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| DC 欄位 | 值 | 語言 |
|---|---|---|
| dc.contributor.advisor | 鍾國芳 | zh_TW |
| dc.contributor.advisor | Kuo-Fang Chung | en |
| dc.contributor.author | 陳鴻文 | zh_TW |
| dc.contributor.author | Hong-Wun Chen | en |
| dc.date.accessioned | 2023-12-20T16:24:51Z | - |
| dc.date.available | 2023-12-21 | - |
| dc.date.copyright | 2023-12-20 | - |
| dc.date.issued | 2023 | - |
| dc.date.submitted | 2023-10-01 | - |
| dc.identifier.citation | Andermann, T., Torres Jiménez, M.F., Matos-Maraví, P., Batista, R., Blanco-Pastor, J.L., Gustafsson, A.L.S., Kistler, L., Liberal, I.M., Oxelman, B., Bacon, C.D., Antonelli, A. 2020. A guide to carrying out a phylogenomic target sequence capture project. Frontiers in Genetics 10: e1407.
Angiosperm Phylogeny Group. 2016. An update of the angiosperm phylogeny group classification for the orders and families of flowering plants: APG IV. Botanical Journal of the Linnean Society 181(1): 1–20. Barrera, W.B.J., Guzman, V.J.D.D., Mergilla, R.M.R. 2019. Functional adaptations of Begonia oxysperma A. DC. and Begonia ramosii Merr.(Begoniaceae) revealed through morpho-anatomical analyses. Philippine Journal of Systematic Biology 13(1): 13–27. Begonia Phylogeny Group. 2022. Resolving phylogenetic and taxonomic conflict in Begonia. Edinburgh Journal of Botany 79(Begonia special issue): e1928. Bolger, A.M., Lohse, M., Usadel, B. 2014. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics 30(15): 2114–2120. Borges, R., Machado, J.P., Gomes, C., Rocha, A.P., Antunes, A. 2019. Measuring phylogenetic signal between categorical traits and phylogenies. Bioinformatics 35(11): 1862–1869. Bouchenak-Khelladi, Y., Verboom, G.A., Savolainen, V., Hodkinson, T.R. 2010. Biogeography of the grasses (Poaceae): a phylogenetic approach to reveal evolutionary history in geographical space and geological time. Botanical Journal of the Linnean Society 162(4): 543–557. Bouchenak-Khelladi, Y., Slingsby, J.A., Verboom, G.A., Bond, W.J. 2014. Diversification of C-4 grasses (Poaceae) does not coincide with their ecological dominance. American Journal of Botany 101(2): 300–307. Cai, S.G., Papanatsiou, M., Blatt, M.R., Chen, Z.H. 2017. Speedy grass stomata: Emerging molecular and evolutionary features. Molecular Plant 10(7): 912–914. Cai, S.G., Huang, Y.Q., Chen, F., Zhang, X., Sessa, E., Zhao, C.C., Marchant, D.B., Xue, D.W., Chen, G., Dai, F., Leebens-Mack, J.H., Zhang, G.P., Shabala, S., Christie, J.M., Blatt, M.R., Nevo, E., Soltis, P.S., Soltis, D.E., Franks, P.J., Wu, F.B., Chen, Z.H. 2021. Evolution of rapid blue-light response linked to explosive diversification of ferns in angiosperm forests. New Phytologist 230(3): 1201–1213. Campos Dominguez, L. 2020. Study on the evolution of genome dynamics across the mega-diverse genus Begonia L. (Begoniaceae). Doctoral thesis, The University of Edinburgh, UK. Candolle, A.d. 1859. Mémoire sur la famille des Bégoniacées. Annales des Sciences Naturelles ser.4(11): 116–145. Catherine E. Wagner, Luke J. Harmon, Ole Seehausen. 2012. Ecological opportunity and sexual selection together predict adaptive radiation. Nature 487(7407): 366–369. Chan, Y.M., Tnah, L.H., Lee, S.L., Bhassu, S., Lee, C.T., Chua, L.S.L. 2018. Limited dispersal and geographic barriers cause population differentiation and structuring in Begonia maxwelliana at both large and small scales. Plant Ecology & Diversity 11(1): 69–83. Chen, Z.-H., Chen, G., Dai, F., Wang, Y., Hills, A., Ruan, Y.-L., Zhang, G., Franks, P.J., Nevo, E., Blatt, M.R. 2017. Molecular evolution of grass stomata. Trends in Plant Science 22(2): 124–139. Chung, K.F., Leong, W.C., Rubite, R.R., Repin, R., Kiew, R., Liu, Y., Peng, C.I. 2014. Phylogenetic analyses of Begonia sect. Coelocentrum and allied limestone species of China shed light on the evolution of Sino-Vietnamese karst flora. Botanical Studies 55: e1. Clement, W.L., Tebbitt, M.C., Forrest, L.L., Blair, J.E., Brouillet, L., Eriksson, T., Swensen, S.M. 2004. Phylogenetic position and biogeography of Hillebrandia sandwicensis (Begoniaceae): a rare Hawaiian relict. American Journal of Botany 91(6): 905–917. de La Harpe, M., Hess, J., Loiseau, O., Salamin, N., Lexer, C., Paris, M. 2019. A dedicated target capture approach reveals variable genetic markers across micro- and macro-evolutionary time scales in palms. Molecular Ecology Resources 19(1): 221–234. Doll, Y., Koga, H., Tsukaya, H. 2021. The diversity of stomatal development regulation in Callitriche is related to the intrageneric diversity in lifestyles. Proceedings of the National Academy of Sciences of the United States of America 118(14): e2026351118. Dong, N., Prentice, I.C., Wright, I.J., Evans, B.J., Togashi, H.F., Caddy-Retalic, S., McInerney, F.A., Sparrow, B., Leitch, E., Lowe, A.J. 2020. Components of leaf-trait variation along environmental gradients. New Phytologist 228: 82–94. Donoghue, M.J., Eaton, D.A.R., Maya-Lastra, C.A., Landis, M.J., Sweeney, P.W., Olson, M.E., Cacho, N.I., Moeglein, M.K., Gardner, J.R., Heaphy, N.M., Castorena, M., Rivas, A.S., Clement, W.L., Edwards, E.J. 2022. Replicated radiation of a plant clade along a cloud forest archipelago. Nature Ecology & Evolution 6(9): 1318–1329. Doorenbos, J., Sosef, M.S.M., De Wilde, J.J.F.E. 1998. The sections of Begonia. Wageningen Agricultural University Papers 98: 1–226. Forrest, L.L., Hughes, M., Hollingsworth, P.M. 2005. A phylogeny of Begonia using nuclear ribosomal sequence data and morphological characters. Systematic Botany 30(3): 671–682. Forrest, L.L., Hart, M.L., Hughes, M., Wilson, H.P., Chung, K.F., Tseng, Y.H., Kidner, C.A. 2019. The Limits of Hyb-Seq for Herbarium Specimens: Impact of Preservation Techniques. Frontiers in Ecology and Evolution 7: e439. Franks, P.J., Farquhar, G.D. 2007. The mechanical diversity of stomata and its significance in gas-exchange control. Plant Physiology 143(1): 78–87. Gillespie, R.G., Benjamin, S.P., Brewer, M.S., Rivera, M.A.J., Roderick, G.K. 2018. Repeated diversification of ecomorphs in Hawaiian stick spiders. Current Biology 28(6): 941–947. Goodall-Copestake, W.P., Perez-Espona, S., Harris, D.J., Hollingsworth, P.M. 2010. The early evolution of the mega-diverse genus Begonia (Begoniaceae) inferred from organelle DNA phylogenies. Biological Journal of the Linnean Society 101(2): 243–250. Gutierrez-Ortega, J.S., Yamamoto, T., Vovides, A.P., Perez-Farrera, M.A., Martinez, J.F., Molina-Freaner, F., Watano, Y., Kajita, T. 2018. Aridification as a driver of biodiversity: a case study for the cycad genus Dioon (Zamiaceae). Annals of Botany 121(1): 47–60. Hanba, Y.T., Miyazawa, S.I., Terashima, I. 1999. The influence of leaf thickness on the CO2 transfer conductance and leaf stable carbon isotope ratio for some evergreen tree species in Japanese warm-temperate forests. Functional Ecology 13(5): 632–639. Harris, B.J., Harrison, C.J., Hetherington, A.M., Williams, T.A. 2020. Phylogenomic evidence for the monophyly of bryophytes and the reductive evolution of stomata. Current Biology 30(11): 2001–2012. Harrison, C.J., Morris, J.L. 2018. The origin and early evolution of vascular plant shoots and leaves. Philosophical Transactions of the Royal Society B: Biological Sciences 373: e20160496. Henry, C., John, G.P., Pan, R.H., Bartlett, M.K., Fletcher, L.R., Scoffoni, C., Sack, L. 2019. A stomatal safety-efficiency trade-off constrains responses to leaf dehydration. Nature Communications 10: e3398. Hetherington, A.M., Woodward, F.I. 2003. The role of stomata in sensing and driving environmental change. Nature 424(6951): 901–908. Höhna, S., Landis, M.J., Heath, T.A., Boussau, B., Lartillot, N., Moore, B.R., Huelsenbeck, J.P., Ronquist, F. 2016. RevBayes: Bayesian phylogenetic inference using graphical models and an interactive model-specification language. Systematic Biology 65(4): 726–736. Hoover, W.S. 1986. Stomata and stomatal clusters in Begonia: ecological response in two Mexican species. Biotropica 18(1): 16–21. Hu, A.Q., Gale, S.W., Liu, Z.J., Fischer, G.A., Saunders, R.M.K. 2022. Diversification slowdown in the cirrhopetalum alliance (Bulbophyllum, Orchidaceae): Insights from the evolutionary dynamics of crassulacean acid metabolism. Frontiers in Plant Science 13: e794171. Hughes, M., Miller, A.G. 2002. A new endemic species of Begonia (Begoniaceae) from the Socotra Archipelago. Edinburgh Journal of Botany 59(2): 273–281. Hughes, M., Hollingsworth, P.M. 2008. Population genetic divergence corresponds with species-level biodiversity patterns in the large genus Begonia. Molecular Ecology 17(11): 2643–2651. Hughes, M., Coyle, C., Rubite, R.R. 2010. A revision of Begonia section Diploclinium (Begoniaceae) on the Philippine island of Palawan, including five new species. Edinburgh Journal of Botany 67(1): 123–140. Hughes, M., Rubite, R.R., Kono, Y., Peng, C.I. 2011. Begonia blancii (sect. Diploclinium, Begoniaceae), a new species endemic to the Philippine island of Palawan. Botanical Studies 52(2): 203–209. Hughes, M., Rubite, R.R., Blanc, P., Chung, K.-F., Peng, C.-I. 2015. The Miocene to Pleistocene colonization of the Philippine archipelago by Begonia sect. Baryandra (Begoniaceae). American Journal of Botany 102(5): 695–706. Hughes, M., Moonlight, P.W., Jara-Muñoz, A., Tebbitt, M.C., Wilson, H.P., Zhong, K., Pullan, M., 2015–2022. Begonia Resource Centre. Hughes, M., Peng, C.-I. 2018. Asian Begonia 300 species portraits. KBCC Press & RBGE, Taipei & Edinburgh. 353 pp. Hughes, M., Peng, C.I, Lin, C.W., Rubite, R.R., Blanc, P., Chung, K.F. 2018. Chloroplast and nuclear DNA exchanges among Begonia sect. Baryandra species (Begoniaceae) from Palawan Island, Philippines, and descriptions of five new species. Plos One 13(5): e0194877. Ito, Y., Tanaka, N., Barfod, A.S., Kaul, R.B., Muasya, A.M., Garcia-Murillo, P., Vere, N.D., Duyfjes, B.E.E., Albach, D.C. 2017. From terrestrial to aquatic habitats and back again: molecular insights into the evolution and phylogeny of Callitriche (Plantaginaceae). Botanical Journal of the Linnean Society 184(1): 46–58. Jacobs, M., Lopez-Garcia, M., Phrathep, O.P., Lawson, T., Oulton, R., Whitney, H.M. 2016. Photonic multilayer structure of Begonia chloroplasts enhances photosynthetic efficiency. Nature Plants 2(11): e16162. Janssen, T., Schneider, H. 2005. Exploring the evolution of humus collecting leaves in drynarioid ferns (Polypodiaceae, Polypodiidae) based on phylogenetic evidence. Plant Systematics and Evolution 252(3-4): 175–197. Johnson, M.G., Gardner, E.M., Liu, Y., Medina, R., Goffinet, B., Shaw, A.J., Zerega, N.J.C., Wickett, N.J. 2016. HybPiper: Extracting coding sequence and introns for phylogenetics from high-throughput sequencing reads using target enrichment. Applications in Plant Sciences 4(7): e1600016. Junier, T., Zdobnov, E.M. 2010. The Newick utilities: high-throughput phylogenetic tree processing in the Unix shell. Bioinformatics 26(13): 16691–11670. Kaul, R.B. 1977. The role of the multiple epidermis in foliar succulence of Peperomia (Piperaceae). Botanical Gazette 138(2): 213–218. Kidner, C., Groover, A., Thomas, D.C., Emelianova, K., Soliz-Gamboa, C., Lens, F. 2016. First steps in studying the origins of secondary woodiness in Begonia (Begoniaceae): combining anatomy, phylogenetics, and stem transcriptomics. Biological Journal of the Linnean Society 117(1): 121–138. Kiew, R. 2001. The limestone Begonias of Sabah, Borneo - flagship species for conservation. Gardens' Bulletin Singapore 53: 241–286. Kiew, R. 2005. Begonias of Peninsular Malaysia. Kota Kinabalu: Natural History Publications. 308 pp. Kiew, R., Sang, J. 2007. Begonia (Begoniaceae) from limestone hills in the Kuching Division, Sarawak, Borneo, including nine new species. Gardens’ Bulletin Singapore 58(2): 199–232. Kiew, R., Sang, J., Repin, R., Ahmad, J.A. 2015. A guide to Begonias of Borneo. Kota Kinabalu: Natural History Publications. 293 pp. Krishna, N., Britto, S.J., Thomas, S., Mani, B., Pradeep, A.K., Jithin, K.V. 2020. A new section (Begonia sect. Flocciferae sect. nov.) and two new species in Begoniaceae from the western ghats of India. Edinburgh Journal of Botany 77(2): 251–268. Lailaty, I.Q., Efendi, M. 2023. Leaf anatomy profile of Begonia section Platycentrum Sphenanthera group from Java and Sumatera, Indonesia. Jurnal Biodjati 8(1): 44–53. Leroux, O. 2020. Vibratome sectioning of plant materials for (Immuno) cytochemical staining. The Plant Cell Wall: 339–350. Li, C., Yang, L.H., Tian, D.K., Chen, Y., Wu, R.J., Fu, N.F. 2016. Begonia leipingensis (Begoniaceae), a new compound-leaved species with unique petiolule pattern from Guangxi of China. Phytotaxa 244(1): 45–56. Li, C., Chen, J.L., Li, Y.Y., Tian, D.K. 2018. Genetic diversity of Begonia versicolor (Begoniaceae), a narrow endemic species in southeast Yunnan of China. Taiwania 63(1): 49–53. Li, L.F., Chen, X.L., Fang, D.M., Dong, S.S., Guo, X., Li, N., Campos-Dominguez, L., Wang, W.G., Liu, Y., Lang, X.A., Peng, Y., Tian, D.K., Thomas, D.C., Mu, W.X., Liu, M., Wu, C.Y., Yang, T., Zhang, S.Z., Yang, L.L., Yang, J.F., Liu, Z.J., Zhang, L.S., Zhang, X.T., Chen, F., Jiao, Y.N., Guo, Y.L., Hughes, M., Wang, W., Liu, X.F., Zhong, C.M., Li, A.R., Sahu, S.K., Yang, H.M., Wu, E.N., Sharbrough, J., Lisby, M., Liu, X., Xu, X., Soltis, D.E., Peer, Y.V.d., Kidner, C., Zhang, S.Z., Liu, H. 2022. Genomes shed light on the evolution of Begonia, a mega-diverse genus. New Phytologist 234(1): 295–310. Lin, C.W., Peng, C.I. 2014. Begonia natunaensis (sect. Reichenheimia, Begoniaceae), a new species from Natuna Island, Indonesia. Taiwania 59(4): 368–373. Lin, C.W., Chung, S.W., Peng, C.I. 2017. Eleven new species of Begonia (Begoniaceae) from Sarawak, Borneo. Taiwania 62(3): 219–251. Lind, C., Dreyer, I., López-Sanjurjo, Enrique J., von Meyer, K., Ishizaki, K., Kohchi, T., Lang, D., Zhao, Y., Kreuzer, I., Al-Rasheid, Khaled A.S., Ronne, H., Reski, R., Zhu, J.-K., Geiger, D., Hedrich, R. 2015. Stomatal guard cells co-opted an ancient ABA-dependent desiccation survival system to regulate stomatal closure. Current Biology 25(7): 928–935. Liu, J.W., Li, S.F., Wu, C.T., Valdespino, I.A., Ho, J.F., Wu, Y.H., Chang, H.M., Guu, T., Kao, M.F., Chesson, C., Das, S., Oppenheimer, H., Bakutis, A., Saenger, P., Allen, N.S., Yong, J.W.H., Adjie, B., Kiew, R., Nadkarni, N., Huang, C.L., Chesson, P., Sheue, C.R. 2020a. Gigantic chloroplasts, including bizonoplasts, are common in shade-adapted species of the ancient vascular plant family Selaginellaceae. American Journal of Botany 107(4): 562–576. Liu, Y., Ku, S.M., Peng, C.I. 2005. Begonia picturata (sect. Coelocentrum, Begoniaceae), a new species from limestone areas in Guangxi, China. Botanical Bulletin of Academia Sinica 46(4): 367–376. Liu, Y., Tseng, Y.H., Yang, H.A., Hu, A.Q., Xu, W.B., Lin, C.W., Kono, Y., Chang, C.C., Peng, C.I., Chung, K.F. 2020b. Six new species of Begonia from Guangxi, China. Botanical Studies 61: e21. Mahler, D.L., Ingram, T., Revell, L.J., Losos, J.B. 2013. Exceptional convergence on the macroevolutionary landscape in island lizard radiations. Science 341(6143): 292–295. Mast, A.R., Givnish, T.J. 2002. Historical biogeography and the origin of stomatal distributions in Banksia and Dryandra (Proteaceae) based on their cpDNA phylogeny. American Journal of Botany 89(8): 1311–1323. Matolweni, L.O., Balkwill, K., McLellan, T. 2000. Genetic diversity and gene flow in the morphologically variable, rare endemics Begonia dregei and Begonia homonyma (Begoniaceae). American Journal of Botany 87(3): 431–439. Michel, T., Tseng, Y.-H., Wilson, H.P., Chung, K.-F., Kidner, C.A. 2022. A hybrid capture bait set for Begonia. Edinburgh Journal of Botany 79(Begonia Special Issue): Moonlight, P.W., Richardson, J.E., Tebbitt, M.C., Thomas, D.C., Hollands, R., Peng, C.-I., Hughes, M. 2015. Continental-scale diversification patterns in a megadiverse genus: the biogeography of neotropical Begonia. Journal of Biogeography 42(6): 1137–1149. Moonlight, P.W. 2017. Linking speciation and the niche: taxonomy, phylogeny and niche evolution in neotropical Begonia. Doctoral thesis, University of Glasgow. Moonlight, P.W., Ardi, W.H., Padilla, L.A., Chung, K.-F., Fuller, D., Girmansyah, D., Hollands, R., Jara-Muñoz, A., Kiew, R., Leong, W.-C., Liu, Y., Mahardika, A., Marasinghe, L.D.K., O’Connor, M., Peng, C.-I., Pérez, Á.J., Phutthai, T., Pullan, M., Rajbhandary, S., Reynel, C., Rubite, R.R., Sang, J., Scherberich, D., Shui, Y.-M., Tebbitt, M.C., Thomas, D.C., Wilson, H.P., Zaini, N.H., Hughes, M. 2018. Dividing and conquering the fastest-growing genus: Towards a natural sectional classification of the mega–diverse genus Begonia (Begoniaceae). TAXON 67(2): 267–323. Morris, R. 2016. Species Begonias of the eastern Himalayas of Arunachal, India. KBCC Press, Taiwan. 131 pp. Nakamura, K., Kokubugata, G., Rubite, R.R., Huang, C.J., Kono, Y., Yang, H.A., Lopez-Feliciano, A., Labuguen, M.L., Yokota, M., Peng, C.I. 2014. In situ glacial survival at the northern limit of tropical insular Asia by a lowland herb Begonia fenicis (Begoniaceae). Botanical Journal of the Linnean Society 174(3): 305–325. Neubauer, H.F. 1967. Bemerkungen über den Bau der Begoniaceen. Berichte der Deutschen Botanischen Gesellschaft 80(2): 80–97. Nguyen, L.T., Schmidt, H.A., Haeseler, A.v., Minh, B.Q. 2015. IQ-TREE: A fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies. Molecular Biology and Evolution 32(1): 268–274. Nicholls, J.A., Pennington, R.T., Koenen, E.J.M., Hughes, C.E., Hearn, J., Bunnefeld, L., Dexter, K.G., Stone, G.N., Kidner, C.A. 2015. Using targeted enrichment of nuclear genes to increase phylogenetic resolution in the neotropical rain forest genus Inga (Leguminosae: Mimosoideae). Frontiers in Plant Science 6: e710. Pao, S.-H., Tsai, P.-Y., Peng, C.-I., Chen, P.-J., Tsai, C.-C., Yang, E.-C., Shih, M.-C., Chen, J., Yang, J.-Y., Chesson, P., Sheue, C.-R. 2018. Lamelloplasts and minichloroplasts in Begoniaceae: iridescence and photosynthetic functioning. Journal of Plant Research 131(4): 655–670. Pao, S.H., Liu, J.W., Yang, J.Y., Chesson, P., Sheue, C.R. 2020. Uncovering the mechanisms of novel foliar variegation patterns caused by structures and pigments. Taiwania 65(1): 74–80. Papanatsiou, M., Amtmann, A., Blatt, M.R. 2017. Stomatal clustering in Begonia associates with the kinetics of leaf gaseous exchange and influences water use efficiency. Journal of Experimental Botany 68(9): 2309–2315. Pathoumthong, P., Zhang, Z., Roy, S.J., El Habti, A. 2023. Rapid non-destructive method to phenotype stomatal traits. Plant Methods 19(1): 36. Peng, C.-I, Chen, Y.-K., Yen, H.-F. 1988. Begonia ravenii (Begoniaceae), a new species from Taiwan. Botanical Bulletin of Academia Sinica 29: 217–222. Peng, C.-I, Chen, Y.-K. 1990. Begonia austrotaiwanensis (Begoniaceae), a new species from southern Taiwan. Journal of the Arnold Arboretum. Arnold Arboretum 71(4): 567–574. Peng, C.I, Shui, Y.M., Liu, Y., Ku, S.M. 2005. Begonia fangii (sect. Coelocentrum, Begoniaceae), a new species from limestone areas in Guangxi, China. Botanical Bulletin of Academia Sinica 46(1): 83–89. Peng, C.I, Ku, S.M., Kono, Y., Chung, K.F., Liu, Y. 2008. Two new species of Begonia (sect. Coelocentrum, Begoniaceae) from limestone areas in Guangxi, China: B. arachnoidea and B. subcoriacea. Botanical Studies 49(4): 405–418. Peng, C.I, Yang, H.A., Kono, Y., Chung, K.F., Huang, Y.S., Wu, W.H., Liu, Y. 2013. Novelties in Begonia sect. Coelocentrum: B. longgangensis and B. ferox from limestone areas in Guangxi, China. Botanical Studies 54: e44. Peng, C.I, Jin, X.H., Ku, S.M., Kono, Y., Huang, H.Y., Yang, H.A. 2014a. Begonia wuzhishanensis (sect. Diploclinium, Begoniaceae), a new species from Hainan Island, China. Botanical Studies 55: e24. Peng, C.I, Ku, S.M., Yang, H.A., Leong, W.C., Liu, Y., Nguyen, C.V., Kono, Y., Chung, K.F. 2014b. Two new species of Begonia sect. Coelocentrum, B. guixiensis and B. longa, from Sino-Vietnamese limestone karsts. Botanical Studies 55: e52. Peng, C.I, Lin, C.W., Yang, H.A., Kono, Y., Nguyen, H.Q. 2015. Six new species of Begonia (Begoniaceae) from limestone areas in Northern Vietnam. Botanical Studies 56: e9. Peng, C.I, Rubite, R.R., Lin, C.W. 2017. Begonia polyclada (sect. Petermannia, Begoniaceae), a gracile new species from Luzon, Philippines. Phytotaxa 296(1): 93–97. Phrathep, O.-P. 2019. Biodiversity and physiology of Begonia iridoplasts. Doctoral thesis, University of Bristol. Phutthai, T., Sands, M., Sridith, K. 2009. Field surveys of natural populations of Begonia L. in Thailand. Thai Forest Bulletin (SPECIAL ISSUE:): 186–196. Piccolo, E.L., Landi, M., Pellegrini, E., Agati, G., Giordano, C., Giordani, T., Lorenzini, G., Malorgio, F., Massai, R., Nali, C., Rallo, G., Remorini, D., Vernieri, P., Guidi, L. 2018. Multiple consequences induced by epidermally-located anthocyanins in young, mature and senescent leaves of Prunus. Frontiers in Plant Science 9: e917. Plana, V. 2003. Phylogenetic relationships of the Afro-Malagasy members of the large genus Begonia inferred from trnL intron sequences. Systematic Botany 28(4): 693–704. Plana, V., Gascoigne, A., Forrest, L.L., Harris, D., Pennington, R.T. 2004. Pleistocene and pre-Pleistocene Begonia speciation in Africa. Molecular Phylogenetics and Evolution 31(2): 449–461. Prasad, V., Stromberg, C.A.E., Leache, D., Samant, B., Patnaik, R., Tang, L., Mohabey, D.M., Ge, S., Sahni, A. 2011. Late Cretaceous origin of the rice tribe provides evidence for early diversification in Poaceae. Nature Communications 2: e480. Qin, Y.H., Liang, Y.Y., Xu, W.B., Lin, C.W., Peng, C.I. 2017. Begonia ufoides (sect. Coelocentrum, Begoniaceae), a new species from limestone areas in central Guangxi, China. Phytotaxa 316(3): 279–284. R Development Core Team, 2023. R: A language and environment for statistical computing. R foundation for Statistical Computing, Vienna, Austria. Raven, J.A. 2002. Selection pressures on stomatal evolution. New Phytologist 153(3): 371–386. Reginato, M., Boeger, M.R.T., Goldenberg, R. 2009. Comparative anatomy of the vegetative organs in Pleiochiton A. Gray (Melastomataceae), with emphasis on adaptations to epiphytism. Flora 204(10): 782–790. Revell, L.J. 2012. phytools: an R package for phylogenetic comparative biology (and other things). Methods in Ecology and Evolution 3(2): 217–223. Rjosk, A., Neinhuis, C., Lautenschlager, T. 2022. Anatomy and biomechanics of peltate Begonia leaves-comparative case studies. Plants-Basel 11(23): 3297. Rubite, R., Ubaldo, D.B.H., Salcedo, J.C., Chung, K.F., Evangelista, L.T., Tandang, D.N., Hughes, M. 2022. Begonia hemicardia (Sect. Petermannia, Begoniaceae), a resurrected heterotypic synonym and nomen nudum. Edinburgh Journal of Botany 79(Begonia special issue): e403. Rubite, R.R. 2013. Begonia section Petermannia of Luzon Island, the Philippines. Philippine Journal of Science 142: 183–197. Rubite, R.R., Hughes, M., Blanc, P., Chung, K.F., Yang, H.A., Kono, Y., Alejandro, G., Layola, L.d., Virata, A., Peng, C.I. 2015. Three new species of Begonia endemic to the Puerto Princesa Subterranean River National Park, Palawan. Botanical Studies 56: e19. Rudall, P.J., Julier, A.C.M., Kidner, C.A. 2017. Ultrastructure and development of non-contiguous stomatal clusters and helicocytic patterning in Begonia. Annals of Botany 122(5): 767–776. Sack, L., Scoffoni, C. 2013. Leaf venation: structure, function, development, evolution, ecology and applications in the past, present and future. New Phytologist 198(4): 983–1000. Santos-Silva, F., Saraiva, D.P., Monteiro, R.F., Pita, P., Mantovani, A., Forzza, R.C. 2013. Invasion of the South American dry diagonal: What can the leaf anatomy of Pitcairnioideae (Bromeliaceae) tell us about it? Flora 208(8): 508–521. Sayyari, E., Mirarab, S. 2016. Fast coalescent-based computation of local branch support from quartet frequencies. Molecular Biology and Evolution 33(7): 1654–1668. Sheue, C.R., Pao, S.H., Chien, L.F., Chesson, P., Peng, C.I. 2012. Natural foliar variegation without costs? The case of Begonia. Annals of Botany 109(6): 1065–1074. Shui, Y.M., Chen, W.H., Peng, H., Huang, S.H., Liu, Z.W. 2019. Taxonomy of Begonias. Yunnan Science and Technology Press, Kunming pp. Silvera, K., Santiago, L.S., Cushman, J.C., Winter, K. 2009. Crassulacean acid metabolism and epiphytism linked to adaptive radiations in the Orchidaceae. Plant Physiology 149(4): 1838–1847. Silvestro, D., Zizka, G., Schulte, K. 2014. Disentangling the effects of key innovations on the diversification of Bromelioideae (bromeliaceae). Evolution 68(1): 163–175. Syring, J.V., Tennessen, J.A., Jennings, T.N., Wegrzyn, J., Scelfo-Dalbey, C., Cronn, R. 2016. Targeted capture sequencing in whitebark pine reveals range-wide demographic and adaptive patterns despite challenges of a large, repetitive genome. Frontiers in Plant Science 7: e484. Tan, J.P.C., Tam, S.M., Kiew, R. 2018. Begonia yenyeniae (Begoniaceae), a new species from Endau Rompin National Park, Johor, Malaysia. Phytokeys (110): 23–37. Taram, M., Borah, D., Krishna, N., Pradeep, A.K., Amrutha, A., Hughes, M. 2020. Begonia oyuniae (Begonia sect. Monophyllon, Begoniaceae), a remarkable new species from Northeast India. Gardens’ Bulletin Singapore 72(1): 109–115. Tebbitt, M.C., Lowe-Forrest, L., Santoriello, A., Clement, W.L., Swensen, S.M. 2006. Phylogenetic relationships of Asian Begonia, with an emphasis on the evolution of rain-ballist and animal dispersal mechanisms in sections Platycentrum, Sphenanthera and Leprosae. Systematic Botany 31(2): 327–336. Thomas, D.C., Hughes, M., Phutthai, T., Rajbhandary, S., Rubite, R., Ardi, W.H., Richardson, J.E. 2011. A non-coding plastid DNA phylogeny of Asian Begonia (Begoniaceae): Evidence for morphological homoplasy and sectional polyphyly. Molecular Phylogenetics and Evolution 60(3): 428–444. Thomas, D.C., Hughes, M., Phutthai, T., Ardi, W.H., Rajbhandary, S., Rubite, R., Twyford, A.D., Richardson, J.E. 2012. West to east dispersal and subsequent rapid diversification of the mega-diverse genus Begonia (Begoniaceae) in the Malesian archipelago. Journal of Biogeography 39(1): 98–113. Tian, D., Xiao, Y., Tong, Y., Fu, N., Liu, Q., Li, C. 2018. Diversity and conservation of Chinese wild Begonias. Plant Diversity 40(3): 75–90. Tian, D.K., Xiao, Y., Li, Y.C., Yan, K.J. 2020. Several new records, synonyms, and hybrid-origin of Chinese Begonias. Phytokeys (153): 13–35. Tribble, C.M., Freyman, W.A., Landis, M.J., Lim, J.Y., Barido-Sottani, J., Kopperud, B.T., Hohna, S., May, M.R. 2022. RevGadgets: An R package for visualizing Bayesian phylogenetic analyses from RevBayes. Methods in Ecology and Evolution 13: 314—323. Tsai, M.-Y., Kuan, C., Guo, Z.-L., Yang, H.-A., Chung, K.-F., Ho, C.-M.K. 2022. Stomatal clustering in Begonia improves water use efficiency by modulating stomatal movement and leaf structure. Plant-Environment Interactions 3(4): 141–154. Tseng, Y.-H., Huang, H.-Y., Xu, W.-B., Yang, H.-A., Peng, C.-I., Liu, Y., Chung, K.-F. 2019. Phylogeography of Begonia luzhaiensis suggests both natural and anthropogenic causes for the marked population genetic structure. Botanical Studies 60: e20. Tseng, Y.-H., Hsieh, C.-L., Campos-Domínguez, L., Hu, A.-Q., Chang, C.-C., Hsu, Y.-T., Kidner, C.A., Hughes, M., Moonlight, P.W., Hung, C.-H., Wang, Y.-C., Wang, Y.-T., Liu, S.-H., Girmansyah, D., Chung, K.-F. 2022. Insights into the evolution of the chloroplast genome and the phylogeny of Begonia. Edinburgh Journal of Botany 79(Begonia special issue): e408. Twyford, A.D., Kidner, C.A., Harrison, N., Ennos, R.A. 2013. Population history and seed dispersal in widespread Central American Begonia species (Begoniaceae) inferred from plastome-derived microsatellite markers. Botanical Journal of the Linnean Society 171(1): 260–276. Twyford, A.D., Kidner, C.A., Ennos, R.A. 2014. Genetic differentiation and species cohesion in two widespread central American Begonia species. Heredity 112(4): 382–390. Twyford, A.D., Kidner, C.A., Ennos, R.A. 2015. Maintenance of species boundaries in a neotropical radiation of Begonia. Molecular Ecology 24(19): 4982–4993. Vatén, A., Bergmann, D.C. 2012. Mechanisms of stomatal development: an evolutionary view. EvoDevo 3(1): e11. Viruel, J., Conejero, M., Hidalgo, O., Pokorny, L., Powell, R.F., Forest, F., Kantar, M.B., Gomez, M.S., Graham, S.W., Gravendeel, B., Wilkin, P., Leitch, I.J. 2019. A target capture-based method to estimate ploidy from herbarium specimens. Frontiers in Plant Science 10: e937. Wang, Y., Shao, L., Wang, J., Ren, H., Liu, H., Zhang, Q.M., Guo, Q.F., Chen, X.W. 2016. Comparison of morphological and physiological characteristics in two phenotypes of a rare and endangered plant, Begonia fimbristipula Hance. Photosynthetica 54(3): 381–389. Watkins, J.E., Kawahara, A.Y., Leicht, S.A., Auld, J.R., Bicksler, A.J., Kaiser, K. 2006. Fern laminar scales protect against photoinhibition from excess light. American Fern Journal 96(3): 83–92. Watkins, J.E., Holbrook, N.M., Zwieniecki, M.A. 2010. Hydraulic properties of fern sporophytes: Consequences for ecological and evolutionary diversification. American Journal of Botany 97(12): 2007–2019. Wilde, J.J.F.E.d., Hughes, M., Rodda, M., Thomas, D.C. 2011. Pliocene intercontinental dispersal from Africa to Southeast Asia highlighted by the new species Begonia afromigrata (Begoniaceae). TAXON 60(6): 1685–1692. Wilson, H.P., Jimbo, T., Hagwood, A., Hughes, M. 2020. Three new species of Begonia sect. Petermannia (Begoniaceae) from Sandaun Province, Papua New Guinea. Gardens' Bulletin Singapore 72(2): 275–284. Yang, L.M., Koo, D.H., Li, Y.H., Zhang, X.J., Luan, F.S., Havey, M.J., Jiang, J.M., Weng, Y.Q. 2012. Chromosome rearrangements during domestication of cucumber as revealed by high-density genetic mapping and draft genome assembly. Plant Journal 71(6): 895–906. Yardeni, G., Viruel, J., Paris, M., Hess, J., Crego, C.G., de la Harpe, M., Rivera, N., Barfuss, M.H.J., Till, W., Guzman-Jacob, V., Kromer, T., Lexer, C., Paun, O., Leroy, T. 2022. Taxon-specific or universal? Using target capture to study the evolutionary history of rapid radiations. Molecular Ecology Resources 22(3): 927–945. Ye, H.G., Wang, F.G., Ye, Y.S., Peng, C.I. 2004. Begonia coptidifolia (Begoniaceae), a new species from China. Botanical Bulletin of Academia Sinica 45(3): 259–266. Zhang, C., Rabiee, M., Sayyari, E., Mirarab, S. 2018. ASTRAL-III: polynomial time species tree reconstruction from partially resolved gene trees. BMC bioinformatics 19: e153. | - |
| dc.identifier.uri | http://tdr.lib.ntu.edu.tw/jspui/handle/123456789/91306 | - |
| dc.description.abstract | 由二或多個氣孔聚集成簇的非接觸型氣孔簇 (non-contiguous stomatal cluster) 是非常特殊的氣孔排列形式，主要出現在菊類及薔薇類中，例如秋海棠屬中的某些類群。野外觀察、解剖學和生理生態研究顯示氣孔簇相較於單生氣孔能使秋海棠有較高的水分使用效率和更大的共用氣室，可能與適應乾旱環境有關。值得一提的是在秋海棠屬中，許多具有氣孔簇的類群也有葉片下皮層 (hypodermis)，而葉片下皮層也被認為是植物適應乾旱的特徵之一。然而，不管是氣孔簇或葉片下皮層對於秋海棠的適應意義，皆只由研究極為少數的種類進而提出假說，是否具有普遍性，需要大尺度的取樣來支持。本研究使用標靶捕獲的次世代定序策略，重建高解析度的亞洲秋海棠親緣關係樹，並收集特徵資料，進行親緣比較分析，以檢驗氣孔簇和葉片下皮層幫助秋海棠適應乾旱環境的假說。結果顯示獨立的支序重複地轉為氣孔簇和獲得葉片下皮層，且氣孔簇和葉片下皮層之間具有顯著的親緣相關性，顯示此二特徵極可能具適應性，且為適應相似的特定環境。兩者皆具極顯著的親緣訊號，暗示秋海棠明顯的親緣棲位保守性。亞洲秋海棠主要獲得氣孔簇的事件發生在岩生的 Sect. Baryandra 和 Sect. Jackia，而岩生植物時常面臨乾旱逆境，支持前人之氣孔簇乾旱適應假說。藉由整合親緣基因體學和植物解剖學，本研究結果對於多樣性極高的秋海棠屬，提供了生態、演化和種化的新觀點。 | zh_TW |
| dc.description.abstract | The non-contiguous stomatal cluster, a unique arrangement of anatomic pattern formed by the grouping of two or more stomata, is only observed in some clades of Asterids and Rosids such as Begonia. Based on field observations, anatomical studies, and ecophysiological data, it is known that the stomatal cluster in Begonia provides higher water usage efficiency and larger substomatal cavity than singular stomata. Consequently, this unique arrangement has been hypothesized as an adaptation for growing in arid environments. In Begonia, many taxa with stomatal cluster also possess the hypodermis, which has been recognized as an adaptation for drought resistance. However, since the adaptive significance of the stomatal cluster and/or hypodermis in Begonia was hitherto observed only on a few species, studies with a larger sampling scale are necessary to confirm the general applicability of this hypothesis. In this study, we reconstruct a highly resolved phylogenomic tree of Asian Begonia using Hyb-Seq data, and collect character data for phylogenetic comparative analyses to test the hypothesis. We found a significant phylogenetic correlation between the stomatal cluster and hypodermis in Begonia and the gain of these two characters occurred repeatedly across the phylogeny. These findings suggest that the two characters might be adaptive and specialized for similar specific environments. Additionally, the strong and significant phylogenetic signals detected in both the leaf anatomical traits and habitat types imply the high degree of phylogenetic niche conservatism in Begonia. The transition of singular stomata into stomatal clusters of Asian Begonia occurred mainly in Sect. Baryandra and Sect. Jackia whose species are predominantly lithophytic and often face drought stress, thus supporting the previous drought adaptation hypothesis regarding the adaptive significance of stomatal cluster. By integrating phylogenomics and plant anatomy, our results provide new insights into the ecology, evolution and speciation of the mega-diverse Begonia. | en |
| dc.description.provenance | Submitted by admin ntu (admin@lib.ntu.edu.tw) on 2023-12-20T16:24:50Z No. of bitstreams: 0 | en |
| dc.description.provenance | Made available in DSpace on 2023-12-20T16:24:51Z (GMT). No. of bitstreams: 0 | en |
| dc.description.tableofcontents | 目錄
口試委員審定書 ii 誌謝 iii 摘要.........................................IV ABSTRACT.........................................V 圖目錄、表目錄....vii 前言.........................................1 氣孔的演化.........................................1 亞洲產秋海棠的演化歷史.........................................4 亞洲產秋海棠的形態多樣性.........................................6 亞洲產秋海棠的分類.........................................10 研究目的.........................................12 材料與方法.........................................13 研究材料.........................................13 氣孔資料收集.........................................14 下皮層資料收集.........................................15 生長環境紀錄.........................................16 DNA 萃取、DNA 文庫 (library) 製備和定序.........................................16 親緣比較分析 (Phylogenetic comparative analyses).........................................17 定序資料分析及重建親緣關係樹.........................................17 祖先性狀估測 (Ancestral state estimation).........................................18 結果.........................................21 特徵資料.........................................21 定序資料分析.........................................24 親緣關係分析.........................................26 親緣比較分析.........................................28 討論.........................................35 亞洲秋海棠葉片解剖構造的祖先型.........................................36 氣孔簇和下皮層的適應性.........................................36 適應於亞洲秋海棠演化歷史中的地位.........................................38 結論.........................................40 參考文獻.........................................42 附錄.........................................54 圖目錄 圖一、亞洲產秋海棠之生育環境及生活型多樣性.................................................................9 圖二、秋海棠科之定年樹.......................................................................................................11 圖三、本研究之實驗流程簡圖...............................................................................................20 圖四、亞洲秋海棠各組之氣孔排列形式多樣性...................................................................23 圖五、亞洲秋海棠各組之葉片橫剖面形態多樣性...............................................................25 圖六、亞洲秋海棠親緣關係及特徵熱圖...............................................................................27 圖七、物種樹及氣孔資料擬合ARD 模型結果之特徵轉換率機率密度圖.........................28 圖八、物種樹及下皮層資料擬合ARD 模型結果之特徵轉換率機率密度圖.....................31 圖九、物種樹及特徵資料擬合 Pagel (1994) dependent 模型結果........................................32 圖十、氣孔之祖先性狀估測結果...........................................................................................33 圖十一、下皮層之祖先性狀估測結果...................................................................................34 圖十二、溯祖法重建之亞洲秋海棠屬物種樹.......................................................................41 附圖一、基因樹間之樹型衝突情形.......................................................................................98 附圖二、標靶基因補獲之捕獲效率.......................................................................................99 表目錄 表一、植物解剖實驗所取樣之亞洲產秋海棠.......................................................................21 表二、氣孔之不同特徵演化模型之擬合程度比較...............................................................30 表三、下皮層之不同特徵演化模型之擬合程度比較...........................................................30 附表一、解剖研究與親緣關係取樣樣本之引證標本或活體...............................................54 附表二、取樣物種之氣孔型式、下皮層有無及生長環境...................................................66 附表三、氣孔形態資料收集所使用活體的引證活體標本、腊葉標本和引用文獻...........71 附表四、下皮層形態資料收集所使用活體的引證活體標本、腊葉標本和引用文獻.......77 附表五、棲地資料收集之引用資料.......................................................................................83 | - |
| dc.language.iso | zh_TW | - |
| dc.subject | 親緣基因體學 | zh_TW |
| dc.subject | 親緣比較分析 | zh_TW |
| dc.subject | 秋海棠屬 | zh_TW |
| dc.subject | 下皮層 | zh_TW |
| dc.subject | 氣孔簇 | zh_TW |
| dc.subject | 適應 | zh_TW |
| dc.subject | 親緣基因體學 | zh_TW |
| dc.subject | 親緣比較分析 | zh_TW |
| dc.subject | 秋海棠屬 | zh_TW |
| dc.subject | 下皮層 | zh_TW |
| dc.subject | 適應 | zh_TW |
| dc.subject | 氣孔簇 | zh_TW |
| dc.subject | phylogenomics | en |
| dc.subject | adaption | en |
| dc.subject | Begonia | en |
| dc.subject | hypodermis | en |
| dc.subject | phylogenetic comparative analysis | en |
| dc.subject | stomatal cluster | en |
| dc.subject | phylogenomics | en |
| dc.subject | adaption | en |
| dc.subject | Begonia | en |
| dc.subject | hypodermis | en |
| dc.subject | phylogenetic comparative analysis | en |
| dc.subject | stomatal cluster | en |
| dc.title | 亞洲秋海棠氣孔簇和下皮層的適應演化 | zh_TW |
| dc.title | Adaptive evolution of stomatal cluster and hypodermis in Asian Begonia | en |
| dc.type | Thesis | - |
| dc.date.schoolyear | 112-1 | - |
| dc.description.degree | 碩士 | - |
| dc.contributor.oralexamcommittee | 許秋容;何金敏;曾妤馨;劉世慧 | zh_TW |
| dc.contributor.oralexamcommittee | Chiou-Rong Sheue;Chin-Min Ho;Yu-Hsin Tseng;Shih-Hui Liu | en |
| dc.subject.keyword | 適應,氣孔簇,下皮層,秋海棠屬,親緣比較分析,親緣基因體學, | zh_TW |
| dc.subject.keyword | adaption,Begonia,hypodermis,phylogenetic comparative analysis,stomatal cluster,phylogenomics, | en |
| dc.relation.page | 99 | - |
| dc.identifier.doi | 10.6342/NTU202304270 | - |
| dc.rights.note | 同意授權(全球公開) | - |
| dc.date.accepted | 2023-10-03 | - |
| dc.contributor.author-college | 生物資源暨農學院 | - |
| dc.contributor.author-dept | 森林環境暨資源學系 | - |
| dc.date.embargo-lift | 2028-09-27 | - |
| 顯示於系所單位： | 森林環境暨資源學系 | |
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