croceus Mitt., J. Proc. Linn. Soc., Bot. Suppl. 1: 41. (1859) Important synapomorphies: -peristome greatly reduced or absent -sheathed or intramarginal elongate border cells -campanulate calyptrae -specialized gemmiferous leaves -Included terminal clades: afzelii, dozyanum, erosum, hispidum, incompletum, lonchophyllum, mauritianus, moluccense, motleyi, palisotii, pseudopodianum, robinsonii, subintegrum, tahitense, tenerum, tuamotuense + +internal specifier: Type: Arthrocormus schimperi (Dozy & Molk.) Dozy & Molk. (=Mielichhoferia schimperi Dozy & Molk.), Musci Frond. Ined. Archip. Ind. 75. (1846) +internal specifier: Type: Leucophanes octoblepharoides Brid., Bryol. Univ. 1: 763. (1826) +external specifier: Type: Syrrhopodon muelleri (Dozy & Molk) Sande Lac., Bryol. Jav. 2: 224. (1870) +Important synapomorphies: + +Leaf architecture / chlorocysts and hyalocysts +circular depressions on peristome +Included clades: + +Arthrocormus, Exodictyon, Exostratum, Leucophanes + + Node and ((has_Descendant some (Node that skos:closeMatch value "{'@id': 'http://www.tropicos.org/Name/35179022'}"^^xsd:string)) and (has_Descendant some (Node that tnrs:matchedName value "Leucophanes octoblepharoides"^^xsd:string)) and (excludes_lineage_to some (Node that tnrs:matchedName value "Syrrhopodon muelleri"^^xsd:string))) - + + + + - + - - - - - - - - + - - - - - Calymperes moluccense - Calymperes moluccense + + + + - - - + + + + Mitthyridium undulatum - - - Syrrhopodon ciliatus - - - Syrrhopodon ciliatus + + + - - - - - Octoblepharum albidum - Octoblepharum albidum + + + - - - - + + Calymperes tahitense 115 + + Calymperes tahitense - + + + Arthrocormus + nomen cladi conversum, Arthrocormus schimperi (Dozy & Molk.) Dozy & Molk. (= Mielichhoferia schimperi Dozy & Molk.), Musci Frond. Ined. Archip. Ind. 75. (1846) +Stem-based definition: + +internal specifier: Type: Arthrocormus schimperi (Dozy & Molk.) Dozy & Molk. (= Mielichhoferia schimperi Dozy & Molk.), Musci Frond. Ined. Archip. Ind. 75. (1846) +internal specifier: Mishler 7/24/98 (5) Queensland, Australia (UC) +external specifier: Type: Exostratum blumii (Nees ex Hampe) L. Ellis, Lindbergia 11: 22. (1985) +Included terminal clade: + +schimperi + + Node and ((has_Descendant some (Node that tnrs:matchedName value "Arthrocormus schimperi"^^xsd:string)) and (excludes_lineage_to some (Node that tnrs:matchedName value "Exostratum blumii"^^xsd:string))) + - Node and ((has_Descendant some (Node that tnrs:matchedName value "Syrrhopodon gardneri"^^xsd:string)) and (has_Descendant some (Node that tnrs:matchedName value "Leucophanes octoblepharoides"^^xsd:string)) and (excludes_lineage_to some (Node that tnrs:matchedName value "Octoblepharum albidum"^^xsd:string))) - - - - Calymperaceae - nomen cladi conversum, Calymperaceae ____ Hal., Synop. Musc. Frond. 1. (1849) - Stem-based definition: - internal specifier: Type: Syrrhopodon gardneri (Hook.) Schw____, Sp. Musc. Frond. Suppl. 2(1): 110, tab. 131, figs. ____ (1824) - internal specifier: Type: Leucophanes octoblepharoides Brid., Bryol. Univ. 1: 763. (1826) - external specifier: Type: Octoblepharum albidum Hedw., Sp. Musc. 50. (1801) - Important synapomorphies: cancellinae, central strand absent from stem - Included terminal clades: gardneri, japonicus - - + + - - Mitthyridium obtusifolium - Mitthyridium obtusifolium + + - - + + + + + + + + + + + + + + + + + + + + + + + - Calymperes motleyi - Calymperes motleyi + - - + + - - - - Node and ((has_Descendant some (Node that skos:closeMatch value "{'@id': 'http://www.tropicos.org/Name/35179022'}"^^xsd:string)) and (has_Descendant some (Node that tnrs:matchedName value "Leucophanes octoblepharoides"^^xsd:string)) and (excludes_lineage_to some (Node that tnrs:matchedName value "Syrrhopodon muelleri"^^xsd:string))) - - - Albifolium - nomen cladi novum + + + + + + + Leucophanes + nomen cladi conversum, Leucophanes octoblepharoides Brid., Bryol. Univ. 1: 763. (1826) Stem-based definition: -internal specifier: Type: Arthrocormus schimperi (Dozy & Molk.) Dozy & Molk. (=Mielichhoferia schimperi Dozy & Molk.), Musci Frond. Ined. Archip. Ind. 75. (1846) internal specifier: Type: Leucophanes octoblepharoides Brid., Bryol. Univ. 1: 763. (1826) -external specifier: Type: Syrrhopodon muelleri (Dozy & Molk) Sande Lac., Bryol. Jav. 2: 224. (1870) -Important synapomorphies: - -Leaf architecture / chlorocysts and hyalocysts -circular depressions on peristome -Included clades: +internal specifier: Type: Leucophanes seychellarum Besch., Ann. Sci. Nat., Bot., VI, 9: 337. (1880) +external specifier: Wall 2527, Fiji (uc) +Included terminal clades: -Arthrocormus, Exodictyon, Exostratum, Leucophanes - - - - - - Syrrhopodon leprieurii - Syrrhopodon leprieurii - - +confertus, glaucum, octoblepharoides, seychellarum + Node and ((has_Descendant some (Node that tnrs:matchedName value "Leucophanes octoblepharoides"^^xsd:string)) and (has_Descendant some (Node that tnrs:matchedName value "Leucophanes seychellarum"^^xsd:string)) and (excludes_lineage_to some (Node that tnrs:matchedName value "Exodictyon incrassatum"^^xsd:string))) + - + - + - - Exostratum - + - - Exostratum - + Octoblepharum + + Octoblepharum + + - - - Leucophanes albescens - - Leucophanes albescens + + + Trachymitrium + + Trachymitrium + + - + + + Leucophanella + - - + + Leucophanella + - - Syrrhopodon perarmatus - - + + + - - - - - + + + + + - + + Exostratum blumii 243 + + + Exostratum blumii - + + + - Syrrhopodon tortillis - Syrrhopodon tortillis + + + - - - + + Leucophanes octoblepharoides + + + + + + + + Syrrhopodon albovaginatus 446 + Syrrhopodon albovaginatus - Syrrhopodon albovaginatus - Syrrhopodon albovaginatus 446 - - - - - - - - - - - + + + Calymperes + - Trachymitrium - - Trachymitrium - + Calymperes + + - + + - - - + + - - - - - - - Mitthyridium fasciculatum - Mitthyridium fasciculatum - - + + Arthrocormus schimperi + Type: Arthrocormus schimperi (Dozy & Molk.) Dozy & Molk. (= Mielichhoferia schimperi Dozy & Molk.), Musci Frond. Ined. Archip. Ind. 75. (1846) - - Mitthyridium - - Mitthyridium - - - - + + Leucophanes seychellarum + Type: Leucophanes seychellarum Besch., Ann. Sci. Nat., Bot., VI, 9: 337. (1880) - - Syrrhopodon trachyphyllus - external Specifier: S. trachyphyllus Mont., Sylloge Gen. Sp. Cryptog. 47. (1856) + + + + Exodictyon incrassatum (Mitt.) Cardot - - + + - - - + + + - - - + + + + + + - - - + + + - - - Node and ((has_Descendant some (Node that tnrs:submittedName value "Exodictyon incrassatum (Mitt.) Cardot"^^xsd:string or tnrs:matchedName value "Exodictyon incrassatum"^^xsd:string)) and (excludes_lineage_to some (Node that tnrs:matchedName value "Leucophanes octoblepharoides"^^xsd:string))) - Exodictyon - - - nomen cladi conversum, Exodictyon Cardot, Rev. Bryol. Lichénol. 26: 6. (1899), excl. parte, emend Ellis in Lindbergia 11: 16 (1985) - -Stem-based definition: - -internal specifier: Type: Exodictyon Cardot, Rev. Bryol. Lichénol. 26: 6. (1899), excl. parte, emend Ellis in Lindbergia 11: 16 (1985) -internal specifier: Wall 2527, Fiji (uc) -external specifier: Type: Leucophanes octoblepharoides Brid., Bryol. Univ. 1: 763. (1826) -Included terminal clade: - -incrassatum + + + + + + + + + + - - - + + + + + - - - + + + + + + - + + - - - - Leucophanes + + + + + - - Leucophanes - + - - - + + Calymperes afzelii 179 - - - + + + + + + + - - - - - nomen cladi conversum, Leucophanes octoblepharoides Brid., Bryol. Univ. 1: 763. (1826) - -Stem-based definition: - -internal specifier: Type: Leucophanes octoblepharoides Brid., Bryol. Univ. 1: 763. (1826) -internal specifier: Type: Leucophanes seychellarum Besch., Ann. Sci. Nat., Bot., VI, 9: 337. (1880) -external specifier: Wall 2527, Fiji (uc) -Included terminal clades: - -confertus, glaucum, octoblepharoides, seychellarum - Leucophanes - Node and ((has_Descendant some (Node that tnrs:matchedName value "Leucophanes octoblepharoides"^^xsd:string)) and (has_Descendant some (Node that tnrs:matchedName value "Leucophanes seychellarum"^^xsd:string)) and (excludes_lineage_to some (Node that tnrs:matchedName value "Exodictyon incrassatum"^^xsd:string))) - - + + + + + + + Calymperes moluccense + + + - - - + + + - - + + - + + - - - Calymperes tuatomuense - Calymperes tuatomuense - + + + Mitthyridium undulatum + + + + + + + + + + + + + + + + + + + + Syrrhopodon involutus + + Syrrhopodon involutus - - Syrrhopodon + + + - - - + + + + Syrrhopodon mauritianus + + + + + + + + + + + + + + + + + + + + + Syrrhopodon confertus - + - - + + - - Syrrhopodon trachyphyllus + - Syrrhopodon trachyphyllus - - + + Octoblepharum Moorea 445 + Octoblepharum Moorea - - - 2007 - - - - - Fisher KM, Wall DP, Yip KL, Mishler BD (2007) The Bryologist 110(1):46-73. - - None. - Gaurav Vaidya <gaurav@ggvaidya.com> - - - - Arthrocormus schimperi - Type: Arthrocormus schimperi (Dozy & Molk.) Dozy & Molk. (= Mielichhoferia schimperi Dozy & Molk.), Musci Frond. Ined. Archip. Ind. 75. (1846) + + + - - - - + + Mitthyridium fasciculatum - + - - - + Octoblepharum albidum + Octoblepharum albidum + - + - + - - Calymperes afzelii 165 + + + - - - Syrrhopodon albovaginatus 162 - Syrrhopodon albovaginatus - - + + Leucophanes albescens - + - - - - - - + - - Node and ((has_Descendant some (Node that tnrs:matchedName value "Mitthyridium fasciculatum"^^xsd:string)) and (has_Descendant some (Node that tnrs:matchedName value "Mitthyridium undulatum"^^xsd:string)) and (excludes_lineage_to some (Node that tnrs:matchedName value "Syrrhopodon croceus"^^xsd:string))) - + + - - - - - nomen cladi conversum, Mitthyridium fasciculatum (Hook. & Grev.) H. Rob., Phytologia 32: 432. (1975) -Stem-based definition: - -internal specifier: Type: Syrrhopodon fasciculatum Hook. & Grev., Edinb. J. Sci. 3: 225. (1825) -internal specifier: Type: Codonoblepharum undulatum Dozy & Molk., Ann. Sci. Nat., Bot., III, 2: 301. (1844) -external specifier: Type: Syrrhopodon croceus Mitt., J. Proc. Linn. Soc., Bot. Suppl. 1: 41. (1859) -Important synapomorphies: - -cladocarpy -many cancellinar columns -very wide sterome -creeping habit -Included terminal clades: - -undulatum, jungquilianum, fasciculatum, constrictum, obtusifolium - Mitthyridium - - Calymperaceae + + Calymperes palisotii 159 - - - + + + - - nomen cladi conversum, Syrrhopodon sect. Leucophanella Besch., Bull. Soc. Bot. France 45: 60. (1898) -Stem-based definition: - -internal Specifier: Type: S. banksii Müll. Hal., Bot. Zeitung (Berlin) 16: 162. (1858) -internal Specifier: Type: S. involutus Schwägr., Sp. Musc. Frond. Suppl. 2, 1(2): 117. pl. 132. (1824) -internal Specifier: Type: S. revolutus Dozy & Molk. -external Specifier: S. trachyphyllus Mont., Sylloge Gen. Sp. Cryptog. 47. (1856) -Important synapomorphies: - -Cancellinae comprising 60–>90% of leaf area -Included terminal clades: - -involutus, banksii - - Node and ((has_Descendant some (Node that tnrs:matchedName value "Syrrhopodon banksii"^^xsd:string)) and (has_Descendant some (Node that tnrs:matchedName value "Syrrhopodon involutus"^^xsd:string)) and and (excludes_lineage_to some (Node that tnrs:matchedName value "Syrrhopodon trachyphyllus"^^xsd:string))) - - - - Leucophanella + + - - - - - - - - Type: Octoblepharum albidum Hedw., Sp. Musc. 50. (1801) - Octoblepharum albidum + + + - - - - + + + - - Leucophanes seychellarum - - + + + - - Calymperes lonchophyllum - - Calymperes lonchophyllum + + Calymperes erosum + Calymperes erosum + - - - + + + + + + - - - + + + + + + + - + + + + + - + + - - - - - + + + - - Syrrhopodon croceus - - + + Calymperes robinsonii + + + Calymperes tuatomuense + + Calymperes tuatomuense + + - - - Node and ((has_Descendant some (Node that tnrs:matchedName value "Syrrhopodon croceus"^^xsd:string)) and (has_Descendant some (Node that tnrs:matchedName value "Leucophanes octoblepharoides"^^xsd:string)) and (excludes_lineage_to some (Node that tnrs:matchedName value "Syrrhopodon mauritianus"^^xsd:string))) - - + Syrrhopodon + + nomen cladi conversum, Syrrhopodon gardneri (Hook.) Schwägr., Sp. Musc. Frond. Suppl. 2(1): 110, tab. 131, figs. 1–13. (1824) Stem-based definition: @@ -827,2018 +1397,2017 @@ marginal border of elongate hyaline cells (sterome) Included terminal clades: apertus, armatus, croceus, fimbriatulus, loreus, tristichus, mahensis, muelleri, perarmatus - - Syrrhopodon + Node and ((has_Descendant some (Node that tnrs:matchedName value "Syrrhopodon croceus"^^xsd:string)) and (has_Descendant some (Node that tnrs:matchedName value "Leucophanes octoblepharoides"^^xsd:string)) and (excludes_lineage_to some (Node that tnrs:matchedName value "Syrrhopodon mauritianus"^^xsd:string))) + + + - - - - + + + + + + + + + + Arthrocormus schimperi + + Arthrocormus schimperi + Arthrocormus + - + + + + + + + + Trachymitrium + + Node and ((has_Descendant some (Node that tnrs:matchedName value "Syrrhopodon ciliatus"^^xsd:string)) and (has_Descendant some (Node that tnrs:matchedName value "Syrrhopodon involutus"^^xsd:string)) and (excludes_lineage_to some (Node that tnrs:matchedName value "Syrrhopodon perarmatus"^^xsd:string))) + - + + nomen cladi conversum, T. ciliatum (Hook.) Brid. (= Weissia ciliata Hook.), Bryol. Univ. 1: 159. (1826) +Stem-based definition: + +internal specifier: Type: Weissia ciliata Hook., Musci Exot. 2: 7. 171. (1820) +internal specifier: Type: Syrrhopodon involutus Schwägr., Sp. Musc. Frond. Suppl. 2, 1(2): 117. pl. 132. (1824) +external specifier: Type: Syrrhopodon perarmatus Broth. & Watts, J. & Proc. Roy. Soc. New South Wales 49: 133. (1915) +Included terminal clades: + +albovaginatus, ciliatus, leprieurii, parasiticus, prolifer, tortilis, trachyphyllus - - + + - - - - - - + + + - - - - - - Leucophanella - - Leucophanella - + + + - + - + - - - + + + + + + - - Type: Weissia ciliata Hook., Musci Exot. 2: 7. 171. (1820) - Syrrhopodon ciliatus + + + + + + - - + + - - - + + + + + - - Syrrhopodon fissipapillatus + + Syrrhopodon tortillis + + Syrrhopodon tortillis + + - - Leucophanes albescens + + - - + + - - - - - - - + + - - - Calymperes robinsonii - - Calymperes robinsonii - + + + - - - Arthrocormus schimperi - + + Syrrhopodon tristichus - - - + + + - + + + - - - + + + + Type: Leucophanes octoblepharoides Brid., Bryol. Univ. 1: 763. (1826) + Leucophanes octoblepharoides + + + + + + + + Mitthyridium jungquilianum - - Mitthyridium jungquilianum - + + + Mitthyridium jungquilianum - - - - - - - - - - - - + + - - - Exodictyon incrassatum (Mitt.) Cardot - + + Calymperes tahitense 115 - - - + + + + + Calymperes tenerum + + + Calymperes tenerum - - Mitthyridium undulatum + + - Mitthyridium undulatum - + + - - Syrrhopodon fissipapillatus + + Syrrhopodon fissipapillatus - - - + + + + + + Leucophanes octoblepharoides + Type: Leucophanes octoblepharoides Brid., Bryol. Univ. 1: 763. (1826) - + + Syrrhopodon perarmatus + Syrrhopodon perarmatus + + + + + - + + + + Exodictyon incrassatum + + + + Exodictyon incrassatum + + + + - + + Syrrhopodon mauritianus + + + + + - - - - + + Exodictyon incrassatum + Wall 2527, Fiji (uc) -- Exodictyon incrassatum (Mitt.) Cardot - + - + - - - - Exostratum blumii - Exostratum blumii 245 - + + - + + + + + + + + + + + + + Mitthyridium + + Node and ((has_Descendant some (Node that tnrs:matchedName value "Mitthyridium fasciculatum"^^xsd:string)) and (has_Descendant some (Node that tnrs:matchedName value "Mitthyridium undulatum"^^xsd:string)) and (excludes_lineage_to some (Node that tnrs:matchedName value "Syrrhopodon croceus"^^xsd:string))) + + + nomen cladi conversum, Mitthyridium fasciculatum (Hook. & Grev.) H. Rob., Phytologia 32: 432. (1975) +Stem-based definition: + +internal specifier: Type: Syrrhopodon fasciculatum Hook. & Grev., Edinb. J. Sci. 3: 225. (1825) +internal specifier: Type: Codonoblepharum undulatum Dozy & Molk., Ann. Sci. Nat., Bot., III, 2: 301. (1844) +external specifier: Type: Syrrhopodon croceus Mitt., J. Proc. Linn. Soc., Bot. Suppl. 1: 41. (1859) +Important synapomorphies: + +cladocarpy +many cancellinar columns +very wide sterome +creeping habit +Included terminal clades: + +undulatum, jungquilianum, fasciculatum, constrictum, obtusifolium + + - Syrrhopodon banksii - - Syrrhopodon banksii + + + - - - - - - - Syrrhopodon croceus + + Syrrhopodon gardneri - + + + + + + + Syrrhopodon trachyphyllus - - - - - + Syrrhopodon trachyphyllus + - - - Calymperaceae - - Calymperaceae - - - + + + - + + + + + + Syrrhopodon mauritianus - - Syrrhopodon mahensis + Syrrhopodon mauritianus - Syrrhopodon mahensis - - - Leucophanes octoblepharoides - Type: Leucophanes octoblepharoides Brid., Bryol. Univ. 1: 763. (1826) + - - + + + + - - - - Calymperes tenerum + + + + Calymperes subintegrum + Calymperes subintegrum - - - Calymperes tenerum - - - + + + - + + - - - - - - - Type: Exostratum blumii (Nees ex Hampe) L. Ellis, Lindbergia 11: 22. (1985) - Exostratum blumii - - - - - - - + + Exostratum blumii + + - - - - - + + + Calymperes tahitense 320 - - - Syrrhopodon confertus - - Syrrhopodon confertus - + Calymperes tahitense - - + + - - - - - + + Syrrhopodon muelleri Syrrhopodon muelleri - Syrrhopodon muelleri - - - - - - - Syrrhopodon apertus - - - - - - + + - - - - - - - Syrrhopodon muelleri + + Exodictyon incrassatum + - - - - - - Calymperes palisotii - - - Calymperes palisotii 180 - - - - Leucophanes glaucum - - - - - - - - - - - Leucophanes octoblepharoides - Type: Leucophanes octoblepharoides Brid., Bryol. Univ. 1: 763. (1826) - - + + - - - - - - - - - - - - - - Exostratum - - - - Node and ((has_Descendant some (Node that tnrs:matchedName value "Exostratum blumii"^^xsd:string)) and and (excludes_lineage_to some (Node that tnrs:matchedName value "Arthrocormus schimperi"^^xsd:string))) + - - nomen cladi conversum, Exostratum blumii (Nees ex Hampe) L. Ellis, Lindbergia 11: 22. (1985) -Stem-based definition: - -internal specifier: Type: Exostratum blumii (Nees ex Hampe) L. Ellis, Lindbergia 11: 22. (1985) -internal specifier: Mishler 7/24/98(3), Queensland, Australia (uc) -external specifier: Type: Arthrocormus schimperi (Dozy & Molk.) Dozy & Molk. (= Mielichhoferia schimperi Dozy & Molk.), Musci Frond. Ined. Archip. Ind. 75. (1846) -Included terminal clade: - -blumii - - - - Syrrhopodon ciliatus + + + nomen cladi conversum, Calymperaceae ____ Hal., Synop. Musc. Frond. 1. (1849) + Stem-based definition: + internal specifier: Type: Syrrhopodon gardneri (Hook.) Schw____, Sp. Musc. Frond. Suppl. 2(1): 110, tab. 131, figs. ____ (1824) + internal specifier: Type: Leucophanes octoblepharoides Brid., Bryol. Univ. 1: 763. (1826) + external specifier: Type: Octoblepharum albidum Hedw., Sp. Musc. 50. (1801) + Important synapomorphies: cancellinae, central strand absent from stem + Included terminal clades: gardneri, japonicus + + Calymperaceae + + + Node and ((has_Descendant some (Node that tnrs:matchedName value "Syrrhopodon gardneri"^^xsd:string)) and (has_Descendant some (Node that tnrs:matchedName value "Leucophanes octoblepharoides"^^xsd:string)) and (excludes_lineage_to some (Node that tnrs:matchedName value "Octoblepharum albidum"^^xsd:string))) - - - Calymperes afzelii 165 - - - Calymperes afzelii + + Calymperes motleyi - - - + + + - - Mitthyridium undulatum + + + - - + + Calymperes pseudopodianum + Calymperes pseudopodianum + - - Syrrhopodon croceus - - Syrrhopodon croceus + - - - + + + - + - + - + + - - - - + + + + + + + + - - - Leucophanes glaucum - - - Leucophanes glaucum - + + + - + - + - - - - + + Leucophanes octoblepharoides + + + + + Syrrhopodon parasiticus + + + Syrrhopodon parasiticus - - + + - - - + + - - - - + + + - - - - - - + + + Syrrhopodon muelleri + - - Calymperes tahitense 115 - - - - Calymperes tahitense + + + - + + - - - + + + + + - - - + + + + + + + - - + + - + + + + + + + + + - + - - + Syrrhopodon croceus + + Syrrhopodon croceus - - + + - + Arthrocormus schimperi - - Syrrhopodon muelleri - Type: Syrrhopodon muelleri (Dozy & Molk) Sande Lac., Bryol. Jav. 2: 224. (1870) + + + - - + + - - - + + + + + + + + + + + + + + + + + + Exostratum + Exostratum + + + + + + - + + Syrrhopodon leprieurii + + Syrrhopodon leprieurii - - Syrrhopodon parasiticus - + + Calymperes afzelii + Calymperes afzelii 165 + - Syrrhopodon parasiticus - - - - - + + + - - - - Mitthyridium undulatum + + + - - - + + Calymperes hispidium - - + + + + + + + + + + Mitthyridium obtusifolium + + + + Syrrhopodon gardneri + Syrrhopodon gardneri - Albifolium - - - Albifolium - - - + + + + Exostratum blumii - + - + - - - + + + - - Calymperes palisotii 180 + + + - - + - - - - - - - + + + Mitthyridium undulatum + Mitthyridium undulatum - - - + + + + Leucophanes octoblepharoides - - - + + Calymperes moluccense + + + Calymperes moluccense + - - Arthrocormus schimperi - - - + + Syrrhopodon fimbriatulus - - Leucophanes octoblepharoides - Type: Leucophanes octoblepharoides Brid., Bryol. Univ. 1: 763. (1826) + + + - - - + + + - - - - - - - + + + - - - + + + - - + + - - Type: Arthrocormus schimperi (Dozy & Molk.) Dozy & Molk. (=Mielichhoferia schimperi Dozy & Molk.), Musci Frond. Ined. Archip. Ind. 75. (1846) - + + + + + + + - + Leucophanes octoblepharoides - - - - - - + + - - + + + + + + + + + + Syrrhopodon armatus + + + Syrrhopodon muelleri + + Exodictyon incrassatum + - - - - - - - - - + + - - - + + + + - - Syrrhopodon banksii + + + - + + + + + + + + + - Calymperes hispidium - - - Calymperes hispidium - + + + - - Syrrhopodon banksii - Type: S. banksii Müll. Hal., Bot. Zeitung (Berlin) 16: 162. (1858) + + + + Leucophanes octoblepharoides - + + Syrrhopodon involutus - Mitthyridium fasciculatum - - - - - - - - + + + Syrrhopodon perarmatus - Calymperes lonchophyllum + + + + - - Syrrhopodon prolifer - - - Syrrhopodon prolifer - + + + - - - Mitthyridium constrictum - - Mitthyridium constrictum - + + + Leucophanes seychellarum + - - - + + + - - - + + + + + Syrrhopodon albovaginatus + Syrrhopodon albovaginatus 162 - - - + + + - - - - - + + + Mitthyridium obtusifolium + Mitthyridium obtusifolium - - - Calymperes tahitense 320 - - - Arthrocormus schimperi - Type: Arthrocormus schimperi (Dozy & Molk.) Dozy & Molk. (= Mielichhoferia schimperi Dozy & Molk.), Musci Frond. Ined. Archip. Ind. 75. (1846) -- Mishler 7/24/98 (5) Queensland, Australia (UC) + + + - - - - + + + - - - Syrrhopodon incompletus - Syrrhopodon incompletus + + Syrrhopodon fimbriatulus + + + Syrrhopodon fimbriatulus + + + Leucophanes glaucum + + + + Leucophanes glaucum - - - + + + - - - + + + + - + - - - - Syrrhopodon fimbriatulus + - - Syrrhopodon mauritianus - Type: Syrrhopodon mauritianus Müll. Hal. ex Ångstr., Öfv. Förh. Kongl. Svenska Vet.-Akad. 33(4): 54. (1876) + + + - - - + + + - - - + + + + - + + Leucophanes octoblepharoides - Syrrhopodon mauritianus - - - + + + - - - + + + - - - + + Type: Syrrhopodon muelleri (Dozy & Molk) Sande Lac., Bryol. Jav. 2: 224. (1870) + Syrrhopodon muelleri - - Calymperes subintegrum + + + - - nomen cladi conversum, T. ciliatum (Hook.) Brid. (= Weissia ciliata Hook.), Bryol. Univ. 1: 159. (1826) -Stem-based definition: - -internal specifier: Type: Weissia ciliata Hook., Musci Exot. 2: 7. 171. (1820) -internal specifier: Type: Syrrhopodon involutus Schwägr., Sp. Musc. Frond. Suppl. 2, 1(2): 117. pl. 132. (1824) -external specifier: Type: Syrrhopodon perarmatus Broth. & Watts, J. & Proc. Roy. Soc. New South Wales 49: 133. (1915) -Included terminal clades: - -albovaginatus, ciliatus, leprieurii, parasiticus, prolifer, tortilis, trachyphyllus - - - - Trachymitrium - Node and ((has_Descendant some (Node that tnrs:matchedName value "Syrrhopodon ciliatus"^^xsd:string)) and (has_Descendant some (Node that tnrs:matchedName value "Syrrhopodon involutus"^^xsd:string)) and (excludes_lineage_to some (Node that tnrs:matchedName value "Syrrhopodon perarmatus"^^xsd:string))) - - - + + + - - Arthrocormus - - - Node and ((has_Descendant some (Node that tnrs:matchedName value "Arthrocormus schimperi"^^xsd:string)) and (excludes_lineage_to some (Node that tnrs:matchedName value "Exostratum blumii"^^xsd:string))) - - nomen cladi conversum, Arthrocormus schimperi (Dozy & Molk.) Dozy & Molk. (= Mielichhoferia schimperi Dozy & Molk.), Musci Frond. Ined. Archip. Ind. 75. (1846) -Stem-based definition: - -internal specifier: Type: Arthrocormus schimperi (Dozy & Molk.) Dozy & Molk. (= Mielichhoferia schimperi Dozy & Molk.), Musci Frond. Ined. Archip. Ind. 75. (1846) -internal specifier: Mishler 7/24/98 (5) Queensland, Australia (UC) -external specifier: Type: Exostratum blumii (Nees ex Hampe) L. Ellis, Lindbergia 11: 22. (1985) -Included terminal clade: - -schimperi - - + + Exodictyon incrassatum - + + + + + + - Exodictyon incrassatum + + + + Syrrhopodon croceus + - - Type: Syrrhopodon croceus Mitt., J. Proc. Linn. Soc., Bot. Suppl. 1: 41. (1859) - Syrrhopodon croceus + + Leucophanes octoblepharoides + Type: Leucophanes octoblepharoides Brid., Bryol. Univ. 1: 763. (1826) - - - + + + - - - + + + - - - Calymperes graffeanum - - - Calymperes graffeanum + + + - - Syrrhopodon mauritianus + + Calymperes palisotii + Calymperes palisotii 159 + - - Syrrhopodon mauritianus - + + + + + - + - - Syrrhopodon perarmatus - - - - Syrrhopodon perarmatus + + + - + + - - - - - - Syrrhopodon involutus - Syrrhopodon involutus - - - Syrrhopodon mauritianus - + + + Leucophanes octoblepharoides - - - + + + - - - + + + - - Leucophanes seychellarum - Type: Leucophanes seychellarum Besch., Ann. Sci. Nat., Bot., VI, 9: 337. (1880) + + + Type: Arthrocormus schimperi (Dozy & Molk.) Dozy & Molk. (=Mielichhoferia schimperi Dozy & Molk.), Musci Frond. Ined. Archip. Ind. 75. (1846) - - - - - + + + + + + - - - - Syrrhopodon ciliatus - - - - - - - - + + + - - Syrrhopodon croceus + Type: Syrrhopodon croceus Mitt., J. Proc. Linn. Soc., Bot. Suppl. 1: 41. (1859) + Syrrhopodon croceus - - + + - - - + + Type: S. revolutus Dozy & Molk. - - - + + + - - + + + + + + - - Type: Leucophanes octoblepharoides Brid., Bryol. Univ. 1: 763. (1826) - Leucophanes octoblepharoides + + + - - Type: Syrrhopodon mauritianus Müll. Hal. ex Ångstr., Öfv. Förh. Kongl. Svenska Vet.-Akad. 33(4): 54. (1876) - Syrrhopodon mauritianus + + + - - - - - - - + + + - - - + + + - - - + + + - - - + + + - - + + - - Exostratum blumii - Type: Exostratum blumii (Nees ex Hampe) L. Ellis, Lindbergia 11: 22. (1985) + + Calymperes robinsonii + Calymperes robinsonii + + + - - - + + + + + + - - - + + + - - - + + + + - - - + + Leucophanes seychellarum + + - - - - - + Leucophanes seychellarum - - - - - Octoblepharum - - Octoblepharum - + + + - - - + + + - + - + - - - + + + - - Syrrhopodon japonicus - Syrrhopodon japonicus - - - + + + - - + + - - - + + + - - Syrrhopodon gardneri + + Calymperes tuatomuense + + + Syrrhopodon ciliatus - - - - - - + + + Syrrhopodon gardneri + + + + Type: Leucophanes octoblepharoides Brid., Bryol. Univ. 1: 763. (1826) + Leucophanes octoblepharoides + + + + + + + + + - - + + - - - + + + - - - - + + + + + + + + - - Mitthyridium obtusifolium + + + - - Syrrhopodon confertus + + + - - Syrrhopodon tortillis + + Syrrhopodon banksii - - - - Exostratum blumii + + + - - + + Syrrhopodon ciliatus + + Syrrhopodon ciliatus + + + + + - + - - - + + + + - - - + + Calymperes afzelii 165 - - - + + + - - - - - Syrrhopodon apertus - - Syrrhopodon apertus + + Syrrhopodon mahensis - - - + + + + Leucophanes octoblepharoides - - - + + - - - - + + Syrrhopodon gardneri (Hook.) _____, Sp. Musc. Frond. Suppl. 2(1): 110, tab. 131, figs. 1-13 (1824) + Syrrhopodon gardneri - + + - - - - + + + - - - - - - - - - - - + + + - - Exodictyon incrassatum (Mitt.) Cardot - Type: Exodictyon Cardot, Rev. Bryol. Lichénol. 26: 6. (1899), excl. parte, emend Ellis in Lindbergia 11: 16 (1985) -- Wall 2527, Fiji (uc) - Exodictyon incrassatum + + + - - - + + + Syrrhopodon banksii - - - - + + + - - - - Calymperes pseudopodianum - - Calymperes pseudopodianum + + - - - + + + - - Syrrhopodon armatus + + + - - - + + + - - - - - - + + + + Leucophanes octoblepharoides - - + + + + + - + + Leucophanes seychellarum - - Syrrhopodon gardneri - - - Syrrhopodon gardneri - + + + - + + + - Leucophanes seychellarum - - Leucophanes seychellarum - - - - - + - + - + - + - Arthrocormus schimperi + Syrrhopodon croceus - - - + + Leucophanella - - - + + + - - - Syrrhopodon tristichus - Syrrhopodon tristichus - - + + + - - - Syrrhopodon involutus - + + Syrrhopodon tortillis - - - + + + - - - + + + - - + + - - - + + + - - - + + + - - Octoblepharum albidum - - + + + - - - + + + - - - + + + - - - Leucophanes octoblepharoides - + + + - - - + + Type: Codonoblepharum undulatum Dozy & Molk., Ann. Sci. Nat., Bot., III, 2: 301. (1844) + Mitthyridium undulatum + + + + Arthrocormus schimperi - - + + + + + + Syrrhopodon japonicus + Syrrhopodon japonicus + - - - - - - - - - + + + - - - Exostratum blumii - + + Syrrhopodon leprieurii - - - - - - + + + - - + + - - - - - - + + + - + - + + + + + - - + + - - - - + + + - + - + - + + - - - - - - - - Mitthyridium fasciculatum - Type: Syrrhopodon fasciculatum Hook. & Grev., Edinb. J. Sci. 3: 225. (1825) - - Type: Calymperes lonchophyllum Schwägr., Tab. Exhib. Calyptr. Opercul. (3). 1814 (1813). - Calymperes lonchophyllum + + Syrrhopodon albovaginatus 446 - - - + + + - - - + + Calymperes erosum - - - + + Syrrhopodon fissipapillatus - - - + + + - - Calymperes afzelii 179 - Calymperes afzelii + + + Calymperes afzelii 179 - - - + + + - - - + + + - - - + + + - - - + + + - + - + - - - + + + - - - + + Calymperaceae + + + + + + + Syrrhopodon ciliatus + Type: Weissia ciliata Hook., Musci Exot. 2: 7. 171. (1820) + + + + + - + + - - - - + + + - - Calymperes afzelii 179 + + Calymperes - - Calymperes subintegrum - - Calymperes subintegrum - - - - + + + - - Calymperes palisotii 159 + + + - - - - - - + + + - - - - + + + - - + + - - - + + + - - Calymperes tuatomuense + + Syrrhopodon involutus + Type: Syrrhopodon involutus Schwägr., Sp. Musc. Frond. Suppl. 2, 1(2): 117. pl. 132. (1824) - - Exodictyon incrassatum - Exodictyon incrassatum - - - + + + + + + + - + + - - - Mitthyridium undulatum - Type: Codonoblepharum undulatum Dozy & Molk., Ann. Sci. Nat., Bot., III, 2: 301. (1844) + + + + + + + + + + + + + + + + - - - + + + - - - + + + - - + + - - Syrrhopodon croceus - Type: Syrrhopodon croceus Mitt., J. Proc. Linn. Soc., Bot. Suppl. 1: 41. (1859) - - - - + + + - - + + - - - - - - - Syrrhopodon gardneri - Syrrhopodon gardneri (Hook.) _____, Sp. Musc. Frond. Suppl. 2(1): 110, tab. 131, figs. 1-13 (1824) + + + - - - + + + - - Trachymitrium + + + - - Wall 2527, Fiji (uc) -- Exodictyon incrassatum (Mitt.) Cardot - Exodictyon incrassatum + + + Syrrhopodon croceus + - - - + + + - - Syrrhopodon armatus - - - Syrrhopodon armatus - + + Mitthyridium fasciculatum + Type: Syrrhopodon fasciculatum Hook. & Grev., Edinb. J. Sci. 3: 225. (1825) - + - - - - - Exostratum blumii 243 - - Exostratum blumii - + - - - + + Syrrhopodon croceus + Type: Syrrhopodon croceus Mitt., J. Proc. Linn. Soc., Bot. Suppl. 1: 41. (1859) - - - + + Type: Syrrhopodon perarmatus Broth. & Watts, J. & Proc. Roy. Soc. New South Wales 49: 133. (1915) + Syrrhopodon perarmatus - - - + + + - - + + - - - + + Calymperes tahitense 320 - - + + - - Leucophanes octoblepharoides - + + Syrrhopodon involutus + + + + + - + - + + + + Mitthyridium undulatum + + + + + + + + + + + + + + + Octoblepharum albidum - + + - - - - + + + - - Syrrhopodon involutus - Type: Syrrhopodon involutus Schwägr., Sp. Musc. Frond. Suppl. 2, 1(2): 117. pl. 132. (1824) + + Syrrhopodon trachyphyllus + external Specifier: S. trachyphyllus Mont., Sylloge Gen. Sp. Cryptog. 47. (1856) - - - + + Syrrhopodon parasiticus + + + + + + + Octoblepharum albidum + + - + - + - - Exostratum blumii 243 + + + - - - + + + - + + Exodictyon incrassatum - Syrrhopodon trachyphyllus - - - + + + - - Octoblepharum Moorea 445 + + + - - Mitthyridium constrictum + + + + + + + + Syrrhopodon confertus + Syrrhopodon confertus + - - - + + - + + - - - - Syrrhopodon croceus - + + Syrrhopodon mauritianus + Type: Syrrhopodon mauritianus Müll. Hal. ex Ångstr., Öfv. Förh. Kongl. Svenska Vet.-Akad. 33(4): 54. (1876) - - Type: S. involutus Schwägr., Sp. Musc. Frond. Suppl. 2, 1(2): 117. pl. 132. (1824) - Syrrhopodon involutus + + + - - + + - - Syrrhopodon albovaginatus 446 + + Syrrhopodon apertus + + + + - - + + + + + - - Calymperes pseudopodianum + + + - - Syrrhopodon mahensis + + - - + + - - Syrrhopodon parasiticus + + Calymperes tenerum - - - + + + - - Calymperes + + + + + + + + Syrrhopodon banksii - - - + + + - - + + - - - + + Trachymitrium - + + - - - Calymperes robinsonii + + Exostratum + + + + + Arthrocormus schimperi + + + + + + + Syrrhopodon japonicus + + + + - - - + + Calymperes palisotii 180 - - + + - - Syrrhopodon croceus + + + - - + + - - - + + + - - - + + + - - - + + + - - - + + - - - + + + - - - + + Exostratum blumii + Type: Exostratum blumii (Nees ex Hampe) L. Ellis, Lindbergia 11: 22. (1985) - - - + + + - + + - - - - + + + + + Calymperes pseudopodianum - + + - - - Calymperes erosum + + + - - - + + + - - Syrrhopodon prolifer + + + + - - - - - - + + Syrrhopodon croceus + + + + - + + Calymperes lonchophyllum - Leucophanes octoblepharoides - + + - - - - + + - - Syrrhopodon mauritianus + + Octoblepharum Moorea 445 - - - + + + - - - + + - - Syrrhopodon involutus + + + - - - + + Syrrhopodon incompletus - + + - - + - + - - Leucophanes + + Exostratum blumii 245 - + - - - - - Syrrhopodon involutus - - - - Exostratum - - - - - - - - Syrrhopodon banksii - + - - - + + + - + - - - - Syrrhopodon muelleri + - - Calymperes palisotii 159 - Calymperes palisotii - - - + + + - + - + - - - - - - - + + Leucophanes seychellarum - - Leucophanella + + Syrrhopodon involutus + + - + + - - - - Syrrhopodon albovaginatus 162 - - - + + Syrrhopodon involutus + Type: S. involutus Schwägr., Sp. Musc. Frond. Suppl. 2, 1(2): 117. pl. 132. (1824) - - - + + + - + + - - - - + + + - - - + + - - - + + + - - Calymperes moluccense + + Calymperes graffeanum - - + + - - + + - - - - - - - - - - - - - - Calymperes motleyi + + + - - - + + Albifolium - - - + + + - - + + - - Syrrhopodon leprieurii + + + - - Syrrhopodon tristichus + + + - - - + + + - - Mishler 7/24/98(3), Queensland, Australia (uc) + + + - - + + - + Leucophanes octoblepharoides - - - + + + - - Leucophanes seychellarum + + + - - - + + + - - Mitthyridium jungquilianum + + + - - Type: Leucophanes octoblepharoides Brid., Bryol. Univ. 1: 763. (1826) - Leucophanes octoblepharoides + + + - - - + + - - + + - - Exodictyon incrassatum - - - - + + - - + + - - Exostratum blumii 245 - - - - - - - - + + Octoblepharum - - Syrrhopodon gardneri + + Mitthyridium - - Calymperes tahitense 115 + + Exostratum blumii 243 - + + - - - Syrrhopodon japonicus - - - Mitthyridium fasciculatum + + Syrrhopodon - - + + - - Calymperes hispidium - - - - + + Mitthyridium constrictum - - Calymperes graffeanum + + Mitthyridium jungquilianum - - - + + Syrrhopodon trachyphyllus - - Syrrhopodon perarmatus + + + - - - + + Syrrhopodon prolifer - - - + + Syrrhopodon albovaginatus 162 - - Mitthyridium + + + - - Syrrhopodon trachyphyllus + + Leucophanes glaucum - - Octoblepharum + + Mishler 7/24/98(3), Queensland, Australia (uc) - - Calymperes tenerum + + Syrrhopodon gardneri - - Albifolium + + + - + Calymperes lonchophyllum - - - - - - Type: S. revolutus Dozy & Molk. + + - - Syrrhopodon incompletus + + + - - Octoblepharum albidum + + Syrrhopodon involutus diff --git a/phylorefs/Fisher et al, 2007/labeled.json b/phylorefs/Fisher et al, 2007/labeled.json index ac7b17b..525f49b 100644 --- a/phylorefs/Fisher et al, 2007/labeled.json +++ b/phylorefs/Fisher et al, 2007/labeled.json @@ -11,13 +11,16 @@ "owl:imports": [ "https://www.w3.org/2004/02/skos/core", "http://phylotastic.org/terms/tnrs.rdf", - "http://phyloinformatics.net/phyloref.owl" + "http://phyloinformatics.net/phyloref.owl", + "http://filteredpush.org/ontologies/oa/dwcFP.owl", + "http://rdf.biosemantics.org/ontologies/rsa" ], "phylogenies": [ { "labeledNodeData": [ { "label": "Arthrocormus schimperi", + "matchedName": "Arthrocormus", "skos:closeMatch": [ "http://www.theplantlist.org/tpl1.1/record/tro-35179022", "http://www.tropicos.org/Name/35179022", @@ -416,7 +419,10 @@ ] ], "children": [], - "matchedName": "Arthrocormus schimperi", + "matchedName": [ + "Arthrocormus schimperi", + "Arthrocormus" + ], "siblings": [ "https://doi.org/10.1639/0007-2745%282007%29110%5B46%3APOTCWA%5D2.0.CO%3B2#file1_tree1_node23" ], @@ -1930,48 +1936,82 @@ "@type": "owl:Class", "intersectionOf": [ { - "@type": "owl:Restriction", - "onProperty": "obo:CDAO_0000174", - "someValuesFrom": { - "@type": "owl:Class", - "unionOf": [ - { - "@type": "owl:Class", - "intersectionOf": [ - { - "@id": "obo:CDAO_0000140" - }, - { - "@type": "owl:Restriction", - "hasValue": "Syrrhopodon gardneri", - "onProperty": "tnrs:matchedName" + "@type": "owl:Class", + "unionOf": [ + { + "unionOf": [ + { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Syrrhopodon gardneri", + "onProperty": "tnrs:matchedName" + } + ] + }, + { + "@type": "owl:Restriction", + "onProperty": "obo:CDAO_0000174", + "someValuesFrom": { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Syrrhopodon gardneri", + "onProperty": "tnrs:matchedName" + } + ] } - ] - } - ] - } + } + ] + } + ] }, { - "@type": "owl:Restriction", - "onProperty": "obo:CDAO_0000174", - "someValuesFrom": { - "@type": "owl:Class", - "unionOf": [ - { - "@type": "owl:Class", - "intersectionOf": [ - { - "@id": "obo:CDAO_0000140" - }, - { - "@type": "owl:Restriction", - "hasValue": "Leucophanes octoblepharoides", - "onProperty": "tnrs:matchedName" + "@type": "owl:Class", + "unionOf": [ + { + "unionOf": [ + { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Leucophanes octoblepharoides", + "onProperty": "tnrs:matchedName" + } + ] + }, + { + "@type": "owl:Restriction", + "onProperty": "obo:CDAO_0000174", + "someValuesFrom": { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Leucophanes octoblepharoides", + "onProperty": "tnrs:matchedName" + } + ] } - ] - } - ] - } + } + ] + } + ] }, { "@type": "owl:Restriction", @@ -2029,48 +2069,82 @@ "@type": "owl:Class", "intersectionOf": [ { - "@type": "owl:Restriction", - "onProperty": "obo:CDAO_0000174", - "someValuesFrom": { - "@type": "owl:Class", - "unionOf": [ - { - "@type": "owl:Class", - "intersectionOf": [ - { - "@id": "obo:CDAO_0000140" - }, - { - "@type": "owl:Restriction", - "hasValue": "Calymperes lonchophyllum", - "onProperty": "tnrs:matchedName" + "@type": "owl:Class", + "unionOf": [ + { + "unionOf": [ + { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Calymperes lonchophyllum", + "onProperty": "tnrs:matchedName" + } + ] + }, + { + "@type": "owl:Restriction", + "onProperty": "obo:CDAO_0000174", + "someValuesFrom": { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Calymperes lonchophyllum", + "onProperty": "tnrs:matchedName" + } + ] } - ] - } - ] - } + } + ] + } + ] }, { - "@type": "owl:Restriction", - "onProperty": "obo:CDAO_0000174", - "someValuesFrom": { - "@type": "owl:Class", - "unionOf": [ - { - "@type": "owl:Class", - "intersectionOf": [ - { - "@id": "obo:CDAO_0000140" - }, - { - "@type": "owl:Restriction", - "hasValue": "Syrrhopodon mauritianus", - "onProperty": "tnrs:matchedName" + "@type": "owl:Class", + "unionOf": [ + { + "unionOf": [ + { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Syrrhopodon mauritianus", + "onProperty": "tnrs:matchedName" + } + ] + }, + { + "@type": "owl:Restriction", + "onProperty": "obo:CDAO_0000174", + "someValuesFrom": { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Syrrhopodon mauritianus", + "onProperty": "tnrs:matchedName" + } + ] } - ] - } - ] - } + } + ] + } + ] }, { "@type": "owl:Restriction", @@ -2128,48 +2202,82 @@ "@type": "owl:Class", "intersectionOf": [ { - "@type": "owl:Restriction", - "onProperty": "obo:CDAO_0000174", - "someValuesFrom": { - "@type": "owl:Class", - "unionOf": [ - { - "@type": "owl:Class", - "intersectionOf": [ - { - "@id": "obo:CDAO_0000140" - }, - { - "@type": "owl:Restriction", - "hasValue": "Syrrhopodon croceus", - "onProperty": "tnrs:matchedName" + "@type": "owl:Class", + "unionOf": [ + { + "unionOf": [ + { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Syrrhopodon croceus", + "onProperty": "tnrs:matchedName" + } + ] + }, + { + "@type": "owl:Restriction", + "onProperty": "obo:CDAO_0000174", + "someValuesFrom": { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Syrrhopodon croceus", + "onProperty": "tnrs:matchedName" + } + ] } - ] - } - ] - } + } + ] + } + ] }, { - "@type": "owl:Restriction", - "onProperty": "obo:CDAO_0000174", - "someValuesFrom": { - "@type": "owl:Class", - "unionOf": [ - { - "@type": "owl:Class", - "intersectionOf": [ - { - "@id": "obo:CDAO_0000140" - }, - { - "@type": "owl:Restriction", - "hasValue": "Leucophanes octoblepharoides", - "onProperty": "tnrs:matchedName" + "@type": "owl:Class", + "unionOf": [ + { + "unionOf": [ + { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Leucophanes octoblepharoides", + "onProperty": "tnrs:matchedName" + } + ] + }, + { + "@type": "owl:Restriction", + "onProperty": "obo:CDAO_0000174", + "someValuesFrom": { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Leucophanes octoblepharoides", + "onProperty": "tnrs:matchedName" + } + ] } - ] - } - ] - } + } + ] + } + ] }, { "@type": "owl:Restriction", @@ -2227,48 +2335,82 @@ "@type": "owl:Class", "intersectionOf": [ { - "@type": "owl:Restriction", - "onProperty": "obo:CDAO_0000174", - "someValuesFrom": { - "@type": "owl:Class", - "unionOf": [ - { - "@type": "owl:Class", - "intersectionOf": [ - { - "@id": "obo:CDAO_0000140" - }, - { - "@type": "owl:Restriction", - "hasValue": "Mitthyridium fasciculatum", - "onProperty": "tnrs:matchedName" + "@type": "owl:Class", + "unionOf": [ + { + "unionOf": [ + { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Mitthyridium fasciculatum", + "onProperty": "tnrs:matchedName" + } + ] + }, + { + "@type": "owl:Restriction", + "onProperty": "obo:CDAO_0000174", + "someValuesFrom": { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Mitthyridium fasciculatum", + "onProperty": "tnrs:matchedName" + } + ] } - ] - } - ] - } + } + ] + } + ] }, { - "@type": "owl:Restriction", - "onProperty": "obo:CDAO_0000174", - "someValuesFrom": { - "@type": "owl:Class", - "unionOf": [ - { - "@type": "owl:Class", - "intersectionOf": [ - { - "@id": "obo:CDAO_0000140" - }, - { - "@type": "owl:Restriction", - "hasValue": "Mitthyridium undulatum", - "onProperty": "tnrs:matchedName" + "@type": "owl:Class", + "unionOf": [ + { + "unionOf": [ + { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Mitthyridium undulatum", + "onProperty": "tnrs:matchedName" + } + ] + }, + { + "@type": "owl:Restriction", + "onProperty": "obo:CDAO_0000174", + "someValuesFrom": { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Mitthyridium undulatum", + "onProperty": "tnrs:matchedName" + } + ] } - ] - } - ] - } + } + ] + } + ] }, { "@type": "owl:Restriction", @@ -2326,48 +2468,82 @@ "@type": "owl:Class", "intersectionOf": [ { - "@type": "owl:Restriction", - "onProperty": "obo:CDAO_0000174", - "someValuesFrom": { - "@type": "owl:Class", - "unionOf": [ - { - "@type": "owl:Class", - "intersectionOf": [ - { - "@id": "obo:CDAO_0000140" - }, - { - "@type": "owl:Restriction", - "hasValue": "Syrrhopodon ciliatus", - "onProperty": "tnrs:matchedName" + "@type": "owl:Class", + "unionOf": [ + { + "unionOf": [ + { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Syrrhopodon ciliatus", + "onProperty": "tnrs:matchedName" + } + ] + }, + { + "@type": "owl:Restriction", + "onProperty": "obo:CDAO_0000174", + "someValuesFrom": { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Syrrhopodon ciliatus", + "onProperty": "tnrs:matchedName" + } + ] } - ] - } - ] - } + } + ] + } + ] }, { - "@type": "owl:Restriction", - "onProperty": "obo:CDAO_0000174", - "someValuesFrom": { - "@type": "owl:Class", - "unionOf": [ - { - "@type": "owl:Class", - "intersectionOf": [ - { - "@id": "obo:CDAO_0000140" - }, - { - "@type": "owl:Restriction", - "hasValue": "Syrrhopodon involutus", - "onProperty": "tnrs:matchedName" + "@type": "owl:Class", + "unionOf": [ + { + "unionOf": [ + { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Syrrhopodon involutus", + "onProperty": "tnrs:matchedName" + } + ] + }, + { + "@type": "owl:Restriction", + "onProperty": "obo:CDAO_0000174", + "someValuesFrom": { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Syrrhopodon involutus", + "onProperty": "tnrs:matchedName" + } + ] } - ] - } - ] - } + } + ] + } + ] }, { "@type": "owl:Restriction", @@ -2425,48 +2601,82 @@ "@type": "owl:Class", "intersectionOf": [ { - "@type": "owl:Restriction", - "onProperty": "obo:CDAO_0000174", - "someValuesFrom": { - "@type": "owl:Class", - "unionOf": [ - { - "@type": "owl:Class", - "intersectionOf": [ - { - "@id": "obo:CDAO_0000140" - }, - { - "@type": "owl:Restriction", - "hasValue": "Syrrhopodon banksii", - "onProperty": "tnrs:matchedName" + "@type": "owl:Class", + "unionOf": [ + { + "unionOf": [ + { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Syrrhopodon banksii", + "onProperty": "tnrs:matchedName" + } + ] + }, + { + "@type": "owl:Restriction", + "onProperty": "obo:CDAO_0000174", + "someValuesFrom": { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Syrrhopodon banksii", + "onProperty": "tnrs:matchedName" + } + ] } - ] - } - ] - } + } + ] + } + ] }, { - "@type": "owl:Restriction", - "onProperty": "obo:CDAO_0000174", - "someValuesFrom": { - "@type": "owl:Class", - "unionOf": [ - { - "@type": "owl:Class", - "intersectionOf": [ - { - "@id": "obo:CDAO_0000140" - }, - { - "@type": "owl:Restriction", - "hasValue": "Syrrhopodon involutus", - "onProperty": "tnrs:matchedName" + "@type": "owl:Class", + "unionOf": [ + { + "unionOf": [ + { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Syrrhopodon involutus", + "onProperty": "tnrs:matchedName" + } + ] + }, + { + "@type": "owl:Restriction", + "onProperty": "obo:CDAO_0000174", + "someValuesFrom": { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Syrrhopodon involutus", + "onProperty": "tnrs:matchedName" + } + ] } - ] - } - ] - } + } + ] + } + ] }, { "@type": "owl:Restriction", @@ -2527,50 +2737,86 @@ "@type": "owl:Class", "intersectionOf": [ { - "@type": "owl:Restriction", - "onProperty": "obo:CDAO_0000174", - "someValuesFrom": { - "@type": "owl:Class", - "unionOf": [ - { - "@type": "owl:Class", - "intersectionOf": [ - { - "@id": "obo:CDAO_0000140" - }, - { - "@type": "owl:Restriction", - "hasValue": { - "@id": "http://www.tropicos.org/Name/35179022" + "@type": "owl:Class", + "unionOf": [ + { + "unionOf": [ + { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" }, - "onProperty": "skos:closeMatch" + { + "@type": "owl:Restriction", + "hasValue": { + "@id": "http://www.tropicos.org/Name/35179022" + }, + "onProperty": "skos:closeMatch" + } + ] + }, + { + "@type": "owl:Restriction", + "onProperty": "obo:CDAO_0000174", + "someValuesFrom": { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": { + "@id": "http://www.tropicos.org/Name/35179022" + }, + "onProperty": "skos:closeMatch" + } + ] } - ] - } - ] - } + } + ] + } + ] }, { - "@type": "owl:Restriction", - "onProperty": "obo:CDAO_0000174", - "someValuesFrom": { - "@type": "owl:Class", - "unionOf": [ - { - "@type": "owl:Class", - "intersectionOf": [ - { - "@id": "obo:CDAO_0000140" - }, - { - "@type": "owl:Restriction", - "hasValue": "Leucophanes octoblepharoides", - "onProperty": "tnrs:matchedName" + "@type": "owl:Class", + "unionOf": [ + { + "unionOf": [ + { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Leucophanes octoblepharoides", + "onProperty": "tnrs:matchedName" + } + ] + }, + { + "@type": "owl:Restriction", + "onProperty": "obo:CDAO_0000174", + "someValuesFrom": { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Leucophanes octoblepharoides", + "onProperty": "tnrs:matchedName" + } + ] } - ] - } - ] - } + } + ] + } + ] }, { "@type": "owl:Restriction", @@ -2630,26 +2876,43 @@ "@type": "owl:Class", "intersectionOf": [ { - "@type": "owl:Restriction", - "onProperty": "obo:CDAO_0000174", - "someValuesFrom": { - "@type": "owl:Class", - "unionOf": [ - { - "@type": "owl:Class", - "intersectionOf": [ - { - "@id": "obo:CDAO_0000140" - }, - { - "@type": "owl:Restriction", - "hasValue": "Arthrocormus schimperi", - "onProperty": "tnrs:matchedName" + "@type": "owl:Class", + "unionOf": [ + { + "unionOf": [ + { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Arthrocormus schimperi", + "onProperty": "tnrs:matchedName" + } + ] + }, + { + "@type": "owl:Restriction", + "onProperty": "obo:CDAO_0000174", + "someValuesFrom": { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Arthrocormus schimperi", + "onProperty": "tnrs:matchedName" + } + ] } - ] - } - ] - } + } + ] + } + ] }, { "@type": "owl:Restriction", @@ -2703,26 +2966,43 @@ "@type": "owl:Class", "intersectionOf": [ { - "@type": "owl:Restriction", - "onProperty": "obo:CDAO_0000174", - "someValuesFrom": { - "@type": "owl:Class", - "unionOf": [ - { - "@type": "owl:Class", - "intersectionOf": [ - { - "@id": "obo:CDAO_0000140" - }, - { - "@type": "owl:Restriction", - "hasValue": "Exostratum blumii", - "onProperty": "tnrs:matchedName" + "@type": "owl:Class", + "unionOf": [ + { + "unionOf": [ + { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Exostratum blumii", + "onProperty": "tnrs:matchedName" + } + ] + }, + { + "@type": "owl:Restriction", + "onProperty": "obo:CDAO_0000174", + "someValuesFrom": { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Exostratum blumii", + "onProperty": "tnrs:matchedName" + } + ] } - ] - } - ] - } + } + ] + } + ] }, { "@type": "owl:Restriction", @@ -2779,39 +3059,77 @@ "@type": "owl:Class", "intersectionOf": [ { - "@type": "owl:Restriction", - "onProperty": "obo:CDAO_0000174", - "someValuesFrom": { - "@type": "owl:Class", - "unionOf": [ - { - "@type": "owl:Class", - "intersectionOf": [ - { - "@id": "obo:CDAO_0000140" - }, - { - "@type": "owl:Restriction", - "hasValue": "Exodictyon incrassatum (Mitt.) Cardot", - "onProperty": "tnrs:submittedName" + "@type": "owl:Class", + "unionOf": [ + { + "unionOf": [ + { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Exodictyon incrassatum (Mitt.) Cardot", + "onProperty": "tnrs:submittedName" + } + ] + }, + { + "@type": "owl:Restriction", + "onProperty": "obo:CDAO_0000174", + "someValuesFrom": { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Exodictyon incrassatum (Mitt.) Cardot", + "onProperty": "tnrs:submittedName" + } + ] } - ] - }, - { - "@type": "owl:Class", - "intersectionOf": [ - { - "@id": "obo:CDAO_0000140" - }, - { - "@type": "owl:Restriction", - "hasValue": "Exodictyon incrassatum", - "onProperty": "tnrs:matchedName" + } + ] + }, + { + "unionOf": [ + { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Exodictyon incrassatum", + "onProperty": "tnrs:matchedName" + } + ] + }, + { + "@type": "owl:Restriction", + "onProperty": "obo:CDAO_0000174", + "someValuesFrom": { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Exodictyon incrassatum", + "onProperty": "tnrs:matchedName" + } + ] } - ] - } - ] - } + } + ] + } + ] }, { "@type": "owl:Restriction", @@ -2866,48 +3184,82 @@ "@type": "owl:Class", "intersectionOf": [ { - "@type": "owl:Restriction", - "onProperty": "obo:CDAO_0000174", - "someValuesFrom": { - "@type": "owl:Class", - "unionOf": [ - { - "@type": "owl:Class", - "intersectionOf": [ - { - "@id": "obo:CDAO_0000140" - }, - { - "@type": "owl:Restriction", - "hasValue": "Leucophanes octoblepharoides", - "onProperty": "tnrs:matchedName" + "@type": "owl:Class", + "unionOf": [ + { + "unionOf": [ + { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Leucophanes octoblepharoides", + "onProperty": "tnrs:matchedName" + } + ] + }, + { + "@type": "owl:Restriction", + "onProperty": "obo:CDAO_0000174", + "someValuesFrom": { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Leucophanes octoblepharoides", + "onProperty": "tnrs:matchedName" + } + ] } - ] - } - ] - } + } + ] + } + ] }, { - "@type": "owl:Restriction", - "onProperty": "obo:CDAO_0000174", - "someValuesFrom": { - "@type": "owl:Class", - "unionOf": [ - { - "@type": "owl:Class", - "intersectionOf": [ - { - "@id": "obo:CDAO_0000140" - }, - { - "@type": "owl:Restriction", - "hasValue": "Leucophanes seychellarum", - "onProperty": "tnrs:matchedName" + "@type": "owl:Class", + "unionOf": [ + { + "unionOf": [ + { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Leucophanes seychellarum", + "onProperty": "tnrs:matchedName" + } + ] + }, + { + "@type": "owl:Restriction", + "onProperty": "obo:CDAO_0000174", + "someValuesFrom": { + "@type": "owl:Class", + "intersectionOf": [ + { + "@id": "obo:CDAO_0000140" + }, + { + "@type": "owl:Restriction", + "hasValue": "Leucophanes seychellarum", + "onProperty": "tnrs:matchedName" + } + ] } - ] - } - ] - } + } + ] + } + ] }, { "@type": "owl:Restriction", diff --git a/phylorefs/Fisher et al, 2007/paper.json b/phylorefs/Fisher et al, 2007/paper.json index cc59917..f19dd5c 100644 --- a/phylorefs/Fisher et al, 2007/paper.json +++ b/phylorefs/Fisher et al, 2007/paper.json @@ -18,6 +18,7 @@ "labeledNodeData": [ { "label": "Arthrocormus schimperi", + "matchedName": "Arthrocormus", "skos:closeMatch": [ "http://www.theplantlist.org/tpl1.1/record/tro-35179022", "http://www.tropicos.org/Name/35179022", @@ -27,7 +28,10 @@ { "label": "Exostratum blumii 243" }, { "label": "Exostratum blumii 245" }, { "label": "Exostratum" }, - { "label": "Exodictyon incrassatum" }, + { + "label": "Exodictyon incrassatum", + "matchedName": "Exodictyon" + }, { "label": "Leucophanes seychellarum" }, { "label": "Leucophanes octoblepharoides" }, { "label": "Leucophanes albescens" }, diff --git a/phylorefs/add-labels.py b/phylorefs/add-labels.py index 23e856a..7d4d775 100644 --- a/phylorefs/add-labels.py +++ b/phylorefs/add-labels.py @@ -318,8 +318,8 @@ def internal_specifier_to_OWL_repr(specifier): specifiers.append({ "@type": "owl:Class", "intersectionOf": [ - { "@id": "obo:CDAO_0000140" }, - { "@type": "owl:Restriction", + { "@id": "obo:CDAO_0000140" }, # Node and + { "@type": "owl:Restriction", # "onProperty": key, "hasValue": specifier[key] } @@ -329,13 +329,24 @@ def internal_specifier_to_OWL_repr(specifier): if len(specifiers) == 0: return None + # For each specifier, convert it into the form: + # or has_Descendant or ... + + + specifiers = [{ + "unionOf": [ + x, + { + "@type": "owl:Restriction", + "onProperty": "obo:CDAO_0000174", + "someValuesFrom": x + } + ] + } for x in specifiers] + return { - "@type": "owl:Restriction", - "onProperty": "obo:CDAO_0000174", - "someValuesFrom": { - "@type": "owl:Class", - "unionOf": specifiers - } + "@type": "owl:Class", + "unionOf": specifiers } def external_specifier_to_OWL_repr(specifier):