Additional file 4: supplementary Fig. S6 Mitochondrial genomes of two parasitic Cuscuta species show little evidence of horizontal gene transfer and retain unusually fragmented ccmFC genes Anderson, Benjamin M; Krause, Kirsten; and Petersen, Gitte
Fig. S6. Phylogenetic trees for mitochondrial genes across angiosperms, with particular focus (red) on Cuscuta species. Bootstrap support >60% is shown adjacent to nodes. Gene trees are divided as (a) atp1, atp4, atp6, atp8, atp9; (b) ccmB, ccmC, ccmFC, ccmFN, cob; (c) cox1, cox2, cox3, matR, mttB; (d) nad1, nad2, nad3, nad4, nad4L; (e) nad5, nad6, nad7, nad9; (f) rrn5, rrn18, rrn26, rpl5, rpl16; and (g) rps1, rps3, rps4, rps12, rps13. a
atp1 atp4 atp6 Cycas taitungensis Cycas taitungensis Cycas taitungensis 100 Pinus taeda 98 Ginkgo biloba 75 Ginkgo biloba Ginkgo biloba Pinus taeda Pinus taeda Nymphaea colorata 100Nymphaea colorata Amborella trichopoda Schisandra sphenanthera Nymphaea colorata2 Schisandra sphenanthera Amborella trichopoda 100 Schisandra sphenanthera 100 Nymphaea colorata 100 Schisandra sphenanthera2 Liriodendron tulipifera Liriodendron tulipifera Amborella trichopoda 74 Allium cepa Spirodela polyrhiza Liriodendron tulipifera Gastrodia elata 100 Tripsacum dactyloides Gastrodia elata Phoenix dactylifera 99 Saccharum officinarum Allium cepa 100 Sorghum bicolor Phoenix dactylifera 84 100 Butomus umbellatus Eleusine indica 98 99 Cynodon dactylon2 Stratiotes aloides Zea perennis 98 Zostera marina Lolium perenne Cynodon dactylon Lolium perenne 79 100 Eleusine indica 77 77 73 75 Hordeum vulgare 88 99 Aegilops speltoides 72 99 Triticum timopheevii 76 Aegilops speltoides 97 99 Triticum timopheevii Hordeum vulgare 70 76 Triticum timopheevii 92 Hordeum vulgare Aegilops speltoides Bambusa oldhamii 94 Lolium perenne 90 76 Oryza sativa 67 Oryza sativa 100 Oryza sativa 99 Bambusa oldhamii Allium cepa 100 Sorghum bicolor 76 Sorghum bicolor Cocos nucifera 87 100 Saccharum officinarum Saccharum officinarum 99Phoenix dactylifera 65 98 Tripsacum dactyloides 98 99 Zea perennis 100100 Butomus umbellatus Zea perennis Tripsacum dactyloides 76 Stratiotes aloides Bambusa oldhamii 83 Eleusine indica Zostera marina Cocos nucifera Cocos nucifera Nelumbo nucifera Spirodela polyrhiza Spirodela polyrhiza Vitis vinifera 96 87 Butomus umbellatus Nelumbo nucifera 85 Vaccinium macrocarpon 100 Stratiotes aloides Vitis vinifera 69 Monotropa hypopitys 64 Zostera marina 76 Nepenthes ventricosa Camellia sinensis Nelumbo nucifera Fallopia multiflora Ilex pubescens 68Beta vulgaris 96 94 Beta vulgaris Daucus carota Chenopodium quinoa 100 Chenopodium quinoa Fallopia multiflora 97 Sesuvium portulacastrum 96 Spinacia oleracea 87 Silene vulgaris 71 Spinacia oleracea 100 Silene vulgaris 85 78Beta vulgaris 78 Silene vulgaris 76 Spinacia oleracea Fallopia multiflora Sesuvium portulacastrum 62 Chenopodium quinoa Nepenthes ventricosa Eucalyptus grandis Sesuvium portulacastrum Camellia sinensis Lagerstroemia indica 65 Nepenthes ventricosa 100 Cynanchum wilfordii Geranium maderense Cynomorium coccineum 98 Cynanchum wilfordii2 100 Salix suchowensis 64 Rhazya stricta Rhazya stricta Populus tremula Asclepias syriaca 100 Platycodon grandiflorus 67Lactuca serriola Erythranthe guttata Codonopsis lanceolata 86 Paraprenanthes diversifolia Ajuga reptans 81Olea europaea 100 Diplostephium hartwegii 82 Castilleja paramensis 84Chionanthus rupicola Chrysanthemum boreale Salvia miltiorrhiza Ligustrum quihoui Helianthus annuus Utricularia reniformis Hesperelaea palmeri 100 Platycodon grandiflorus 87 Haberlea rhodopensis Utricularia reniformis 100 Codonopsis lanceolata Dorcoceras hygrometricum Salvia miltiorrhiza Prunus avium Olea europaea Ajuga reptans Eriobotrya japonica 77 Erythranthe guttata 100 69 Hesperelaea palmeri Castilleja paramensis Malus domestica Chionanthus rupicola Capsicum annuum Batis maritima 99 Ligustrum quihoui 100 69 Physochlaina orientalis 100 Citrullus lanatus 69Paraprenanthes diversifolia Hyoscyamus niger 84 Cucumis sativus Chrysanthemum boreale Nicotiana tabacum Cucurbita pepo 95 Lactuca serriola Solanum tuberosum Morus notabilis Diplostephium hartwegii Ilex pubescens Cannabis sativa Helianthus annuus Carica papaya Hemiptelea davidii 62 Ziziphus jujuba Corchorus olitorius Ziziphus jujuba 100 Prunus avium Batis maritima Arabis alpina 100Malus domestica Spondias tuberosa 100 Schrenkiella parvula Eriobotrya japonica Xanthoceras sorbifolium Eruca vesicaria Cannabis sativa 89 Cucurbita pepo Brassica rapa 95Morus notabilis 94 Cucumis sativus Capsella rubella 88 Hemiptelea davidii 76 Citrullus lanatus 100 Turritis glabra Styphnolobium japonicum Lagerstroemia indica Boechera stricta Cercis canadensis 100Leucaena trichandra Arabidopsis thaliana Citrullus lanatus 70 Acacia ligulata Sinapis arvensis 88 Cucumis sativus Lophophytum mirabile 100 Raphanus sativus Cucurbita pepo Castanospermum australe Lagerstroemia indica Senna tora 79Capsicum annuum Geranium maderense 86 Libidibia coriaria 98 Hyoscyamus niger Spondias tuberosa Haematoxylum brasiletto 100 Physochlaina orientalis Peganum harmala Lotus japonicus Solanum tuberosum Glycine soja 63 Nicotiana tabacum Citrus sinensis 93 Ipomoea nil Hibiscus cannabinus 69 Phaseolus vulgaris 100 100 Corchorus olitorius 97 Vigna radiata 98 Cuscuta australis Gossypium trilobum Millettia pinnata Cuscuta campestris 92 Bombax ceiba Bupleurum falcatum2 Cuscuta gronovii 99 Gastrodia elata 88 Bupleurum falcatum 100 Hesperelaea palmeri Gastrodia elata2 81Vicia faba Chionanthus rupicola 100 Codonopsis lanceolata 68 Medicago truncatula 65 Ligustrum quihoui Platycodon grandiflorus Styphnolobium japonicum 98 Olea europaea Epirixanthes elongata Tamarindus indica Haberlea rhodopensis Carica papaya 99 Haberlea rhodopensis Dorcoceras hygrometricum 100 63 Erythranthe guttata 85 Manihot esculenta 99 Salvia miltiorrhiza Hevea brasiliensis 100 97 Bombax ceiba 94 74 Ajuga reptans Ricinus communis Gossypium trilobum 97 Utricularia reniformis Eucalyptus grandis Hibiscus cannabinus Castilleja paramensis Xanthoceras sorbifolium 99 Ammopiptanthus nanus Dorcoceras hygrometricum 100Salix suchowensis Sophora flavescens 100 Populus tremula Geranium maderense 100 Cynanchum wilfordii Citrus sinensis Asclepias syriaca Arabidopsis thaliana Cercis canadensis Rhazya stricta 99 Arabis alpina Diplostephium hartwegii Ilex pubescens Boechera stricta Chrysanthemum boreale Epirixanthes elongata Turritis glabra 99Paraprenanthes diversifolia Carica papaya Capsella rubella Lactuca serriola Peganum harmala 98 69 Sinapis arvensis Epirixanthes elongata Spondias tuberosa 79 Raphanus sativus Cannabis sativa 97 Cynomorium coccineum 77 Brassica rapa 96 Capsella rubella Eruca vesicaria Turritis glabra Citrus sinensis Batis maritima Xanthoceras sorbifolium 71 Arabidopsis thaliana 71 Camellia sinensis 100 Lophophytum mirabile Raphanus sativus 100 100 Vaccinium macrocarpon Acacia ligulata 78Brassica rapa Monotropa hypopitys Leucaena trichandra 60 Sinapis arvensis Gossypium trilobum Tamarindus indica 100 Eruca vesicaria 67 92Senna tora Boechera stricta 99 Hibiscus cannabinus 70 Senna tora2 74 61 Arabidopsis thaliana2 Bombax ceiba 96 Ammopiptanthus nanus Arabis alpina Corchorus olitorius Sophora flavescens Peganum harmala Manihot esculenta Castanospermum australe Helianthus annuus 99 Hevea brasiliensis 0.1 Millettia pinnata Hemiptelea davidii Ricinus communis Vigna radiata 93 Cynomorium coccineum2 95 Vigna radiata 98 Vicia faba Cynomorium coccineum 100 Phaseolus vulgaris Medicago truncatula 100 Populus tremula Glycine soja Phaseolus vulgaris 0.1 Salix suchowensis Millettia pinnata Glycine soja Eucalyptus grandis 0.2 Lotus japonicus Lotus japonicus 98 Ipomoea nil 78 Styphnolobium japonicum Bupleurum falcatum 97 Cuscuta gronovii 97 Castanospermum australe 100 Libidibia coriaria 92Cuscuta campestris 82 Sophora flavescens 95 Haematoxylum brasiletto Cuscuta australis 68 Ammopiptanthus nanus Cynanchum wilfordii Ricinus communis 76 Medicago truncatula 62 Solanum tuberosum Hevea brasiliensis Bupleurum falcatum Hyoscyamus niger 88 Manihot esculenta Tamarindus indica 91 Physochlaina orientalis Daucus carota Cercis canadensis Capsicum annuum Monotropa hypopitys Lophophytum mirabile 86 Nicotiana tabacum Vitis vinifera 74 88 Ipomoea nil Ziziphus jujuba Leucaena trichandra 100 100 Prunus avium 94 Acacia ligulata 100 Cuscuta australis 90 97Eriobotrya japonica Haematoxylum brasiletto Cuscuta campestris 90 96 Libidibia coriaria Cuscuta gronovii Malus domestica
atp8 atp9 Cycas taitungensis Cycas taitungensis 95 Pinus taeda 98 Ginkgo biloba Ginkgo biloba Pinus taeda 98 Schisandra sphenanthera Amborella trichopoda Schisandra sphenanthera2 Nymphaea colorata Nymphaea colorata 100 Stratiotes aloides 99 Liriodendron tulipifera Zostera marina Amborella trichopoda Butomus umbellatus Nelumbo nucifera 90 Gastrodia elata Spirodela polyrhiza 100 Cocos nucifera Cocos nucifera Phoenix dactylifera 87Hordeum vulgare Oryza sativa Aegilops speltoides 67 Sorghum bicolor Triticum timopheevii 100 Bambusa oldhamii 83 Eleusine indica Saccharum officinarum Cynodon dactylon 10088 Cynodon dactylon Oryza sativa Eleusine indica 69 67 Tripsacum dactyloides Zea perennis 60 89 Zea perennis Tripsacum dactyloides Sorghum bicolor 83 Lolium perenne 84 Saccharum officinarum 98 Hordeum vulgare Bambusa oldhamii Triticum timopheevii Phoenix dactylifera 100 82Rhazya stricta 97 Aegilops speltoides 62 100 Cynanchum wilfordii Allium cepa Asclepias syriaca Nelumbo nucifera Ilex pubescens2 99 Lophophytum mirabile2 94Cuscuta australis Lophophytum mirabile Cuscuta campestris Epirixanthes elongata 64 Cuscuta gronovii 100 Populus tremula Ipomoea nil Salix suchowensis 62 Physochlaina orientalis Geranium maderense 88 Hyoscyamus niger Silene vulgaris Solanum tuberosum Arabis alpina Nicotiana tabacum 67 Eruca vesicaria Capsicum annuum 99 Brassica rapa Vaccinium macrocarpon 90 Sinapis arvensis Camellia sinensis 77 Raphanus sativus Monotropa hypopitys non-angiosperms 63 Boechera stricta Helianthus annuus 70 Arabidopsis thaliana Lactuca serriola 99 Paraprenanthes diversifolia Turritis glabra Diplostephium hartwegii Capsella rubella Chrysanthemum boreale Corchorus olitorius Ilex pubescens basal + magnoliids Codonopsis lanceolata Cannabis sativa Ajuga reptans Morus notabilis Platycodon grandiflorus Hemiptelea davidii 100 Asclepias syriaca Cynomorium coccineum Cynanchum wilfordii 86 Hibiscus cannabinus monocots 62 Morus notabilis Bombax ceiba 70 Cannabis sativa Gossypium trilobum 69 Hemiptelea davidii Allium cepa 78 Cucurbita pepo Gastrodia elata 97 Cucumis sativus Spondias tuberosa basal eudicots Citrullus lanatus Peganum harmala 68 Schisandra sphenanthera Citrus sinensis 97 Spirodela polyrhiza 71 Prunus avium Liriodendron tulipifera Malus domestica 84Eriobotrya japonica rosids Batis maritima Vitis vinifera Eriobotrya japonica Ziziphus jujuba 97Malus domestica Carica papaya Ziziphus jujuba Batis maritima Sesuvium portulacastrum Lagerstroemia indica rosids / fabids 91 66 Cynomorium coccineum2 Eucalyptus grandis 87 92 Beta vulgaris Boechera stricta 100 Chenopodium quinoa Codonopsis lanceolata 91 Spinacia oleracea Eruca vesicaria Fallopia multiflora Schrenkiella parvula rosids / malvids Nepenthes ventricosa Arabis alpina Vitis vinifera Sinapis arvensis Physochlaina orientalis Brassica rapa Hyoscyamus niger Capsella rubella Nicotiana tabacum Turritis glabra asterids 93 Capsicum annuum Arabidopsis thaliana Solanum tuberosum Raphanus sativus Citrullus lanatus 100 Cuscuta gronovii Cucurbita pepo 100 87 Cuscuta australis Cucumis sativus asterids / campanulids Cuscuta campestris Fallopia multiflora Ipomoea nil 61 Xanthoceras sorbifolium Daucus carota Lolium perenne 88 75Chrysanthemum boreale 93 Butomus umbellatus 69 Diplostephium hartwegii 90 Stratiotes aloides asterids / lamiids 100 Helianthus annuus Zostera marina 98 Paraprenanthes diversifolia Lophophytum mirabile Lactuca serriola Corchorus olitorius Rhazya stricta Ajuga reptans 63 Utricularia reniformis 87 Populus tremula 82 Salvia miltiorrhiza Salix suchowensis Erythranthe guttata Geranium maderense Castilleja paramensis Daucus carota 75 Olea europaea 77 Hevea brasiliensis Chionanthus rupicola Manihot esculenta 92 Hesperelaea palmeri Ricinus communis Ligustrum quihoui Epirixanthes elongata 97 Haberlea rhodopensis 100 Olea europaea Dorcoceras hygrometricum Ligustrum quihoui Ilex pubescens Hesperelaea palmeri 79 Chionanthus rupicola Monotropa hypopitys Erythranthe guttata Vaccinium macrocarpon Utricularia reniformis 60 Lagerstroemia indica Castilleja paramensis Ricinus communis Salvia miltiorrhiza 94 Manihot esculenta Dorcoceras hygrometricum Hevea brasiliensis Haberlea rhodopensis 89 Xanthoceras sorbifolium 96 Lophophytum mirabile2 100 Cynomorium coccineum 8184Castanospermum australe 98 Cynomorium coccineum3 Styphnolobium japonicum Spondias tuberosa Sophora flavescens 70 Hibiscus cannabinus Ammopiptanthus nanus 99 Gossypium trilobum 98 Millettia pinnata Bombax ceiba Glycine soja Carica papaya 62 Vigna radiata Phaseolus vulgaris 0.1 Styphnolobium japonicum Lotus japonicus Cercis canadensis Vicia faba Medicago truncatula Medicago truncatula Vicia faba 0.1 Bupleurum falcatum 97Bupleurum falcatum2 Silene vulgaris Millettia pinnata Spinacia oleracea 7971 Vigna radiata Cynomorium coccineum2 77Phaseolus vulgaris Platycodon grandiflorus Glycine soja Beta vulgaris 99 Sophora flavescens Chenopodium quinoa Ammopiptanthus nanus Sesuvium portulacastrum 92 Bupleurum falcatum Nepenthes ventricosa Lotus japonicus Tamarindus indica Castanospermum australe Cercis canadensis Tamarindus indica 66 Lophophytum mirabile3 100 Libidibia coriaria 92 Leucaena trichandra 78 Haematoxylum brasiletto Acacia ligulata Senna tora 61 Senna tora 100 Leucaena trichandra Haematoxylum brasiletto Acacia ligulata Libidibia coriaria b ccmB ccmC ccmFC Cycas taitungensis Cycas taitungensis Cycas taitungensis 98 Ginkgo biloba Pinus taeda 100 Ginkgo biloba Pinus taeda Ginkgo biloba Amborella trichopoda Amborella trichopoda Pinus taeda Nymphaea colorata Nymphaea colorata Amborella trichopoda 100 Schisandra sphenanthera Schisandra sphenanthera 100 Nymphaea colorata Nelumbo nucifera Butomus umbellatus Schisandra sphenanthera 97 Stratiotes aloides 100 Zostera marina Liriodendron tulipifera 100 Butomus umbellatus 100 Stratiotes aloides Spirodela polyrhiza Zostera marina Allium cepa 91 Cocos nucifera 100 Phoenix dactylifera Gastrodia elata 69 Phoenix dactylifera Cocos nucifera Cynodon dactylon 79 Allium cepa 94 Oryza sativa Zea perennis 96Triticum timopheevii Aegilops speltoides Sorghum bicolor 89 98 Aegilops speltoides 79 100 Lolium perenne 78 61 Saccharum officinarum 90 75 Hordeum vulgare Triticum timopheevii 88 Tripsacum dactyloides Lolium perenne Hordeum vulgare Lolium perenne 100 Zea perennis Bambusa oldhamii 61 73 Bambusa oldhamii 65 Oryza sativa Sorghum bicolor 100 Hordeum vulgare 91 Sorghum bicolor 65 Saccharum officinarum Eleusine indica 78 67 Tripsacum dactyloides Tripsacum dactyloides 84 90 Cynodon dactylon 91 Aegilops speltoides Zea perennis 90 Triticum timopheevii 62 Saccharum82 officinarum Eleusine indica 90 Oryza sativa Bambusa oldhamii 99 97 Eleusine indica Gastrodia elata Cocos nucifera Cynodon dactylon Spirodela polyrhiza Phoenix dactylifera Gastrodia elata Spirodela polyrhiza 88 Liriodendron tulipifera Liriodendron tulipifera 100 Stratiotes aloides Vitis vinifera Nelumbo nucifera Butomus umbellatus 71 Fallopia multiflora Vitis vinifera Zostera marina Nepenthes ventricosa Ilex pubescens Nelumbo nucifera Cynomorium coccineum Monotropa hypopitys Cynomorium coccineum Geranium maderense 93 100 Codonopsis lanceolata 67 Spinacia oleracea Daucus carota 90 Chionanthus rupicola 71 Platycodon grandiflorus Chenopodium quinoa Hesperelaea palmeri Geranium maderense 67 Sesuvium portulacastrum 86 Olea europaea 64 Lophophytum mirabile Beta vulgaris 99 Ligustrum quihoui Vitis vinifera Silene vulgaris Vaccinium macrocarpon 97 Cucurbita pepo Ajuga reptans 74 98 Platycodon grandiflorus 85 73 Silene vulgaris Cucumis sativus Codonopsis lanceolata 85 Spinacia oleracea Citrullus lanatus Daucus carota 79 Chenopodium quinoa 96 Lagerstroemia indica Physochlaina orientalis 84 Sesuvium portulacastrum Eucalyptus grandis Capsicum annuum Fallopia multiflora Olea europaea 63Hyoscyamus niger Nepenthes ventricosa Hesperelaea palmeri Solanum tuberosum Helianthus annuus 99 Chionanthus rupicola Ipomoea nil 100 Paraprenanthes diversifolia Ligustrum quihoui 100 Cuscuta campestris Lactuca serriola 68 92 Chrysanthemum boreale 99 83 Erythranthe guttata 95 Cuscuta australis Diplostephium hartwegii 83 Castilleja paramensis Cuscuta gronovii 82 96 Ajuga reptans Nicotiana tabacum 97 Platycodon grandiflorus Salvia miltiorrhiza 73Olea europaea Codonopsis lanceolata 98 Hesperelaea palmeri Salvia miltiorrhiza Utricularia reniformis 97 Chionanthus rupicola Castilleja paramensis 67 Dorcoceras hygrometricum Ligustrum quihoui Erythranthe guttata 61Nicotiana tabacum 100 Haberlea rhodopensis 67 Ajuga reptans 63 Capsicum annuum 60 Dorcoceras hygrometricum Utricularia reniformis 100 Physochlaina orientalis Utricularia reniformis 100Haberlea rhodopensis Solanum tuberosum Erythranthe guttata Dorcoceras hygrometricum 66 81 61 Hyoscyamus niger 96 81 Castilleja paramensis 100 Asclepias syriaca 100 Cuscuta australis Salvia miltiorrhiza 99 Cynanchum wilfordii 100 Cuscuta campestris Camellia sinensis Rhazya stricta Ipomoea nil Allium cepa 86 Solanum tuberosum 100 Rhazya stricta 72 Eucalyptus grandis Physochlaina orientalis 100 Asclepias syriaca Lagerstroemia indica 67Nicotiana tabacum Cynanchum wilfordii Vaccinium macrocarpon Hyoscyamus niger 70 Diplostephium hartwegii Monotropa hypopitys Capsicum annuum Chrysanthemum boreale Diplostephium hartwegii 68Cuscuta gronovii 100 Paraprenanthes diversifolia 98 99 Paraprenanthes diversifolia 100 99 Cuscuta australis Lactuca serriola Lactuca serriola Cuscuta campestris 77 Daucus carota Chrysanthemum boreale Ipomoea nil Ilex pubescens Helianthus annuus Camellia sinensis Vaccinium macrocarpon Ilex pubescens 93 Bombax ceiba 100 Rhazya stricta Gossypium trilobum 100 Monotropa hypopitys Cynanchum wilfordii 93 Camellia sinensis Asclepias syriaca 100 Hibiscus cannabinus 85 Chenopodium quinoa Corchorus olitorius 97 89 Hemiptelea davidii 63Boechera stricta 100 Spinacia oleracea 89 Cannabis sativa 99 Arabidopsis thaliana 100 Beta vulgaris 86 Morus notabilis Turritis glabra Silene vulgaris Ziziphus jujuba 99 Capsella rubella Sesuvium portulacastrum 95Eriobotrya japonica Arabis alpina 100 Fallopia multiflora 88 Malus domestica 98 Raphanus sativus Nepenthes ventricosa Prunus avium 100 Cucurbita pepo 96 70 Eruca vesicaria Manihot esculenta 86 Sinapis arvensis 100 Hevea brasiliensis Citrullus lanatus 85 56Brassica rapa 99 Ricinus communis Cucumis sativus Schrenkiella parvula 100Populus tremula 86 Corchorus olitorius Batis maritima Salix suchowensis 91Bombax ceiba Carica papaya 100 Xanthoceras sorbifolium Gossypium trilobum Hevea brasiliensis 100 Peganum harmala 79 Hibiscus cannabinus 75 Ricinus communis Carica papaya Manihot esculenta Citrus sinensis Brassica rapa 100Populus tremula Batis maritima Sinapis arvensis 64Boechera stricta Arabis alpina Salix suchowensis 97 Capsella rubella 73Arabidopsis thaliana Xanthoceras sorbifolium 72 Turritis glabra 72 Capsella rubella Peganum harmala 100 Spondias tuberosa 61Arabidopsis thaliana 89 Turritis glabra Citrus sinensis 94 Arabis alpina Boechera stricta Hemiptelea davidii Brassica rapa 84 Schrenkiella parvula Geranium maderense 69 Eruca vesicaria Eruca vesicaria 82 Eriobotrya japonica 78 Raphanus sativus Raphanus sativus 84 Malus domestica 91 Sinapis arvensis Batis maritima Prunus avium Carica papaya Spondias tuberosa 68 Gossypium trilobum Citrus sinensis Cannabis sativa 90 Cynomorium coccineum2 0.05 Morus notabilis 91 Bombax ceiba Peganum harmala Ziziphus jujuba Hibiscus cannabinus Xanthoceras sorbifolium 77 Eucalyptus grandis 0.1 Corchorus olitorius 100 Salix suchowensis Lagerstroemia indica 75 Ziziphus jujuba Populus tremula Cynomorium coccineum 100 Hemiptelea davidii Hevea brasiliensis 100 Cucumis sativus 68 Morus notabilis Ricinus communis Cucurbita pepo 85 Cannabis sativa Manihot esculenta Citrullus lanatus 100Malus domestica Epirixanthes elongata Epirixanthes elongata Eriobotrya japonica 98 Vicia faba Tamarindus indica Epirixanthes elongata 73 Medicago truncatula Libidibia coriaria 66 Bupleurum falcatum Senna tora Cercis canadensis Lotus japonicus Cercis canadensis Ammopiptanthus nanus 65 Millettia pinnata Haematoxylum brasiletto 100 Vicia faba Glycine soja 84 Vigna radiata Medicago truncatula 96 93Phaseolus vulgaris 60 Phaseolus vulgaris Bupleurum falcatum Vigna radiata Glycine soja 80 Lotus japonicus 81 65 93 Sophora flavescens 99 88 Glycine soja Ammopiptanthus nanus 92 Vigna radiata 84 Sophora flavescens Ammopiptanthus nanus 0.05 Lophophytum mirabile 96 99 Medicago truncatula 93 88Phaseolus vulgaris Styphnolobium japonicum 92 Vicia faba 72 Millettia pinnata Castanospermum australe 91 80Lotus japonicus Styphnolobium japonicum Tamarindus indica Bupleurum falcatum Castanospermum australe 77 Cercis canadensis 88 Millettia pinnata Tamarindus indica Senna tora Styphnolobium japonicum Senna tora 87 Leucaena trichandra Castanospermum australe 87 Libidibia coriaria 65 Acacia ligulata 95 Lophophytum mirabile 94 Haematoxylum brasiletto Haematoxylum brasiletto Leucaena trichandra Leucaena trichandra Libidibia coriaria Acacia ligulata 100 Acacia ligulata
ccmFN cob Cycas taitungensis 100 Pinus taeda Cycas taitungensis Ginkgo biloba Pinus taeda Nymphaea colorata Ginkgo biloba Amborella trichopoda 63 Amborella trichopoda Schisandra sphenanthera 100 Nymphaea colorata 100 Spirodela polyrhiza Schisandra sphenanthera Allium cepa2 Liriodendron tulipifera 62 Bambusa oldhamii Lolium perenne 100 Gastrodia elata 100 Hordeum vulgare Allium cepa 84 100 Aegilops speltoides 85Phoenix dactylifera 90 Triticum timopheevii Cocos nucifera 100Eleusine indica Oryza sativa Zea perennis Bambusa oldhamii 99 98 Tripsacum dactyloides Lolium perenne 99 Saccharum officinarum Triticum timopheevii Sorghum bicolor 70 Hordeum vulgare 75 Oryza sativa 90 Phoenix dactylifera 99 Aegilops speltoides Cocos nucifera 75 67Zea perennis 100 Zostera marina 94 Tripsacum dactyloides 96 Butomus umbellatus 90 Sorghum bicolor Stratiotes aloides Saccharum officinarum 69 Allium cepa 100 Eleusine indica Gastrodia elata Cynodon dactylon 90 80 Nelumbo nucifera 100 Zostera marina Liriodendron tulipifera 97 Butomus umbellatus Vitis vinifera Stratiotes aloides 92 Chrysanthemum boreale Spirodela polyrhiza 100 Diplostephium hartwegii 100 Lactuca serriola Nelumbo nucifera 100 Paraprenanthes diversifolia Vitis vinifera 75 Helianthus annuus Corchorus olitorius 100 Platycodon grandiflorus 89 75 Bombax ceiba Codonopsis lanceolata 100Gossypium trilobum 73 Ilex pubescens Hibiscus cannabinus 100 Dorcoceras hygrometricum 90 Hevea brasiliensis Haberlea rhodopensis 79 Manihot esculenta 97 99 Erythranthe guttata 94 Castilleja paramensis Ricinus communis non-angiosperms 98 Ajuga reptans 100 Codonopsis lanceolata 98 Salvia miltiorrhiza Platycodon grandiflorus 75 100 Utricularia reniformis Daucus carota 98 96 Olea europaea 90 78 Diplostephium hartwegii 69 Hesperelaea palmeri Helianthus annuus basal + magnoliids Chionanthus rupicola Chrysanthemum boreale 85 Ligustrum quihoui 86 Lactuca serriola 100100 Cynanchum wilfordii Paraprenanthes diversifolia 75 Asclepias syriaca Rhazya stricta Camellia sinensis monocots 100 Ipomoea nil Ilex pubescens 91 100 100 Cuscuta australis 67 Castilleja paramensis 100 Cuscuta campestris Utricularia reniformis 93 Cuscuta gronovii Salvia miltiorrhiza 78 96Solanum tuberosum 85 Dorcoceras hygrometricum basal eudicots 100 Capsicum annuum Haberlea rhodopensis Hyoscyamus niger 89 Ajuga reptans 86 Physochlaina orientalis 78 87 Solanum tuberosum 100 Nicotiana tabacum Nicotiana tabacum Daucus carota Physochlaina orientalis rosids 99 Camellia sinensis 92 Vaccinium macrocarpon Hyoscyamus niger Monotropa hypopitys 71 Capsicum annuum 10099Eriobotrya japonica 70 Cuscuta australis 100 Malus domestica 100 Cuscuta gronovii rosids / fabids Prunus avium 99 Cuscuta campestris Eucalyptus grandis Ipomoea nil 83 Fallopia multiflora 100 Asclepias syriaca Nepenthes ventricosa Cynanchum wilfordii 100 80 Silene vulgaris Rhazya stricta rosids / malvids Chenopodium quinoa 99 99 Sesuvium portulacastrum 90Spinacia oleracea Silene vulgaris 100 Sesuvium portulacastrum 99 Beta vulgaris Cynomorium coccineum 94 Geranium maderense 95 Spinacia oleracea 73 Lophophytum mirabile 98 Chenopodium quinoa asterids Epirixanthes elongata 98 Fallopia multiflora 99 Cucumis sativus Nepenthes ventricosa 99 Cucurbita pepo Carica papaya Citrullus lanatus Batis maritima asterids / campanulids 91 Manihot esculenta 60 Capsella rubella 99 Ricinus communis 94 Hevea brasiliensis Arabis alpina 100Populus tremula 66 Boechera stricta Salix suchowensis Arabidopsis thaliana asterids / lamiids 95 Hibiscus cannabinus Sinapis arvensis 98 Gossypium trilobum Raphanus sativus 97 Bombax ceiba 100 Brassica rapa Corchorus olitorius Schrenkiella parvula Spondias tuberosa Eruca vesicaria 62 100 Peganum harmala Turritis glabra Citrus sinensis Monotropa hypopitys 79 Xanthoceras sorbifolium 75 Batis maritima Geranium maderense Arabidopsis thaliana Vaccinium macrocarpon Arabis alpina 99 Salix suchowensis 72 64 Schrenkiella parvula2 Populus tremula Raphanus sativus Lagerstroemia indica 71 Eruca vesicaria2 Eucalyptus grandis 99 Brassica rapa Peganum harmala Sinapis arvensis2 Cynomorium coccineum Turritis glabra 56 Capsella rubella2 82 Citrus sinensis 67Capsella rubella Spondias tuberosa 67 Turritis glabra2 Xanthoceras sorbifolium 97 Arabidopsis thaliana2 100 Prunus avium Boechera stricta Malus domestica 74 100 63Raphanus sativus2 100 Eriobotrya japonica 64 Sinapis arvensis 87 Cannabis sativa 96 Brassica rapa2 100 Morus notabilis Eruca vesicaria Hemiptelea davidii 50 Schrenkiella parvula 62 Cucumis sativus Arabis alpina2 100 Citrullus lanatus 100 Carica papaya Cucurbita pepo 100Hemiptelea davidii Styphnolobium japonicum 91 Cannabis sativa Morus notabilis Epirixanthes elongata Ziziphus jujuba 85 Glycine soja Cercis canadensis 82 100 Phaseolus vulgaris 98 Phaseolus vulgaris Vigna radiata Vigna radiata Millettia pinnata 77 Glycine soja 0.05 Lotus japonicus 0.1 100 Medicago truncatula Bupleurum falcatum Vicia faba 82 Bupleurum falcatum Vicia faba 100 Sophora flavescens 98 Medicago truncatula Ammopiptanthus nanus 97 Ammopiptanthus nanus 98 100 Millettia pinnata Sophora flavescens 75 Lotus japonicus Castanospermum australe Styphnolobium97 japonicum Cercis canadensis 66 Castanospermum australe Tamarindus indica Tamarindus indica Senna tora 89 100Haematoxylum brasiletto Haematoxylum brasiletto Libidibia coriaria 99 Senna tora 72 Libidibia coriaria 92 Lophophytum mirabile Leucaena trichandra 84 Leucaena trichandra 100 Acacia ligulata Acacia ligulata c cox1 cox2 cox3 Cycas taitungensis Cycas taitungensis Cycas taitungensis Ginkgo biloba Pinus taeda Pinus taeda Pinus taeda Ginkgo biloba Schisandra sphenanthera Schisandra sphenanthera 91 Hemiptelea davidii Butomus umbellatus 87 Morus notabilis 100 100 Amborella trichopoda Cannabis sativa Cocos nucifera Liriodendron tulipifera Arabis alpina Cocos nucifera2 Nymphaea colorata 80 Schrenkiella parvula Gastrodia elata Nelumbo nucifera Spirodela polyrhiza Gastrodia elata 100 Eruca vesicaria Spondias tuberosa Allium cepa Brassica rapa 94 93 Sinapis arvensis 67 Senna tora Triticum timopheevii Raphanus sativus Leucaena trichandra Aegilops speltoides Turritis glabra Epirixanthes elongata 100 90Cynodon dactylon 100 Arabidopsis thaliana 95 Haberlea rhodopensis Eleusine indica 64 Utricularia reniformis 63 Bambusa oldhamii Capsella rubella Spinacia oleracea Boechera stricta 98 Oryza sativa Geranium maderense Sesuvium portulacastrum 87 Saccharum officinarum 100 Populus tremula Chenopodium quinoa Sorghum bicolor Salix suchowensis 100Paraprenanthes diversifolia Zea perennis Cynomorium coccineum Lactuca serriola Tripsacum dactyloides Silene vulgaris Vitis vinifera Hordeum vulgare 100 97 Chenopodium quinoa Camellia sinensis 94 Lolium perenne 92 62 71 Vaccinium macrocarpon Phoenix dactylifera 100 Spinacia oleracea Monotropa hypopitys 97 Stratiotes aloides Beta vulgaris 100 85 Sesuvium portulacastrum 93 Solanum tuberosum Butomus umbellatus 100 Nepenthes ventricosa 77 Capsicum annuum Zostera marina Fallopia multiflora 100 Physochlaina orientalis Cocos nucifera Nelumbo nucifera Hyoscyamus niger Spirodela polyrhiza 96 Monotropa hypopitys 95 Nicotiana tabacum Vitis vinifera Vaccinium macrocarpon Ipomoea nil Eucalyptus grandis 100Eriobotrya japonica 74 69Cuscuta australis 99Eriobotrya japonica 100 100 Cuscuta gronovii Malus domestica Malus domestica Cuscuta campestris Citrullus lanatus Prunus avium 62 Cucumis sativus 100 Codonopsis lanceolata Dorcoceras hygrometricum Cucurbita pepo Platycodon grandiflorus 93 74 Salvia miltiorrhiza Lophophytum mirabile2 Helianthus annuus 93 Erythranthe guttata 99 75 Ajuga reptans Epirixanthes elongata 96 Lactuca serriola 89 Lagerstroemia indica Paraprenanthes diversifolia Castilleja paramensis 96 Dorcoceras hygrometricum 70 88 Diplostephium hartwegii Hesperelaea palmeri Haberlea rhodopensis 77 Chrysanthemum boreale 98Chionanthus rupicola Utricularia reniformis Daucus carota Olea europaea Erythranthe guttata Solanum tuberosum Ligustrum quihoui 99 Cynanchum wilfordii 99Physochlaina orientalis 100 Rhazya stricta 74 Asclepias syriaca 88 Hyoscyamus niger 100 Cynanchum wilfordii Rhazya stricta Nicotiana tabacum Asclepias syriaca Capsicum annuum Beta vulgaris Ajuga reptans 99 Cuscuta campestris 69 Silene vulgaris Salvia miltiorrhiza 98 Castilleja paramensis 100 Cuscuta australis 75 91 Fallopia multiflora Ligustrum quihoui Cuscuta gronovii Cynomorium coccineum 63 Chionanthus rupicola Ipomoea nil Nepenthes ventricosa Olea europaea 93 Ligustrum quihoui Nelumbo nucifera 65 Hesperelaea palmeri Hesperelaea palmeri Ginkgo biloba 97Cuscuta gronovii Olea europaea 97 Amborella trichopoda Cuscuta australis 98 Chionanthus rupicola Nymphaea colorata 97 Cuscuta campestris Erythranthe guttata Liriodendron tulipifera 89 Ipomoea nil 94 100 Dorcoceras hygrometricum 98 Zostera marina Nicotiana tabacum Haberlea rhodopensis Stratiotes aloides Hyoscyamus niger 92 100 Salvia miltiorrhiza 79Eleusine indica 62 Physochlaina orientalis Ajuga reptans Cynodon dactylon Solanum tuberosum 88 Castilleja paramensis Lolium perenne 67 Capsicum annuum Utricularia reniformis Hordeum vulgare Helianthus annuus 92 Rhazya stricta 67 Triticum timopheevii 81 Lactuca serriola 69 100 Asclepias syriaca Aegilops speltoides Paraprenanthes diversifolia Cynanchum wilfordii 95 Oryza sativa 95 100 Platycodon grandiflorus Ilex pubescens Bambusa oldhamii Codonopsis lanceolata 85 Corchorus olitorius 100 Tripsacum dactyloides 80Diplostephium hartwegii 79 Bombax ceiba Saccharum officinarum Chrysanthemum boreale 94 Hibiscus cannabinus Sorghum bicolor Ilex pubescens Gossypium trilobum Zea perennis Daucus carota Peganum harmala Allium cepa 71 Capsella rubella Citrus sinensis Phoenix dactylifera 63 Arabidopsis thaliana Xanthoceras sorbifolium Cynomorium coccineum2 Turritis glabra Spondias tuberosa Ilex pubescens Boechera stricta 87 Batis maritima Chrysanthemum boreale Brassica rapa Carica papaya Daucus carota Sinapis arvensis 82 Ricinus communis Eucalyptus grandis 99Raphanus sativus Hevea brasiliensis Lagerstroemia indica Eruca vesicaria 68 Cucumis sativus Lophophytum mirabile 84 Schrenkiella parvula 72 Citrullus lanatus 97 92 Arabis alpina Cucurbita pepo 86 Acacia ligulata Batis maritima Lophophytum mirabile Haematoxylum brasiletto Carica papaya Ziziphus jujuba Libidibia coriaria 99Hibiscus cannabinus 100 Phoenix dactylifera Bupleurum falcatum Bombax ceiba Cocos nucifera 73 Ammopiptanthus nanus 99 Gossypium trilobum 100 Butomus umbellatus 63 Millettia pinnata Corchorus olitorius 100 Stratiotes aloides Glycine soja Xanthoceras sorbifolium Zostera marina Castanospermum australe 78 Spondias tuberosa Spirodela polyrhiza 73 Styphnolobium japonicum Peganum harmala 81 Eleusine indica2 Vicia faba Geranium maderense 80 Eleusine indica 80 Lotus japonicus 99Populus tremula Cynodon dactylon Cercis canadensis Salix suchowensis 90 78 Tripsacum dactyloides Tamarindus indica 95 Cannabis sativa 100Saccharum officinarum Carica papaya 92 Morus notabilis 95 83 Sorghum bicolor Corchorus olitorius Hemiptelea davidii Zea perennis Bombax ceiba 69Vaccinium macrocarpon 92 Triticum timopheevii Hibiscus cannabinus Monotropa hypopitys 100 Aegilops speltoides 83 Citrus sinensis Citrus sinensis 100 85 Hordeum vulgare 65 Gossypium trilobum Cynomorium coccineum 68 Lolium perenne 92Peganum harmala Fallopia multiflora 71 Bambusa oldhamii 60Turritis glabra Sesuvium portulacastrum Oryza sativa Boechera stricta 100 Silene vulgaris Gastrodia elata 99 Capsella rubella 99 90 61 Spinacia oleracea 62 Liriodendron tulipifera Arabidopsis thaliana 75 Chenopodium quinoa Schisandra sphenanthera Schrenkiella parvula Beta vulgaris Amborella trichopoda Arabis alpina Nepenthes ventricosa Nymphaea colorata 87 63 Eruca vesicaria Cercis canadensis Vitis vinifera Brassica rapa 78 Sophora flavescens 95 Eucalyptus grandis 72 Raphanus sativus Ammopiptanthus nanus Lagerstroemia indica Sinapis arvensis Vicia faba Epirixanthes elongata Batis maritima 94 Lotus japonicus Senna tora 63 Ricinus communis 75 Medicago truncatula 88 Cercis canadensis 95 Hevea brasiliensis Bupleurum falcatum Haematoxylum brasiletto Manihot esculenta 0.05 Glycine soja 75 Leucaena trichandra Xanthoceras sorbifolium 98 Millettia pinnata 0.05 Lotus japonicus 100Citrullus lanatus Phaseolus vulgaris Bupleurum falcatum Cucumis sativus 88 Vigna radiata 93 Vicia faba 64 Cucurbita pepo 97 Manihot esculenta 93 0.05 Ricinus communis 99 Medicago truncatula Ziziphus jujuba 60 Vigna radiata Prunus avium Hevea brasiliensis Glycine soja 67 100Malus domestica Styphnolobium japonicum 91 Phaseolus vulgaris Eriobotrya japonica Castanospermum australe 80Millettia pinnata Hemiptelea davidii Tamarindus indica Castanospermum australe Codonopsis lanceolata Ziziphus jujuba 82 Styphnolobium japonicum Platycodon grandiflorus Libidibia coriaria Sophora flavescens Populus tremula 90 Haematoxylum brasiletto 92 Ammopiptanthus nanus Salix100 suchowensis Senna tora Tamarindus indica Lophophytum mirabile Acacia ligulata Geranium maderense Leucaena trichandra 98 Morus notabilis 63 Acacia ligulata Libidibia coriaria Cannabis sativa 79
matR mttB Cycas taitungensis Cycas taitungensis 100 Ginkgo biloba Pinus taeda 99 Ginkgo biloba 94 Amborella trichopoda Pinus taeda Nymphaea colorata Amborella trichopoda Schisandra sphenanthera Nymphaea colorata Spirodela polyrhiza Schisandra sphenanthera 100 Stratiotes aloides 100 Butomus umbellatus 100 Zostera marina 99 Cocos nucifera Butomus umbellatus Phoenix dactylifera 66 Stratiotes aloides Triticum timopheevii Oryza sativa 99 99Hordeum vulgare 100 87 96 96 Aegilops speltoides 84 Cynodon dactylon Lolium perenne Eleusine indica 100 Bambusa oldhamii Tripsacum dactyloides 100 Tripsacum dactyloides Saccharum officinarum 100 99 Zea perennis Zea perennis 91 Sorghum bicolor Sorghum bicolor 99 Saccharum officinarum 100 Eleusine indica Bambusa oldhamii 87 80 Oryza sativa Lolium perenne 100 Allium cepa 85 Triticum timopheevii Gastrodia elata 100 Hordeum vulgare Liriodendron tulipifera 94 Nelumbo nucifera Aegilops speltoides Cynomorium coccineum 98 Cocos nucifera Lophophytum mirabile Phoenix dactylifera 64 Fallopia multiflora Nepenthes ventricosa Gastrodia elata 84 100 Silene vulgaris Allium cepa 78 93Spinacia oleracea Spirodela polyrhiza Chenopodium quinoa Liriodendron tulipifera 100 Beta vulgaris Citrus sinensis Sesuvium portulacastrum 96 87 100 Platycodon grandiflorus Peganum harmala 75 100 Codonopsis lanceolata Xanthoceras sorbifolium 73 Chrysanthemum boreale Eucalyptus grandis Paraprenanthes diversifolia Lagerstroemia indica Lactuca serriola non-angiosperms Diplostephium hartwegii Ilex pubescens 100 Helianthus annuus Daucus carota Daucus carota 96 Monotropa hypopitys 100 Cynanchum wilfordii 86 Vaccinium macrocarpon 100 Asclepias syriaca basal + magnoliids 100 Rhazya stricta Camellia sinensis 94 Olea europaea 91 Lactuca serriola Ligustrum quihoui 93 Diplostephium hartwegii 98 Hesperelaea palmeri Chrysanthemum boreale 71Chionanthus rupicola Sinapis arvensis monocots 94 97 Ajuga reptans 7760 Capsella rubella 94 Salvia miltiorrhiza Castilleja paramensis 100 Arabidopsis thaliana 97 Arabis alpina 100 Erythranthe guttata basal eudicots 100 Utricularia reniformis Boechera stricta Dorcoceras hygrometricum 61 Corchorus olitorius 89 Haberlea rhodopensis 97 10085Physochlaina orientalis Gossypium trilobum 67 Hyoscyamus niger Hibiscus cannabinus rosids 100 Solanum tuberosum Carica papaya Capsicum annuum 100 Salix suchowensis 64 93 Nicotiana tabacum Populus tremula 60 100 Cuscuta gronovii Ricinus communis 100 Cuscuta campestris rosids / fabids 100 Cuscuta australis Manihot esculenta Ipomoea nil 86Salvia miltiorrhiza Ilex pubescens 74 Ajuga reptans 99 Monotropa hypopitys 97 Vaccinium macrocarpon 67Erythranthe guttata rosids / malvids Camellia sinensis 73 Utricularia reniformis Vitis vinifera 91 Haberlea rhodopensis 100 Lagerstroemia indica 96 Castilleja paramensis Eucalyptus grandis Ligustrum quihoui Geranium maderense asterids 100 Manihot esculenta 72 Hesperelaea palmeri 100 Hevea brasiliensis 99 Olea europaea 100 Ricinus communis Chionanthus rupicola 100Populus tremula Physochlaina orientalis asterids / campanulids Salix suchowensis Hyoscyamus niger Corchorus olitorius 86 63 100 Gossypium trilobum Nicotiana tabacum Hibiscus cannabinus 61 Solanum tuberosum 80 Bombax ceiba 67 Capsicum annuum asterids / lamiids 100 Spondias tuberosa Ipomoea nil Xanthoceras sorbifolium 100 Cuscuta gronovii 97 Capsella rubella Boechera stricta 100 Cuscuta campestris 78 Arabidopsis thaliana 100 Cuscuta australis 100 Turritis glabra 100 Cynanchum wilfordii 98 Schrenkiella parvula 96 Asclepias syriaca 72 Brassica rapa Rhazya stricta 100 73 Raphanus sativus 99 Sinapis arvensis 99 Beta vulgaris 99 Eruca vesicaria Silene vulgaris 61 Arabis alpina 97 Nepenthes ventricosa Batis maritima Carica papaya Fallopia multiflora 66 Hemiptelea davidii 66 Platycodon grandiflorus 68 Ziziphus jujuba Codonopsis lanceolata 70 Cannabis sativa Cucumis sativus Morus notabilis 99Citrullus lanatus 99 Cucumis sativus 100 Cucurbita pepo Cucurbita pepo Citrullus lanatus Eriobotrya japonica 100 Prunus avium 74 Cannabis sativa Malus domestica Ziziphus jujuba Eriobotrya japonica 100 95 Epirixanthes elongata2 Morus notabilis 100 Epirixanthes elongata Hemiptelea davidii Styphnolobium japonicum 71 Epirixanthes elongata3 88 0.2 Cercis canadensis 90 Vigna radiata 74 Tamarindus indica Phaseolus vulgaris 100Leucaena trichandra 67 Millettia pinnata 75 Acacia ligulata 77 Haematoxylum brasiletto 98 Medicago truncatula 100 Libidibia coriaria Lotus japonicus 91 Senna tora Ammopiptanthus nanus Castanospermum australe 0.1 91 Styphnolobium japonicum 99Sophora flavescens 94 Millettia pinnata Castanospermum australe 93 95Phaseolus vulgaris Haematoxylum brasiletto 85 Vigna radiata Senna tora 99 Glycine soja Cercis canadensis 94 87Vicia faba 82 76 Medicago truncatula 96 Libidibia coriaria 86 Bupleurum falcatum Tamarindus indica 60 Lotus japonicus 84 Leucaena trichandra Sophora flavescens 84 Lophophytum mirabile 100 Ammopiptanthus nanus Acacia ligulata d nad1 nad2 nad3 Cycas taitungensis Cycas taitungensis Cycas taitungensis 62 Ginkgo biloba 99 Ginkgo biloba 65 Ginkgo biloba Pinus taeda Pinus taeda Pinus taeda Schisandra sphenanthera Amborella trichopoda Nymphaea colorata Amborella trichopoda 69 Nymphaea colorata Amborella trichopoda Liriodendron tulipifera Schisandra sphenanthera Schisandra sphenanthera Nymphaea colorata 68 Lolium perenne Lolium perenne 81 Stratiotes aloides 68 Sorghum bicolor 100 100 95 Zea perennis 100 71 Butomus umbellatus Tripsacum dactyloides 83 Zea perennis 100 Zostera marina Hordeum vulgare Tripsacum dactyloides Allium cepa Bambusa oldhamii 62 Eleusine indica 64Triticum timopheevii 65 Aegilops speltoides 62 Hordeum vulgare Aegilops speltoides Triticum timopheevii 89 Aegilops speltoides 97 Hordeum vulgare Eleusine indica Bambusa oldhamii Lolium perenne Sorghum bicolor 65 Oryza sativa Bambusa oldhamii Saccharum officinarum Phoenix dactylifera 97 Oryza sativa Cynodon dactylon Allium cepa Eleusine indica Oryza sativa Spirodela polyrhiza 65 Cynodon dactylon Gastrodia elata Gastrodia elata Saccharum officinarum Allium cepa Nelumbo nucifera 86 Zea perennis 82 Zostera marina 68 Liriodendron tulipifera Sorghum bicolor Butomus umbellatus Vitis vinifera 100 Tripsacum dactyloides 61 Stratiotes aloides Corchorus olitorius Gastrodia elata Spirodela polyrhiza 82 Gossypium trilobum Phoenix dactylifera 88 Phoenix dactylifera Hibiscus cannabinus Cocos nucifera Cocos nucifera Xanthoceras sorbifolium Spirodela polyrhiza Liriodendron tulipifera Arabidopsis thaliana Nelumbo nucifera Nelumbo nucifera 100 Turritis glabra Vitis vinifera 90Paraprenanthes diversifolia Arabis alpina 93 Salix suchowensis Lactuca serriola 62 Boechera stricta 62 Populus tremula Platycodon grandiflorus Capsella rubella 100 Manihot esculenta 62 Codonopsis lanceolata 88 Raphanus sativus Hevea brasiliensis 86 Helianthus annuus 81 85 Ricinus communis Chrysanthemum boreale Sinapis arvensis 67 Citrus sinensis Diplostephium hartwegii Schrenkiella parvula 67 85 Peganum harmala Daucus carota Eruca vesicaria Xanthoceras sorbifolium Camellia sinensis Brassica rapa Carica papaya Eucalyptus grandis Batis maritima 60 Batis maritima Fallopia multiflora Carica papaya 98 Schrenkiella parvula 62 61 Spinacia oleracea 99 Populus tremula Arabis alpina 7473Chenopodium quinoa 68 Salix suchowensis Capsella rubella 96 Beta vulgaris Manihot esculenta 100 Sinapis arvensis 88 Silene vulgaris 71 62 Ricinus communis 65 Raphanus sativus Sesuvium portulacastrum 98 Hevea brasiliensis 73 Brassica rapa Nepenthes ventricosa Lagerstroemia indica 65 Eruca vesicaria Boechera stricta Eucalyptus grandis Turritis glabra Raphanus sativus Geranium maderense Arabidopsis thaliana Sinapis arvensis 92 Sesuvium portulacastrum Boechera stricta Turritis glabra Beta vulgaris Corchorus olitorius 99 67Brassica rapa 80 Silene vulgaris 87 Bombax ceiba Eruca vesicaria Nepenthes ventricosa Hibiscus cannabinus 61 Capsella rubella Rhazya stricta 85 Gossypium trilobum Arabidopsis thaliana Erythranthe guttata Cynomorium coccineum Arabis alpina Ajuga reptans 73 Lagerstroemia indica Batis maritima Castilleja paramensis Eucalyptus grandis 99Salix suchowensis Ligustrum quihoui 98 Diplostephium hartwegii Populus tremula Hesperelaea palmeri 79 Paraprenanthes diversifolia Cynomorium coccineum Lactuca serriola Xanthoceras sorbifolium Chionanthus rupicola Chrysanthemum boreale Citrus sinensis Olea europaea 100 Codonopsis lanceolata Geranium maderense 87 Haberlea rhodopensis Platycodon grandiflorus 63 76 Vaccinium macrocarpon Dorcoceras hygrometricum 98 Daucus carota Monotropa hypopitys Daucus carota Camellia sinensis Hemiptelea davidii Capsicum annuum 84 Vaccinium macrocarpon Epirixanthes elongata 78 Solanum tuberosum Monotropa hypopitys Ricinus communis Nicotiana tabacum 84 Beta vulgaris Manihot esculenta Hyoscyamus niger 92 Spinacia oleracea Peganum harmala 67 Physochlaina orientalis 95 Chenopodium quinoa 89 Gossypium trilobum 90 Cuscuta australis 66 Sesuvium portulacastrum Hibiscus cannabinus 96 Cuscuta campestris 100 Fallopia multiflora 86 Bombax ceiba 99 Cuscuta gronovii Nepenthes ventricosa 68 Bombax ceiba2 Ipomoea nil Ilex pubescens Corchorus olitorius 85 Lactuca serriola Salvia miltiorrhiza Carica papaya 99 Paraprenanthes diversifolia 86 Haberlea rhodopensis Lagerstroemia indica Diplostephium hartwegii Dorcoceras hygrometricum Hevea brasiliensis Ilex pubescens Castilleja paramensis Morus notabilis Camellia sinensis 76 87 Erythranthe guttata 77Prunus avium Fallopia multiflora Utricularia reniformis 60 91Malus domestica 65 Citrus sinensis 85 Ajuga reptans Eriobotrya japonica Ziziphus jujuba 73Chionanthus rupicola 66Citrullus lanatus 70 Cucumis sativus Triticum timopheevii 74 Olea europaea Cucurbita pepo 100 Zostera marina 76 Hesperelaea palmeri Ziziphus jujuba 74 Stratiotes aloides Ligustrum quihoui Ipomoea nil 90 Butomus umbellatus 96 Capsicum annuum Cynanchum wilfordii Nicotiana tabacum 94 Asclepias syriaca Physochlaina orientalis Cynanchum wilfordii 94 Utricularia reniformis Rhazya stricta Peganum harmala 84 Hyoscyamus niger Hesperelaea palmeri 100 Vaccinium macrocarpon Solanum tuberosum 64Cuscuta campestris 98 Olea europaea Monotropa hypopitys 100 Chionanthus rupicola Salvia miltiorrhiza Cuscuta australis Ligustrum quihoui 99Cynomorium coccineum Cuscuta gronovii 95 Ipomoea nil Utricularia reniformis 98 Cynomorium coccineum3 100 Asclepias syriaca Castilleja paramensis 98 Cynomorium coccineum4 99 Cynanchum wilfordii 71 Erythranthe guttata Cynomorium coccineum2 Rhazya stricta Ajuga reptans Chrysanthemum boreale Geranium maderense 94 Haberlea rhodopensis 79 Cynodon dactylon 98 Eriobotrya japonica Dorcoceras hygrometricum Cocos nucifera 94 Malus domestica Salvia miltiorrhiza Lophophytum mirabile Prunus avium Hyoscyamus niger 94 Eriobotrya japonica Hemiptelea davidii 86 Capsicum annuum 79 Malus domestica 70 Morus notabilis 61 Solanum tuberosum 99 Prunus avium Cannabis sativa Physochlaina orientalis 69 100 Platycodon grandiflorus Ziziphus jujuba Nicotiana tabacum Codonopsis lanceolata 98 Citrullus lanatus 75 Cuscuta australis Cannabis sativa Cucurbita pepo 98 Cuscuta campestris Hemiptelea davidii 85 Cucumis sativus Cuscuta gronovii 81 93 Epirixanthes elongata Ilex pubescens 81 Cucumis sativus Vitis vinifera Cucurbita pepo Lophophytum mirabile Styphnolobium japonicum Citrullus lanatus Libidibia coriaria Cercis canadensis Epirixanthes elongata Cercis canadensis 73 Tamarindus indica Cercis canadensis Tamarindus indica Castanospermum australe Tamarindus indica Senna tora 84Sophora flavescens Senna tora Ammopiptanthus nanus Ammopiptanthus nanus Libidibia coriaria 68 93 Medicago truncatula 0.05 Millettia pinnata 0.05 Acacia ligulata 0.05 76 Vicia faba Lotus japonicus Styphnolobium japonicum Lotus japonicus Bupleurum falcatum Vicia faba Bupleurum falcatum 64Vigna radiata Medicago truncatula 90 Phaseolus vulgaris Medicago truncatula Lotus japonicus 66 Vigna radiata Phaseolus vulgaris Bupleurum falcatum Millettia pinnata Glycine soja Castanospermum australe 69 Castanospermum australe Vicia faba 62 Sophora flavescens Styphnolobium japonicum Senna tora Ammopiptanthus nanus Haematoxylum brasiletto Libidibia coriaria Haematoxylum brasiletto Acacia ligulata Haematoxylum brasiletto Millettia pinnata Leucaena trichandra 76 Lophophytum mirabile Vigna radiata Cynomorium coccineum2 Leucaena trichandra Phaseolus vulgaris Glycine soja 85 Acacia ligulata
nad4 nad4L Cycas taitungensis Cycas taitungensis 88 Ginkgo biloba 84 Pinus taeda Pinus taeda Ginkgo biloba Amborella trichopoda Amborella trichopoda 100 Schisandra sphenanthera Nymphaea colorata Liriodendron tulipifera 100 Schisandra sphenanthera 78 Gastrodia elata Liriodendron tulipifera 74 Nymphaea colorata Zostera marina 79 Allium cepa 96 Stratiotes aloides 100Cocos nucifera 81 Butomus umbellatus Phoenix dactylifera Spirodela polyrhiza 93 Spirodela polyrhiza Zea perennis 72 Stratiotes aloides Sorghum bicolor 100 Zostera marina 80 61Oryza sativa 71 Butomus umbellatus Tripsacum dactyloides Nelumbo nucifera 96 Eleusine indica Vitis vinifera Aegilops speltoides Cynomorium coccineum Bambusa oldhamii Lophophytum mirabile Triticum timopheevii Utricularia reniformis Hordeum vulgare 6864 Salvia miltiorrhiza 90 Lolium perenne 98 61 Ajuga reptans Gastrodia elata 71 Castilleja paramensis Allium cepa 94 Erythranthe guttata 100Phoenix dactylifera 100 93 Haberlea rhodopensis 100 Cocos nucifera Dorcoceras hygrometricum Camellia sinensis 97 61 Olea europaea Monotropa hypopitys 98 Hesperelaea palmeri Ipomoea nil Ligustrum quihoui 85 Cuscuta gronovii 70 Chionanthus rupicola 88 100Cynanchum wilfordii Cuscuta campestris 77 Asclepias syriaca Cuscuta australis Rhazya stricta Nicotiana tabacum Nicotiana tabacum Physochlaina orientalis 100 Capsicum annuum Solanum tuberosum Hyoscyamus niger 60 Hyoscyamus niger Physochlaina orientalis Capsicum annuum 99 Solanum tuberosum 98 Asclepias syriaca 69 Cuscuta campestris 86 Cynanchum wilfordii 100Cuscuta australis Rhazya stricta 100 Cuscuta gronovii Lactuca serriola non-angiosperms Ipomoea nil Utricularia reniformis Ilex pubescens Erythranthe guttata Daucus carota 62 Salvia miltiorrhiza 99Citrullus lanatus Castilleja paramensis Cucumis sativus Ajuga reptans basal + magnoliids 63 Cucurbita pepo 72 Platycodon grandiflorus 60 Diplostephium hartwegii Codonopsis lanceolata Lactuca serriola 87Haberlea rhodopensis 79 Paraprenanthes diversifolia Dorcoceras hygrometricum 90 Chrysanthemum boreale Daucus carota monocots 100 Platycodon grandiflorus Nepenthes ventricosa Codonopsis lanceolata 91 Spinacia oleracea Camellia sinensis Chenopodium quinoa 94 Monotropa hypopitys Beta vulgaris 88 Vaccinium macrocarpon 64 Sesuvium portulacastrum basal eudicots Geranium maderense Fallopia multiflora Epirixanthes elongata Silene vulgaris Bambusa oldhamii Ilex pubescens 95Aegilops speltoides Paraprenanthes diversifolia rosids 83 Triticum timopheevii Diplostephium hartwegii Hordeum vulgare Chrysanthemum boreale Lolium perenne 65 Helianthus annuus 99 Eleusine indica 66 Ligustrum quihoui 100 Cynodon dactylon Olea europaea rosids / fabids Zea perennis 69 Hesperelaea palmeri 74 Tripsacum dactyloides Chionanthus rupicola 96 Sorghum bicolor Epirixanthes elongata 70 Saccharum officinarum Ziziphus jujuba Oryza sativa rosids / malvids Silene vulgaris Eucalyptus grandis 99 Spinacia oleracea Lagerstroemia indica Chenopodium quinoa Nelumbo nucifera 72 Beta vulgaris Vitis vinifera asterids Sesuvium portulacastrum Manihot esculenta 94 Nepenthes ventricosa Ricinus communis Fallopia multiflora Hevea brasiliensis Eucalyptus grandis 100Salix suchowensis Lagerstroemia indica Populus tremula asterids / campanulids 99 Prunus avium 89 Prunus avium 100Malus domestica 80 Malus domestica Eriobotrya japonica 71 Eriobotrya japonica 66 Ziziphus jujuba Cannabis sativa Morus notabilis Morus notabilis asterids / lamiids Cannabis sativa Hemiptelea davidii 70 Hemiptelea davidii Geranium maderense 80 100Hevea brasiliensis Xanthoceras sorbifolium 96 Manihot esculenta Citrus sinensis 99 Ricinus communis Spondias tuberosa Populus tremula Peganum harmala Salix suchowensis Batis maritima 94 Eruca vesicaria Carica papaya Brassica rapa Citrullus lanatus Schrenkiella parvula Cucumis sativus Sinapis arvensis 82 Corchorus olitorius Boechera stricta Bombax ceiba 95 Capsella rubella 69 Gossypium trilobum 100 Arabidopsis thaliana 88 Hibiscus cannabinus Turritis glabra Cucurbita pepo 99 Raphanus sativus Castanospermum australe 94 Arabis alpina Phaseolus vulgaris Batis maritima Vigna radiata 90 Carica papaya Bupleurum falcatum Corchorus olitorius 61Styphnolobium japonicum Bombax ceiba Medicago truncatula 97 Gossypium trilobum 61 Lotus japonicus Hibiscus cannabinus Ammopiptanthus nanus Xanthoceras sorbifolium Vicia faba Peganum harmala Millettia pinnata Citrus sinensis 61 Haematoxylum brasiletto 0.05 61 Cercis canadensis 61 Libidibia coriaria Tamarindus indica Senna tora Haematoxylum brasiletto Cercis canadensis Libidibia coriaria Tamarindus indica Senna tora Turritis glabra 63 Leucaena trichandra 60Boechera stricta Acacia ligulata 73 Capsella rubella Castanospermum australe Arabidopsis thaliana Styphnolobium japonicum 0.05 77 91 Bupleurum falcatum Arabis alpina Glycine soja Raphanus sativus 97 Millettia pinnata Sinapis arvensis Vigna radiata Brassica rapa 67 Phaseolus vulgaris Eruca vesicaria Lotus japonicus Schrenkiella parvula 90 Medicago truncatula Lophophytum mirabile Vicia faba 85 Leucaena trichandra 84 Ammopiptanthus nanus Cynomorium coccineum Sophora flavescens Acacia ligulata e nad5 nad6 Cycas taitungensis Ginkgo biloba Cycas taitungensis 99 Pinus taeda Pinus taeda Ginkgo biloba 85 Nymphaea colorata Nymphaea colorata 63 Amborella trichopoda Liriodendron tulipifera2 Schisandra sphenanthera 100 Liriodendron tulipifera 100 Liriodendron tulipifera Schisandra sphenanthera 100 Butomus umbellatus Amborella trichopoda 100 Stratiotes aloides Spirodela polyrhiza Zostera marina 99 Cocos nucifera 100 Oryza sativa Phoenix dactylifera Bambusa oldhamii 97 Zea perennis 99 Triticum timopheevii Tripsacum dactyloides Hordeum vulgare 66 Cynodon dactylon Aegilops speltoides Eleusine indica 100 Lolium perenne Lolium perenne 99 Saccharum officinarum2 100Saccharum officinarum 78 Saccharum officinarum 65 Sorghum bicolor 78 Tripsacum dactyloides Hordeum vulgare 68 Zea perennis 86 100Triticum timopheevii Sorghum bicolor Aegilops speltoides 100 78 Eleusine indica 92 Oryza sativa 100 Cynodon dactylon Bambusa oldhamii Cocos nucifera 96 Zostera marina 100 Phoenix dactylifera 99 Butomus umbellatus Gastrodia elata Stratiotes aloides Allium cepa Gastrodia elata 72 Spirodela polyrhiza Allium cepa Nelumbo nucifera Nelumbo nucifera Vitis vinifera Vitis vinifera 80 Ziziphus jujuba Lagerstroemia indica 91 Hemiptelea davidii 67 Tamarindus indica 96 Hevea brasiliensis 93 Cannabis sativa Manihot esculenta 76 Prunus avium Ricinus communis 100 Eriobotrya japonica Carica papaya 100 Malus domestica 100Bombax ceiba Cynomorium coccineum Hibiscus cannabinus Lactuca serriola Gossypium trilobum 96 90Paraprenanthes diversifolia Sophora flavescens Diplostephium hartwegii Styphnolobium japonicum 72 Chrysanthemum boreale Ammopiptanthus nanus Helianthus annuus Bupleurum falcatum Carica papaya 80 Vicia faba 77Arabidopsis thaliana Medicago truncatula 62 Turritis glabra 94 64 96 Phaseolus vulgaris 86 Capsella rubella Vigna radiata 100 Boechera stricta Castanospermum australe Arabis alpina 80 Millettia pinnata 63 Schrenkiella parvula 73 Glycine soja 68 91 Raphanus sativus Lotus japonicus Brassica rapa Cercis canadensis Eruca vesicaria 63 Sesuvium portulacastrum Sinapis arvensis 9175Chenopodium quinoa Batis maritima 94 Spinacia oleracea Xanthoceras sorbifolium 61 Beta vulgaris 91 Cucurbita pepo Silene vulgaris 97 Cucumis sativus Nepenthes ventricosa Citrullus lanatus Cynomorium coccineum Epirixanthes elongata Citrus sinensis Peganum harmala Epirixanthes elongata Daucus carota Corchorus olitorius Camellia sinensis Morus notabilis Codonopsis lanceolata Hemiptelea davidii Geranium maderense Ziziphus jujuba 90 Monotropa hypopitys 79 Prunus avium Vaccinium macrocarpon Malus domestica Citrus sinensis 100 Eriobotrya japonica 100 Cynanchum wilfordii Cannabis sativa Asclepias syriaca Arabis alpina Utricularia reniformis 64 Brassica rapa 99 Raphanus sativus 97Ipomoea nil Sinapis arvensis 99 Cuscuta australis Eruca vesicaria 100 Cuscuta campestris Schrenkiella parvula Cuscuta gronovii Capsella rubella Ilex pubescens Turritis glabra Rhazya stricta Arabidopsis thaliana 95 Salvia miltiorrhiza Boechera stricta 88 Ajuga reptans Xanthoceras sorbifolium Dorcoceras hygrometricum Spondias tuberosa 86 Haberlea rhodopensis Peganum harmala 71 Castilleja paramensis 100 Salix suchowensis 78 Erythranthe guttata Populus tremula 66 Ligustrum quihoui Eucalyptus grandis Hesperelaea palmeri Ilex pubescens 81 Olea europaea Fallopia multiflora Chionanthus rupicola Camellia sinensis 79 Capsicum annuum 96 Monotropa hypopitys 67 Physochlaina orientalis Vaccinium macrocarpon 100 Hyoscyamus niger 64 Castilleja paramensis Solanum tuberosum 90 Utricularia reniformis Nicotiana tabacum Erythranthe guttata Sesuvium portulacastrum 79 Salvia miltiorrhiza Chenopodium quinoa 96 Ajuga reptans Beta vulgaris 87Dorcoceras hygrometricum Fallopia multiflora 73 Haberlea rhodopensis 99 Spinacia oleracea Ligustrum quihoui Silene vulgaris Olea europaea 78 Chionanthus rupicola Nepenthes ventricosa Hesperelaea palmeri2 100 Lagerstroemia indica 72 Hesperelaea palmeri Eucalyptus grandis 68 67 Diplostephium hartwegii 100 Ricinus communis 94 Chrysanthemum boreale 96 Hevea brasiliensis Helianthus annuus 100 Manihot esculenta Paraprenanthes diversifolia 100Salix suchowensis Lactuca serriola Populus tremula 100 Codonopsis lanceolata 62Hibiscus cannabinus Platycodon grandiflorus 99 Corchorus olitorius Daucus carota Gossypium trilobum 0.05 Hyoscyamus niger Cercis canadensis 99 Capsicum annuum 100 Tamarindus indica2 97 99 Solanum tuberosum Tamarindus indica Nicotiana tabacum Lophophytum mirabile 90 Physochlaina orientalis 0.1 Castanospermum australe Ipomoea nil 62 Lotus japonicus Cuscuta australis 97 Vicia faba 95 Cuscuta campestris 72 Medicago truncatula 79 Cuscuta gronovii 60 Bupleurum falcatum Cynanchum wilfordii 81 67Glycine soja Asclepias syriaca 94 97 Phaseolus vulgaris Geranium maderense 76 Vigna radiata Rhazya stricta 67 Millettia pinnata Cucurbita pepo Ammopiptanthus nanus 90 Citrullus lanatus 88 Sophora flavescens Cucumis sativus 100 Styphnolobium japonicum Batis maritima 65 Leucaena trichandra Senna tora 65 Acacia ligulata 85 Haematoxylum brasiletto Haematoxylum brasiletto 65 Libidibia coriaria Libidibia coriaria 98 Lophophytum mirabile Senna tora Leucaena trichandra 91 Acacia ligulata
nad7 nad9 Cycas taitungensis Cycas taitungensis 99 Ginkgo biloba 83 Ginkgo biloba Pinus taeda Pinus taeda 67 Nymphaea colorata Schisandra sphenanthera Amborella trichopoda Nymphaea colorata Schisandra sphenanthera Amborella trichopoda 100 Nelumbo nucifera 100 Liriodendron tulipifera Liriodendron tulipifera Stratiotes aloides Spirodela polyrhiza 96 Butomus umbellatus Oryza sativa Zostera marina Bambusa oldhamii Bambusa oldhamii 71Triticum timopheevii Oryza sativa 66 Aegilops speltoides 63 Hordeum vulgare 61 Hordeum vulgare 97 Lolium perenne 92 Lolium perenne 60 73Sorghum bicolor Saccharum officinarum 90 Zea perennis Zea perennis Tripsacum dactyloides Sorghum bicolor 93 100 Tripsacum dactyloides 71Saccharum officinarum Cynodon dactylon 64 63 Eleusine indica 97 Cocos nucifera Eleusine indica 96 100 Phoenix dactylifera Allium cepa Gastrodia elata Phoenix dactylifera 64 Allium cepa 68 Cocos nucifera Spirodela polyrhiza Gastrodia elata Nelumbo nucifera 100 Zostera marina Vitis vinifera 100 Butomus umbellatus 72 Cynomorium coccineum Stratiotes aloides Helianthus annuus Vitis vinifera 96 92 Diplostephium hartwegii Bombax ceiba Chrysanthemum boreale Gossypium trilobum 63 Paraprenanthes diversifolia Lophophytum mirabile Lactuca serriola 98 Lagerstroemia indica Codonopsis lanceolata Eucalyptus grandis Daucus carota Xanthoceras sorbifolium Utricularia reniformis 60 Hibiscus cannabinus Ilex pubescens Corchorus olitorius Erythranthe guttata Vaccinium macrocarpon Salvia miltiorrhiza 67Eruca vesicaria Castilleja paramensis Brassica rapa Ajuga reptans 100 Schrenkiella parvula 83 Haberlea rhodopensis 66 Arabidopsis thaliana Dorcoceras hygrometricum Capsella rubella Hesperelaea palmeri non-angiosperms Arabis alpina 63 Chionanthus rupicola 94 Sinapis arvensis Olea europaea Turritis glabra 70 Ligustrum quihoui 74 Boechera stricta Platycodon grandiflorus basal + magnoliids Raphanus sativus 64 Vaccinium macrocarpon Batis maritima Monotropa hypopitys Carica papaya Lagerstroemia indica Monotropa hypopitys 66 Eriobotrya japonica Utricularia reniformis 96 monocots 71 Chionanthus rupicola Malus domestica 68 Olea europaea 65 Prunus avium 67 Cannabis sativa Ligustrum quihoui Morus notabilis Hesperelaea palmeri Hemiptelea davidii 85 100 Dorcoceras hygrometricum Ziziphus jujuba basal eudicots 65 Haberlea rhodopensis 99 Asclepias syriaca Erythranthe guttata 76 Cynanchum wilfordii 62 Salvia miltiorrhiza Rhazya stricta Ajuga reptans 84Cuscuta australis Castilleja paramensis Cuscuta campestris rosids 72Cuscuta australis 95 99 Cuscuta gronovii 95 Cuscuta campestris 60 Ipomoea nil Cuscuta gronovii Solanum tuberosum 85 Ipomoea nil Nicotiana tabacum rosids / fabids 70 Nicotiana tabacum Capsicum annuum 100 Hyoscyamus niger 65 Hyoscyamus niger 65 Solanum tuberosum 88 Physochlaina orientalis 63 Capsicum annuum Geranium maderense Physochlaina orientalis Epirixanthes elongata rosids / malvids 100 Rhazya stricta Lophophytum mirabile 100Cynanchum wilfordii 65Hibiscus cannabinus Asclepias syriaca 76 Gossypium trilobum Ilex pubescens 93 Bombax ceiba Daucus carota Corchorus olitorius asterids 94 Paraprenanthes diversifolia 100 Salix suchowensis 68 Chrysanthemum boreale 77 Populus tremula 70 Lactuca serriola Ricinus communis 61 Diplostephium hartwegii Manihot esculenta asterids / campanulids 100 Codonopsis lanceolata 90 Hevea brasiliensis Platycodon grandiflorus 87 Cucumis sativus 78Malus domestica 90 Cucurbita pepo 99 Eriobotrya japonica Citrullus lanatus Prunus avium Carica papaya asterids / lamiids Cynomorium coccineum Xanthoceras sorbifolium 62 Sesuvium portulacastrum Batis maritima 98 Silene vulgaris Spondias tuberosa 89 Beta vulgaris Peganum harmala 92 Chenopodium quinoa Citrus sinensis Spinacia oleracea Arabis alpina Nepenthes ventricosa Brassica rapa 0.05 Fallopia multiflora Eruca vesicaria 100 Citrus sinensis 71 Raphanus sativus 61 Peganum harmala Schrenkiella parvula Morus notabilis Sinapis arvensis Ziziphus jujuba Capsella rubella Epirixanthes elongata Boechera stricta 60 Citrullus lanatus 60Turritis glabra 95 Cucumis sativus Arabidopsis thaliana Cucurbita pepo Bupleurum falcatum 100 Populus tremula 100 Cynomorium coccineum2 73 Salix suchowensis 100 Medicago truncatula Ricinus communis Vicia faba 68 Hevea brasiliensis Glycine soja 90 Manihot esculenta Millettia pinnata Cannabis sativa Vigna radiata 75 Geranium maderense 61 Phaseolus vulgaris Hemiptelea davidii Lotus japonicus Cercis canadensis 100 Sophora flavescens2 Tamarindus indica Sophora flavescens 64 Leucaena trichandra Ammopiptanthus nanus Acacia ligulata Cercis canadensis Libidibia coriaria Sesuvium portulacastrum Senna tora 0.02 100 92Chenopodium quinoa Haematoxylum brasiletto Spinacia oleracea Styphnolobium japonicum 95 95 Silene vulgaris 82 Castanospermum australe 85 Beta vulgaris Ammopiptanthus nanus 96 Fallopia multiflora Sophora flavescens Nepenthes ventricosa 81 Bupleurum falcatum Castanospermum australe 72 Vicia faba Medicago truncatula Styphnolobium japonicum 66 87 Phaseolus vulgaris Tamarindus indica 95 96Libidibia coriaria Vigna radiata 76 Haematoxylum brasiletto 64 Glycine soja Senna tora Millettia pinnata Leucaena trichandra Lotus japonicus 89 Acacia ligulata f rrn5 rrn18 rrn26 Cycas taitungensis Cycas taitungensis Cycas taitungensis Ginkgo biloba 66 Ginkgo biloba Ginkgo biloba Manihot esculenta Pinus taeda Pinus taeda Hevea brasiliensis 88 Amborella trichopoda Nymphaea colorata Ricinus communis Nymphaea colorata Amborella trichopoda 66 Populus tremula Liriodendron tulipifera Schisandra sphenanthera Salix suchowensis 100 Stratiotes aloides 100 Spirodela polyrhiza Corchorus olitorius 100 Butomus umbellatus Bambusa oldhamii Bombax ceiba Zostera marina Lolium perenne2 Gossypium trilobum Oryza sativa 100 Lolium100 perenne 74 Hibiscus cannabinus Cynodon dactylon 78 64 Aegilops speltoides Cynomorium coccineum2 Sorghum bicolor Triticum timopheevii Cuscuta australis Tripsacum dactyloides 100 96 Hordeum vulgare 76 Cuscuta campestris 66 Oryza sativa Physochlaina orientalis 75 90 Zea perennis 95 Eleusine indica Saccharum officinarum2 74 86 Cynodon dactylon Hyoscyamus niger 70 Saccharum officinarum 77 Solanum tuberosum Eleusine indica 89 Saccharum officinarum Cucurbita pepo 92 Hordeum vulgare 89 Sorghum bicolor Capsicum annuum Aegilops speltoides 98 83 Saccharum officinarum2 Ipomoea nil 100 74 99 Tripsacum dactyloides Nicotiana tabacum 100Triticum timopheevii 96 Zea perennis 70 Zostera marina Bambusa oldhamii2 91 Phoenix dactylifera 97 Stratiotes aloides 72Lolium perenne2 99 Cocos nucifera 67 Butomus umbellatus 61 Lolium perenne Allium cepa Cucumis sativus Bambusa oldhamii 100 Zostera marina 100 Pinus taeda 84 Cocos nucifera 100 Butomus umbellatus Pinus taeda2 Phoenix dactylifera Stratiotes aloides Capsella rubella 76 Allium cepa Liriodendron tulipifera Arabidopsis thaliana Gastrodia elata 98100Nelumbo nucifera Morus notabilis Spirodela polyrhiza Nelumbo nucifera2 Cynomorium coccineum3 Schisandra sphenanthera 100Daucus carota2 Vigna radiata 100Nelumbo nucifera Daucus carota Phoenix dactylifera Nelumbo nucifera2 Silene vulgaris Cocos nucifera 100Haberlea rhodopensis 96 100 Nepenthes ventricosa Allium cepa 84 Dorcoceras hygrometricum Fallopia multiflora 90 Platycodon grandiflorus2 77 Ligustrum quihoui 68 92 Spinacia oleracea Platycodon grandiflorus Hesperelaea palmeri 90 Chenopodium quinoa Codonopsis lanceolata Chionanthus rupicola Beta vulgaris2 Spirodela polyrhiza Olea europaea 99 84 Beta vulgaris Sorghum bicolor 76 100 Sesuvium portulacastrum Saccharum officinarum Utricularia reniformis Lophophytum mirabile Eleusine indica Erythranthe guttata Camellia sinensis Oryza sativa Salvia miltiorrhiza Monotropa hypopitys Hordeum vulgare Ajuga reptans Chionanthus rupicola Triticum timopheevii 80 Castilleja paramensis Olea europaea Aegilops speltoides 62 Ipomoea nil Ligustrum quihoui Lolium perenne 100 Cuscuta gronovii 91 Hesperelaea palmeri Geranium maderense 100 Cuscuta campestris Dorcoceras hygrometricum Glycine soja 78 Cuscuta australis 82 Salvia miltiorrhiza Phaseolus vulgaris 85 Solanum tuberosum2 Ajuga reptans Bambusa oldhamii 77 Solanum tuberosum 81 Erythranthe guttata Cynodon dactylon 70 Capsicum annuum Castilleja paramensis Gastrodia elata 96 Hyoscyamus niger Utricularia reniformis 75Eriobotrya japonica 76 Physochlaina orientalis 100Rhazya stricta Malus domestica Nicotiana tabacum Asclepias syriaca 100 Zea perennis 100 Rhazya stricta 100 Cynanchum wilfordii Tripsacum dactyloides 100 Cynanchum wilfordii 100Physochlaina orientalis Batis maritima Asclepias syriaca 96 Hyoscyamus niger Vicia faba Daucus carota Nicotiana tabacum Haematoxylum brasiletto 66 Paraprenanthes diversifolia Solanum tuberosum Ammopiptanthus nanus Lactuca serriola 93 Capsicum annuum Lotus japonicus 67 Helianthus annuus 93 91Cuscuta campestris Sophora flavescens 62 100 Cuscuta australis Bupleurum falcatum 81 Diplostephium hartwegii Cuscuta gronovii Castanospermum australe Chrysanthemum boreale Ipomoea nil Millettia pinnata 100 Codonopsis lanceolata Cynomorium coccineum Styphnolobium japonicum Platycodon grandiflorus Eucalyptus grandis Medicago truncatula Ilex pubescens 72Lactuca serriola Dorcoceras hygrometricum Sesuvium portulacastrum 76 Helianthus annuus Haberlea rhodopensis Chenopodium quinoa 86 Chrysanthemum boreale Utricularia reniformis Spinacia oleracea Diplostephium hartwegii Silene vulgaris 91 Silene vulgaris 87 Paraprenanthes diversifolia Salvia miltiorrhiza Beta vulgaris 100 Codonopsis lanceolata Castilleja paramensis 63 Nepenthes ventricosa Platycodon grandiflorus Schisandra sphenanthera Fallopia multiflora Ajuga reptans 100 Ilex pubescens Bombax ceiba 95 Eriobotrya87 japonica Erythranthe guttata Gossypium trilobum 100 Malus domestica Liriodendron tulipifera 96 Hibiscus cannabinus Malus domestica2 Raphanus sativus Lagerstroemia indica Prunus avium 58Sinapis arvensis 81 90 Cucurbita pepo Ziziphus jujuba Brassica rapa 99 Cucumis sativus Vitis vinifera Eruca vesicaria Citrullus lanatus Lagerstroemia indica Tamarindus indica Sinapis arvensis 96 Nelumbo nucifera 66 99 Cucumis sativus Rhazya stricta 100 Brassica rapa Citrullus lanatus Arabis alpina 100 Raphanus sativus 78 Cucurbita pepo Boechera stricta Eruca vesicaria 94 Corchorus olitorius Nepenthes ventricosa 100 81 Arabis alpina Bombax ceiba Ligustrum quihoui 99 Capsella rubella Gossypium trilobum Hesperelaea palmeri 100 Arabidopsis thaliana 92Hibiscus cannabinus Fallopia multiflora Turritis glabra Batis maritima Eucalyptus grandis 60 Boechera stricta 69Boechera stricta 97 65Turritis glabra Spinacia oleracea 100 Batis maritima 64 Arabidopsis thaliana Turritis glabra Carica papaya Arabis alpina Vitis vinifera Citrus sinensis Monotropa hypopitys 100 Eruca vesicaria Ilex pubescens 100 Brassica rapa Schrenkiella parvula 100Manihot esculenta 96 100 Schrenkiella parvula Nelumbo nucifera2 96 Hevea brasiliensis 64 74 Raphanus sativus Carica papaya 70 Ricinus communis Sinapis arvensis Citrullus lanatus 100 Salix suchowensis Capsella rubella Chionanthus rupicola Populus tremula 100Citrus sinensis Olea europaea Vitis vinifera Carica papaya Sesuvium portulacastrum Cynomorium coccineum 95 Lagerstroemia indica 96 Spondias tuberosa Beta vulgaris Geranium maderense Xanthoceras sorbifolium Chenopodium quinoa Lophophytum mirabile Peganum harmala Ziziphus jujuba Spondias tuberosa Ricinus communis Sesuvium portulacastrum2 Peganum harmala 100Manihot esculenta Daucus carota Xanthoceras sorbifolium Hevea brasiliensis Xanthoceras sorbifolium 95 Prunus avium Geranium maderense Peganum harmala 93 Malus domestica 100 Salix suchowensis Citrus sinensis Eriobotrya japonica Populus tremula Cynomorium coccineum Morus notabilis Morus notabilis Spondias tuberosa 93 100 Eucalyptus grandis Hemiptelea davidii 100 Epirixanthes elongata 100 Vaccinium macrocarpon Cannabis sativa Epirixanthes elongata2 Cannabis sativa Castanospermum australe 0.05 Nymphaea colorata Hemiptelea davidii 98 Bupleurum falcatum Hemiptelea davidii Haematoxylum brasiletto Vicia faba Asclepias syriaca Libidibia coriaria Medicago truncatula Cannabis sativa Castanospermum australe Lotus japonicus Cynanchum wilfordii Phaseolus vulgaris Glycine soja Helianthus annuus 60 Vigna radiata 100 Vaccinium macrocarpon Lophophytum mirabile 100 Millettia pinnata Ammopiptanthus nanus Chrysanthemum boreale Epirixanthes elongata 99Sophora flavescens Lactuca serriola 0.05 100 Sophora flavescens Vigna radiata Paraprenanthes diversifolia Ammopiptanthus nanus Phaseolus vulgaris Prunus avium Millettia pinnata Cercis canadensis 71 Vicia faba Styphnolobium japonicum Amborella trichopoda Medicago truncatula Tamarindus indica 85Vaccinium macrocarpon 67 Lotus japonicus Epirixanthes elongata Monotropa hypopitys Bupleurum falcatum 0.1 Cercis canadensis Diplostephium hartwegii Styphnolobium japonicum 87 Senna tora Eucalyptus grandis2 Tamarindus indica 94 Libidibia coriaria Libidibia coriaria Cercis canadensis 97 Haematoxylum brasiletto 75 Senna tora 95 Senna tora 100 Acacia ligulata Leucaena trichandra Leucaena trichandra Leucaena trichandra Acacia ligulata 99 Acacia ligulata 99Leucaena trichandra2
rpl5 rpl16 Cycas taitungensis Cycas taitungensis Ginkgo biloba 87 Ginkgo biloba Pinus taeda Pinus taeda Amborella trichopoda Amborella trichopoda 63 Schisandra sphenanthera Nymphaea colorata 100 Nymphaea colorata Bambusa oldhamii Liriodendron tulipifera Eleusine indica 92 Lolium perenne 100 Oryza sativa Hordeum vulgare 100 Triticum timopheevii Cynodon dactylon 96 Aegilops speltoides 100 73 Hordeum vulgare 70 92 Bambusa oldhamii 79 Aegilops speltoides Oryza sativa 65Triticum timopheevii 91 100 Phoenix dactylifera 86 Lolium perenne 100 Cocos nucifera Saccharum officinarum Gastrodia elata 66 Tripsacum dactyloides Spirodela polyrhiza 72 Zea perennis Nelumbo nucifera 86 Sorghum bicolor Vitis vinifera 73 Utricularia reniformis Gastrodia elata Salvia miltiorrhiza 97 Cocos nucifera 67 68 Erythranthe guttata Phoenix dactylifera 91 Castilleja paramensis Spirodela polyrhiza Haberlea rhodopensis Nelumbo nucifera 84 Chionanthus rupicola Schisandra sphenanthera 66Hesperelaea palmeri Liriodendron tulipifera 100 Olea europaea Ligustrum quihoui Vitis vinifera 85 Helianthus annuus Ziziphus jujuba 100 100 Lactuca serriola Hyoscyamus niger Paraprenanthes diversifolia Physochlaina orientalis 78 Chrysanthemum boreale Nicotiana tabacum 68 Diplostephium hartwegii 73 Capsicum annuum Physochlaina orientalis 65 Solanum tuberosum 68 Hyoscyamus niger 64Cuscuta campestris 100 Solanum tuberosum 74 Cuscuta australis Capsicum annuum 62 non-angiosperms 89 Nicotiana tabacum Cuscuta gronovii Cuscuta gronovii Ipomoea nil 100 Erythranthe guttata 88 Cuscuta australis 63 70 Ipomoea nil 88 Haberlea rhodopensis basal + magnoliids Cuscuta campestris Salvia miltiorrhiza 94 Rhazya stricta 91 Castilleja paramensis 96 Cynanchum wilfordii 82 Olea europaea Asclepias syriaca Chionanthus rupicola monocots Camellia sinensis 87 Monotropa hypopitys Hesperelaea palmeri Ilex pubescens Ligustrum quihoui Daucus carota 95 Rhazya stricta basal eudicots Cynomorium coccineum Cynanchum wilfordii Nepenthes ventricosa Cynomorium coccineum 94 Spinacia oleracea 82 Cannabis sativa 91 99 Beta vulgaris Hemiptelea davidii rosids 100 Chenopodium quinoa 66 Sesuvium portulacastrum Salix suchowensis Fallopia multiflora Xanthoceras sorbifolium 63 Gossypium trilobum Citrus sinensis rosids / fabids 100 Hibiscus cannabinus Peganum harmala 87 Bombax ceiba Spondias tuberosa Corchorus olitorius 67 Manihot esculenta 66 60 Capsella rubella 97 Hevea brasiliensis rosids / malvids Turritis glabra 83 Ricinus communis Arabidopsis thaliana Capsella rubella Boechera stricta Boechera stricta Eruca vesicaria 61 Sinapis arvensis Turritis glabra asterids 94 Raphanus sativus 95 Arabidopsis thaliana Brassica rapa Raphanus sativus 66 Schrenkiella parvula Arabis alpina asterids / campanulids Arabis alpina 78 Brassica rapa Batis maritima Sinapis arvensis Carica papaya Eruca vesicaria Tamarindus indica Cercis canadensis Batis maritima asterids / lamiids Styphnolobium japonicum 63 Bombax ceiba Glycine soja Corchorus olitorius Millettia pinnata 98 Hibiscus cannabinus Phaseolus vulgaris Gossypium trilobum Epirixanthes elongata Fallopia multiflora Vigna radiata 65 Cucurbita pepo 96 Sophora flavescens 88 Ammopiptanthus nanus Cucumis sativus 99 Medicago truncatula Citrullus lanatus Vicia faba Carica papaya Bupleurum falcatum 82 Diplostephium hartwegii Lotus japonicus 100 Helianthus annuus Castanospermum australe 95 Lactuca serriola Hemiptelea davidii Paraprenanthes diversifolia Cucumis sativus Cercis canadensis Cucurbita pepo Castanospermum australe Citrullus lanatus Ammopiptanthus nanus 0.02 95Prunus avium 61 Eriobotrya japonica Sophora flavescens 100 Lotus japonicus Malus domestica 96 97 Eucalyptus grandis 79 Vigna radiata Lagerstroemia indica 76 Glycine soja Cannabis sativa 82 Phaseolus vulgaris 95 Spondias tuberosa 89 Vicia faba 78 96 Xanthoceras sorbifolium 62 Medicago truncatula Citrus sinensis Millettia pinnata Peganum harmala Bupleurum falcatum 97 Ricinus communis Manihot esculenta 0.05 Styphnolobium japonicum 88 Hevea brasiliensis Lophophytum mirabile Ziziphus jujuba 60 Leucaena trichandra Senna tora Senna tora 64 Lophophytum mirabile Tamarindus indica 87 Acacia ligulata Acacia ligulata Leucaena trichandra Libidibia coriaria 82 Libidibia coriaria 63 Haematoxylum brasiletto Haematoxylum brasiletto g rps1 rps3 rps4 Cycas taitungensis Cycas taitungensis Cycas taitungensis 91 Pinus taeda 98 Ginkgo biloba 94 Pinus taeda Ginkgo biloba Pinus taeda Ginkgo biloba Amborella trichopoda Amborella trichopoda Nymphaea colorata Nymphaea colorata Nymphaea colorata 92 100 Schisandra sphenanthera Schisandra sphenanthera Schisandra sphenanthera Liriodendron tulipifera 100 Eleusine indica Liriodendron tulipifera 100Triticum timopheevii Cynodon dactylon 78 Aegilops speltoides 100 78Tripsacum dactyloides Nelumbo nucifera 100 Hordeum vulgare 97 99 Zea perennis 100 Gastrodia elata 100 Lolium perenne 69 Sorghum bicolor 62 Bambusa oldhamii Saccharum officinarum 100 Stratiotes aloides Oryza sativa 99 Oryza sativa Butomus umbellatus 75 Saccharum officinarum 83 99 Hordeum vulgare Spirodela polyrhiza 81 Sorghum bicolor 100Triticum timopheevii 87 Zea perennis 100 Aegilops speltoides Cocos nucifera Tripsacum dactyloides 95 95 Lolium perenne2 75 Cynodon dactylon 100 Phoenix dactylifera 96 Lolium perenne Oryza sativa 100Eleusine indica Bambusa oldhamii 100 Phoenix dactylifera 100 99 Cocos nucifera 84 Eleusine indica Gastrodia elata Phoenix dactylifera 92 Zea perennis 74 Spirodela polyrhiza Spirodela polyrhiza 99 100 Stratiotes aloides Ilex pubescens Tripsacum dactyloides Butomus umbellatus 74 99 98Hesperelaea palmeri Saccharum officinarum Nelumbo nucifera Chionanthus rupicola 100 Daucus carota 64 Olea europaea Sorghum bicolor Monotropa hypopitys Ligustrum quihoui 100 Bambusa oldhamii 100 Chrysanthemum boreale 100 Haberlea rhodopensis Lactuca serriola Dorcoceras hygrometricum Triticum timopheevii 97 Paraprenanthes diversifolia 97 86 83 82 Utricularia reniformis Hordeum vulgare 92 Diplostephium hartwegii 88 Erythranthe guttata 84 Aegilops speltoides 100 Codonopsis lanceolata Castilleja paramensis Platycodon grandiflorus 89Salvia miltiorrhiza Lolium perenne 98 Nicotiana tabacum Ajuga reptans Amborella trichopoda Physochlaina orientalis 99Asclepias syriaca 99 Hyoscyamus niger 99 Cynanchum wilfordii Carica papaya Solanum tuberosum Rhazya stricta Lagerstroemia indica 72 Capsicum annuum 68 91 Ipomoea nil Nicotiana tabacum Ziziphus jujuba 99 96 Solanum tuberosum 72 100Cuscuta australis 98 Physochlaina orientalis 100Malus domestica 100 Cuscuta campestris Hyoscyamus niger 89 Cuscuta gronovii 62 Eriobotrya japonica 100 100 Capsicum annuum Asclepias syriaca 100 Cuscuta australis Prunus avium 100 Cynanchum wilfordii 100 Cuscuta gronovii Rhazya stricta 100 Cuscuta campestris Ricinus communis 100 Dorcoceras hygrometricum Ilex pubescens 66 Ipomoea nil 66 Haberlea rhodopensis 99 Platycodon grandiflorus Citrullus lanatus 62 Utricularia reniformis Codonopsis lanceolata 77 Ajuga reptans 84 Cucumis sativus 67 Daucus carota 79 Castilleja paramensis 85 Helianthus annuus Cucurbita pepo 66 Erythranthe guttata 84 Diplostephium hartwegii Sesuvium portulacastrum 72 Salvia miltiorrhiza 100 Chrysanthemum boreale 88 Hesperelaea palmeri 70 Paraprenanthes diversifolia Nepenthes ventricosa 90 Olea europaea Lactuca serriola Fallopia multiflora 100 Chionanthus rupicola 96Vaccinium macrocarpon Ligustrum quihoui Monotropa hypopitys Camellia sinensis Fallopia multiflora 63100 99 Sesuvium portulacastrum Monotropa hypopitys 92Sesuvium portulacastrum 100 Chenopodium quinoa Vaccinium macrocarpon 92 92 Chenopodium quinoa 84 100 Spinacia oleracea Spinacia oleracea Beta vulgaris Eucalyptus grandis 100 Beta vulgaris 100 Fallopia multiflora Cynomorium coccineum Nepenthes ventricosa Nepenthes ventricosa Ilex pubescens 67 Lagerstroemia indica Vitis vinifera Vitis vinifera Epirixanthes elongata Spondias tuberosa Lophophytum mirabile 83 70 Citrus sinensis 89 Cynomorium coccineum Peganum harmala Geranium maderense Lagerstroemia indica 79 Spondias tuberosa 92 Hyoscyamus niger Eucalyptus grandis Carica papaya Physochlaina orientalis Spondias tuberosa Batis maritima 94 Citrus sinensis Eruca vesicaria Populus tremula Peganum harmala 69 Sinapis arvensis Solanum tuberosum Xanthoceras sorbifolium 79 Raphanus sativus 82 100 Hibiscus cannabinus Schrenkiella parvula 72Cuscuta gronovii Gossypium trilobum 76 Brassica rapa 100 Cuscuta campestris Batis maritima 71 Capsella rubella 76 87Brassica rapa 100 Turritis glabra Cuscuta australis 73 100 Eruca vesicaria Arabidopsis thaliana Ipomoea nil 99 95 Raphanus sativus 89 Arabis alpina Boechera stricta Daucus carota 87 100 Arabis alpina Turritis glabra Bombax ceiba2 Rhazya stricta 96 96 Capsella rubella 100 99 92 Arabidopsis thaliana Bombax ceiba 100Cynanchum wilfordii 100 Gossypium trilobum Asclepias syriaca Boechera stricta Hibiscus cannabinus Carica papaya Ricinus communis Manihot esculenta 100 Salix suchowensis Populus tremula 100 Populus tremula 96 100 Hevea brasiliensis 93 Salix suchowensis 82 Ricinus communis Manihot esculenta Corchorus olitorius Hevea brasiliensis Cannabis sativa Diplostephium hartwegii 99 Cannabis sativa Hemiptelea davidii Morus notabilis 100 Cucumis sativus Batis maritima Hemiptelea davidii 100 Cucurbita pepo Epirixanthes elongata Geranium maderense 100 100 Eriobotrya japonica Citrullus lanatus Epirixanthes elongata2 84 Liriodendron tulipifera Malus domestica Nelumbo nucifera Tamarindus indica Ziziphus jujuba Cynomorium coccineum Millettia pinnata 88 Cucurbita pepo Vitis vinifera 100 Cucumis sativus Eriobotrya japonica Vigna radiata Citrullus lanatus Eucalyptus grandis 65 Phaseolus vulgaris Epirixanthes elongata Tamarindus indica 0.1 Tamarindus indica 74 Glycine soja Cercis canadensis 77 100Cercis canadensis Lotus japonicus 92 Bupleurum falcatum 66 Ammopiptanthus nanus 81 Bupleurum falcatum Medicago truncatula 86 Sophora flavescens 100 Vicia faba Styphnolobium japonicum Millettia pinnata 96 82Vicia faba 94 94 Vicia faba 99 Phaseolus vulgaris Sophora flavescens 0.1 92 100 Vicia faba2 0.2 97 Vigna radiata 71 Vicia faba3 100Glycine soja 99 Ammopiptanthus nanus Medicago truncatula 83 Medicago truncatula 72 Bupleurum falcatum Styphnolobium japonicum 80 76 Sophora flavescens 86Lotus japonicus Ammopiptanthus nanus 71 Castanospermum australe 99 Vigna radiata Castanospermum australe Cercis canadensis 100 Phaseolus vulgaris Styphnolobium japonicum 70 Glycine soja 60 Libidibia coriaria Libidibia coriaria 71 Millettia pinnata 94 Haematoxylum brasiletto 72 Haematoxylum brasiletto Castanospermum australe 92 Senna tora Senna tora Senna tora Lophophytum mirabile2 66 99 Acacia ligulata 91 Lophophytum mirabile 99 Leucaena trichandra 82 Haematoxylum brasiletto Leucaena trichandra Acacia ligulata Libidibia coriaria Acacia ligulata
rps12 rps13 Cycas taitungensis Cycas taitungensis Ginkgo biloba Pinus taeda 89 Pinus taeda Nymphaea colorata Ginkgo biloba Spirodela polyrhiza 100 Butomus umbellatus Amborella trichopoda Stratiotes aloides Cynomorium coccineum Gastrodia elata Phoenix dactylifera 60 Cucumis sativus 70Cynodon dactylon 90 Citrullus lanatus Eleusine indica Hordeum vulgare Cucurbita pepo 68 97 Aegilops speltoides Triticum timopheevii Corchorus olitorius Lolium perenne Spinacia oleracea 73 Saccharum officinarum 64 Chenopodium quinoa Sorghum bicolor Oryza sativa 95Beta vulgaris 98Tripsacum dactyloides 77 Silene vulgaris Zea perennis Bambusa oldhamii 87 Fallopia multiflora Cocos nucifera Nepenthes ventricosa Allium cepa 100 Amborella trichopoda Camellia sinensis Liriodendron tulipifera Monotropa hypopitys Schisandra sphenanthera 99 Nelumbo nucifera Vaccinium macrocarpon Nepenthes ventricosa Eucalyptus grandis 80Eruca vesicaria 71Brassica rapa 70 Prunus avium 61 83 Sinapis arvensis Malus domestica Raphanus sativus Eriobotrya japonica 99 Arabis alpina 86 Turritis glabra Vitis vinifera 84 Capsella rubella 86 Arabidopsis thaliana Ilex pubescens Boechera stricta Chrysanthemum boreale Carica papaya 100 Ziziphus jujuba 63Paraprenanthes diversifolia non-angiosperms Vitis vinifera Lactuca serriola Glycine soja Millettia pinnata Helianthus annuus 87Ammopiptanthus nanus Platycodon grandiflorus Sophora flavescens 99 basal + magnoliids Lotus japonicus Codonopsis lanceolata Bupleurum falcatum Diplostephium hartwegii 70 Vicia faba Medicago truncatula Daucus carota monocots 89 Vigna radiata Utricularia reniformis Phaseolus vulgaris Styphnolobium japonicum 72Cuscuta australis Batis maritima 100 Cuscuta campestris Cercis canadensis 94 basal eudicots Morus notabilis Cuscuta gronovii Castanospermum australe Ipomoea nil 83Chenopodium quinoa Spinacia oleracea Hesperelaea palmeri Beta vulgaris Erythranthe guttata rosids Sesuvium portulacastrum Fallopia multiflora Dorcoceras hygrometricum Camellia sinensis Haberlea rhodopensis Ilex pubescens rosids / fabids Capsicum annuum Castilleja paramensis Physochlaina orientalis Salvia miltiorrhiza Solanum tuberosum Hyoscyamus niger Ajuga reptans Xanthoceras sorbifolium Ligustrum quihoui rosids / malvids Cynomorium coccineum Citrus sinensis Chionanthus rupicola 73 Lagerstroemia indica Olea europaea Eucalyptus grandis asterids Hemiptelea davidii Solanum tuberosum Vaccinium macrocarpon Physochlaina orientalis Monotropa hypopitys 97 7299Asclepias syriaca Capsicum annuum 82 Cynanchum wilfordii Hyoscyamus niger asterids / campanulids Rhazya stricta Nicotiana tabacum Nicotiana tabacum Ipomoea nil 78 Asclepias syriaca 97Cuscuta gronovii asterids / lamiids Cuscuta campestris 83 Cynanchum wilfordii Cuscuta australis Rhazya stricta 83 Prunus avium Cannabis sativa 92 Eriobotrya japonica Malus domestica Ziziphus jujuba 100 Lophophytum mirabile2 Lophophytum mirabile Hemiptelea davidii 99 Salix suchowensis Morus notabilis Populus tremula Castilleja paramensis 77 Hevea brasiliensis Ajuga reptans Manihot esculenta Salvia miltiorrhiza Erythranthe guttata Ricinus communis Utricularia reniformis 70 Carica papaya 91Haberlea rhodopensis Dorcoceras hygrometricum Batis maritima Ligustrum quihoui Nelumbo nucifera 90 Hesperelaea palmeri 72 Chionanthus rupicola Gastrodia elata Olea europaea Schisandra sphenanthera 71 Hevea brasiliensis Nymphaea colorata Manihot esculenta 73 Ricinus communis Phoenix dactylifera Cucurbita pepo Liriodendron tulipifera Cucumis sativus 0.1 Citrullus lanatus Cocos nucifera Gossypium trilobum Spirodela polyrhiza Corchorus olitorius 78 Hibiscus cannabinus Lolium perenne Bombax ceiba Epirixanthes elongata 95 Hordeum vulgare Daucus carota Bambusa oldhamii 78 Platycodon grandiflorus Codonopsis lanceolata Oryza sativa 92Lactuca serriola 60 Triticum timopheevii 0.05 Paraprenanthes diversifolia Aegilops speltoides Helianthus annuus 93Diplostephium hartwegii 80Eleusine indica Chrysanthemum boreale Cynodon dactylon Tamarindus indica 66 Libidibia coriaria Tripsacum dactyloides Haematoxylum brasiletto Saccharum officinarum 70 Senna tora 81 Leucaena trichandra 91Sorghum bicolor Acacia ligulata Zea perennis