Sanmartín, I., Enghoff, H. & Ronquist, F. Patterns of animal dispersal, vicariance and diversification in the Holarctic. Biol. J. Linn. Soc. 73, 345–390 (2001).
Sanmartín, I. & Ronquist, F. Southern hemisphere biogeography inferred by event-based models: Plant versus animal patterns. Syst. Biol. 53, 216–243 (2004).
Shaw, A. J. Biogeographic patterns and cryptic speciation in bryophytes. J. Biogeogr. 28, 253–261 (2001).
Feldberg, K. et al. Phylogenetic biogeography of the leafy liverwort Herbertus (Jungermanniales, Herbertaceae) based on nuclear and chloroplast DNA sequence data: correlation between genetic variation and geographical distribution. J. Biogeogr. 34, 688–698 (2007).
Shaw, A. J. et al. Intercontinental genetic structure in the amphi-Pacific peatmoss Sphagnum miyabeanum (Bryophyta: Sphagnaceae). Biol. J. Linn. Soc. 111, 17–37 (2014).
Vanderpoorten, A., Devos, N., Goffinet, B., Hardy, O. J. & Shaw, A. J. The barriers to oceanic island radiation in bryophytes: Insights from the phylogeogaphy of the moss Grimmia montana. J. Biogeogr. 35, 654–663 (2008).
Ono, F. Moss spore can tolerate ultra-high pressure. In High pressure Bioscience (eds Akasaka, K. & Matsuki, H.) 443–466 (Springer, New York, 2015).
van Zanten, B. O. Experimental studies on trans-oceanic long-range dispersal of moss spores in the Southern Hemisphere. J. Hattori Bot. Lab. 44, 455–482 (1978).
Muñoz, J., Felicísimo, ÁM., Cabezas, F., Burgaz, A. R. & Martínez, I. Wind as a long-distance dispersal vehicle in the Southern Hemisphere. Science 304, 1144–1147 (2004).
van Zanten, B. O. & Gradstein, S. R. Experimental dispersal geography of neotropical liverworts. Beih. Nova Hedwigia 90, 41–94 (1988).
Kyrkjeeide, M. O. et al. Long-distance dispersal and barriers shape genetic structure of peatmosses (Sphagnum) across the Northern Hemisphere. J. Biogeogr. 43, 1215–1226 (2016).
Patiño, J., Goffinet, B., Sim-Sim, M. & Vanderpoorten, A. Is the sword moss (Bryoxiphium) a preglacial Tertiary relict?. Mol. Phylogenet. Evol. 96, 200–206 (2016).
Bechteler, J. et al. Geographical structure, narrow species ranges, and Cenozoic diversification in a pantropical clade of epiphyllous leafy liverworts. Ecol. Evol. 7, 638–653 (2017).
Carter, B. E. et al. Species delimitation and biogeography of a southern hemisphere liverwort clade, Frullania subgenus Microfrullania (Frullaniaceae, Marchantiophyta). Mol. Phylogenet. Evol. 107, 16–26 (2017).
Scheben, A. et al. Multiple transoceanic dispersals and geographical structure in the pantropical leafy liverwort Ceratolejeunea (Lejeuneaceae, Porellales). J. Biogeogr. 43, 1739–1749 (2016).
Patiño, J. et al. The anagenetic world of spore-producing land plants. New Phytol. 201, 305–311 (2014).
Norhazrina, N., Vanderpoorten, A., Hedenäs, L. & Patiño, J. What are the evolutionary mechanisms explaining the similar species richness patterns in tropical mosses? Insights from the phylogeny of the pantropical genus Pelekium. Mol. Phylogenet. Evol. 105, 139–145 (2016).
Puttik, M. N. et al. The interrelationships of land plants and the nature of the ancestral embryophyte. Curr. Biol. 28, 733–745 (2018).
Qiu, Y. L., Cho, Y. R., Cox, J. C. & Palmer, J. D. The gain of three mitochondrial introns identifies liverworts as the earliest land plants. Nature 394, 671–674 (1998).
Wickett, N. J. et al. Phylotranscriptomic analysis of the origin and early diversification of land plants. Proc. Natl. Acad. Sci. U.S.A. 111, E4859–E4868 (2014).
Morris, J. L. et al. The timescale of early land plant evolution. Proc. Natl. Acad. Sci. USA 115, 2274–2283 (2018).
Heinrichs, J. et al. Lejeuneaceae (Marchantiophyta) from a species-rich taphocoenosis in Miocene Mexican amber, with a review of liverworts fossilised in amber. Rev. Palaeobot. Palynol. 221, 59–70 (2015).
Wilson, R., Heinrichs, J., Hentschel, J., Gradstein, S. R. & Schneider, H. Steady diversification of derived liverworts under tertiary climatic fluctuations. Biol. Lett. 3, 566–569 (2007).
Gradstein, S. R. The Liverworts and Hornworts of Colombia and Ecuador 1–880 (Springer, New York, 2020).
Lee, G. E. A systematic revision of the genus Lejeunea Lib. (Marchantiophyta: Lejeuneaceae) in Malaysia. Cryptogam. Bryol. 34, 381–484 (2013).
Lee, G. E., Bechteler, J. & Heinrichs, J. A revision of unrevised taxon names of Taxilejeunea (Marchantiophyta: Lejeuneaceae) from Asia. Phytotaxa 358, 226–248 (2018).
Heinrichs, J. et al. Molecular phylogeny of the leafy liverwort Lejeunea (Porellales): Evidence for a neotropical origin, uneven distribution of sexual systems and insufficient taxonomy. PLoS ONE 8, e82547 (2013).
Heinrichs, J. et al. Crown group Lejeuneaceae and pleurocarpous mosses in early eocene (Ypresian) Indian amber. PLoS ONE 8, e82547 (2016).
Tiffney, B. H. The eocene north atlantic land bridge: Its importance in Tertiary and modern phytogeography of the Northern Hemisphere. J. Arnold Arbor. 66, 243–273 (1985).
Tiffney, B. H. & Manchester, S. R. The use of geological and paleontological evidence in evaluating plant phylogeographic hypotheses in the Northern Hemisphere tertiary. Int. J. Plant Sci. 162, 3–17 (2001).
Brikiatis, L. The De Geer, Thulean and Beringia routes: Key concepts for understanding early Cenozoic biogeography. J. Biogeogr. 41, 1036–1054 (2014).
Laenen, B. et al. Increased diversification rates follow shifts to bisexuality in liverworts. New Phytol. 210, 1121–1129 (2016).
Erwin, D. H. Climate as a driver of evolutionary change. Curr. Biol. 19, R575-583 (2009).
Condamine, F. L., Rolland, J. & Morlon, H. Assessing the causes of diversification slowdowns: Temperature-dependent and diversity-dependent models receive equivalent support. Ecol. Lett. 22, 1900–1912 (2019).
Reiner-Drehwald, M. E. Catalogue of the genus Lejeunea Lib. (Hepaticae) of Latin America. Bryophyt. Bibl. 54, 1–101 (1999).
Lee, G. E. et al. The leafy liverwort genus Lejeunea (Porellales, Jungermanniopsida) in Miocene Domican amber. Rev. Palaeobot. Palynol. 238, 144–150 (2017).
Lee, G. E., Schäfer-Verwimp, A., Schmidt, A. R. & Heinrichs, J. Transfer of the miocene Lejeunea palaeomexicana grolle to Ceratolejeunea. Cryptogam. Bryol. 36, 335–341 (2015).
Denk, T., Grimsson, F., Zetter, R. & Simonarson, L. The Biogeographic history of Iceland – The North Atlantic Land Bridge revisited. in Late Cainozoic floras of Iceland, 15 million years of vegetation and climate history in the northern North Atlantic, 647–666 (Springer, 2011).
Graham, A. The role of land bridges, ancient environments, and migrations in the assembly of the North America flora. J. Syst. Evol. 56, 405–429 (2018).
Jiang, D. et al. Asymmetric biotic interchange across the Bering land bridge between Eurasia and North America. Natl. Sci. Rev. 6, 739–745 (2019).
Morley, R. J. Why are there so many primitive angiosperms in the rain forests of Asia-Australia? In Floral and Faunal Migrations and Evolution in SE Asia-Australia (eds Metcalfe, I. et al.) 185–200 (Swetz & Zeitliner, Lisse, 2001).
Couvreur, T. L. P. et al. Early evolutionary history of the flowering plant family Annonaceae: Steady diversification and boreotropical geodispersal. J. Biogeogr. 38, 664–680 (2011).
Davis, C. C., Bell, C. D., Mathews, S. & Donoghue, M. J. Laurasian migration explains Gondwanan disjunctions: Evidence from Malpighiaceae. Proc. Natl. Acad. Sci. U.S.A. 99, 6833–6837 (2002).
Muellner, A. N., Savolainen, V., Samuel, R. & Chase, M. W. The mahogamy family “out of Africa”: Divergence time estimation, global biogeographic patterns inferred from plastid rbcL DNA sequences, extant, and fossil distribution of diversity. Mol. Phylogenet. Evol. 40, 236–250 (2006).
Schneider, H. et al. Chloroplast phylogeny of asplenioid ferns based on rbcL and trnL-F spacer sequences (Polypodiidae, Aspleniaceae) and its implications for biogeography. Syst. Bot. 29, 260–274 (2004).
Wei, R. et al. Eurasian origin, boreotropical migration and transoceanic dispersal in the pantropical fern genus Diplazium (Athyriaceae). J. Biogeogr. 42, 1809–1819 (2015).
Hennequin, S., Hovenkamp, P., Christenhusz, M. J. M. & Schneider, H. Phylogenetics and biogeography of Nephrolepis—A tale of old settlers and young tramps. Bot. J. Linn. Soc. 164, 113–127 (2010).
Wen, J., Nie, Z. L. & Ickert-Bond, S. M. Intercontinental disjunctions between eastern Asia and western North America in vascular plants highlight the biogeographic importance of the Bering land bridge from late Cretaceous to Neogene. J. Syst. Evol. 54, 469–490 (2016).
Shaw, A. J. et al. Pleistocene survival, regional genetic structure and interspecific gene flow among three northern peat-mosses: Sphagnum inexspectatum, S. orientale and S. miyabeanum. J. Biogeogr. 42, 364–376 (2014).
Bosboom, R. E. et al. Late Eocene sea retreat from the Tarim Basin (west China) and concomitant Asian paleoenvironmental change. Palaeogeogr. Palaeoclimatol. Palaeoecol. 299, 385–398 (2011).
Chmielewski, M. W. & Eppley, S. M. Forest passerines as a novel dispersal vector of viable bryophyte propagules. Proc. R. Soc. B 286, 20182253 (2019).
Heinken, T., Lees, R., Raudnitschka, D. & Rung, S. Epizoochorous dispersal of bryophytes stem fragments by roe deer (Capreoluscapreolus) and wild boar (Susscrofa). J. Bryol. 23, 293–300 (2001).
Pérez-Escobar, O. A. et al. Recent origin and rapid speciation of neotropical orchids in the world’s richest plant biodiversity hotspot. New Phytol. 215, 891–905 (2017).
Nie, Z. L. et al. Recent assembly of the global herbaceous flora: Evidence from the paper daisies (Asteraceae: Gnaphalieae). New Phytol. 209, 1795–1806 (2016).
Morley, R. J. Cretaceous and Tertiary climate change and the past distribution of megathermal rainforests. In Tropical Rainforest Responses to Climate Change (eds Bush, M. B. et al.) 1–34 (Springer, New York, 2011).
Jaramillo, C., Rueda, M. J. & Mora, G. Cenozoic plant diversity in the Neotropics. Science 311, 1893–1896 (2006).
Kong, H. et al. Both temperature fluctuations and East Asian monsoons have driven plant diversification in the karst ecosystems from southern China. Mol. Ecol. 26, 6414–6429 (2017).
Tada, R., Zheng, H. & Clift, D. Evolution and variability of the Asian monsoon and its potential linkage with uplift of the Himalaya and Tibetan Plateau. Prog. Earth Planet Sci. 3, 4–26 (2016).
Proctor, M. C. F. et al. Desiccation-tolerance in bryophytes. Bryologist 110, 595–621 (2007).
McDaniel, S. F., Atwood, J. & Burleigh, J. G. Recurrent evolution of dioecy in bryophytes. Evolution 67, 567–572 (2012).
van Zanten, B. O. & Pócs, T. Distribution and dispersal of bryophytes. Adv. Bryol. 1, 479–562 (1981).
Laenen, B. et al. Geographical range in liverworts: Does sex really matter?. J. Biogeogr. 43, 627–635 (2016).
Lee, G. E., Bechteler, J., Pócs, T., Schäfer-Verwimp, A. & Heinrichs, J. Molecular and morphological evidence for an intercontinental range of the liverwort Lejeunea pulchriflora (Marchantiophyta: Lejeuneaceae). Org. Divers. Evol. 16, 13–21 (2016).
Hall, T. A. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp. Ser. 41, 95–98 (1999).
Janssen, T. et al. Neoendemism in Madagascan scaly tree ferns results from recent, coincident diversification bursts. Evolution 62, 1876–1889 (2008).
Katoh, K. & Standley, D. M. MAFFT multiple sequence alignment software version 7: Improvements in performance and usability. Mol. Biol. Evol. 30, 772–780 (2013).
Lanfear, R., Calcott, B., Ho, S. Y. W. & Guindon, S. PartitionFinder: Combined selection of partitioning schemes and substitution models for phylogenetic analyses. Mol. Biol. Evol. 29, 1695–1701 (2012).
Stamatakis, A. RAxML Version 8: A tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics 30, 1312–1313 (2014).
Mason-Gamer, R. J. & Kellogg, E. A. Testing for phylogenetic conflict among molecular data sets in the tribe Triticeae (Gramineae). Syst. Biol. 45, 524–545 (1996).
Ronquist, F. et al. MrBayes 3.2: Efficient Bayesian phylogenetic inference and model choice across a large model space. Syst. Biol. 61, 539–542 (2012).
Rambaut, A., Drummond, A. J., Xie, D., Baele, G. & Suchard, M. A. Posterior summarization in Bayesian phylogenetics using tracer 1.7. Syst. Biol. 67, 901–904 (2018).
Larget, B. & Simon, D. L. Markov chain Monte Carlo algorithms for the Bayesian analysis of phylogenetic trees. Mol. Biol. Evol. 16, 750–759 (1999).
Drummond, A. J., Suchard, M. A., Xie, D. & Rambaut, A. Bayesian phylogenetics with BEAUti and the BEAST 1.7. Mol. Biol. Evol. 29, 1969–1973 (2012).
Nagori, M. L., Khosla, S. C. & Jakhar, S. R. middle eocene ostracoda from the tadkeshwar lignite mine, Camba Basin, Gujarat. J. Geol. Soc. India 81, 514–520 (2013).
Benton, M. J. & Donoghue, P. C. J. Paleontological evidence to date the tree of life. Mol. Biol. Evol. 24, 26–53 (2007).
Donoghue, P. C. J. & Benton, M. J. Rocks and clocks: Calibrating the tree of life using fossils and molecules. Trends Ecol. Evol. 22, 424–431 (2007).
Ho, S. Y. W. & Phillips, M. J. Accounting for calibration uncertainty in phylogenetic estimation of evolutionary divergence times. Syst. Biol. 58, 367–380 (2009).
Graur, D. & Martin, W. Reading the entails of chickens: Molecular timescales of evolution and the illusion of precision. Trends Genet. 20, 80–86 (2004).
Reisz, R. R. & Müller, J. Molecular timescales and the fossil record: A paleontological perspective. Trends Genet. 20, 237–241 (2004).
Palmer, J. D. Plastid chromosome, structure and evolution. In The Molecular Biology of Plastids (eds Bogorad, L. & Vasil, I. K.) 5–53 (Academic Press, Cambridge, 1991).
Villarreal, J. C. & Renner, S. S. Hornwort pyrenoids, a carbon-concentrating mechanism, evolved and were lost at least five times during the last 100 million years. Proc. Natl. Acad. Sci. U.S.A. 109, 18873–18878 (2012).
Les, D. H., Crawford, D. J., Kimball, R. T., Moody, M. L. & Landolt, E. Biogeography of discontinuously distributed hydrophytes, a molecular appraisal of intercontinental disjunctions. Int. J. Plant Sci. 164, 917–932 (2003).
Villarreal, J. C. & Renner, S. S. A review of molecular-clock calibrations and substitution rates in liverworts, mosses, and hornworts, and a timeframe for a taxonomically cleaned-up genus Nothoceros. Mol. Phylogenet. Evol. 78, 25–35 (2014).
Drummond, A. J., Ho, S. Y. M., Phillips, M. J. & Rambaut, A. Relaxed phylogenetics and dating with confidence. PLoS Biol. 4, e88 (2006).
Stadler, T. On incomplete sampling under birth-death models and connections to the sampling-based coalescent. J. Theor. Biol. 261, 58–66 (2009).
Lartillot, N. & Philippe, H. Computing Bayes factor using thermodynamic integration. Syst. Biol. 55, 195–207 (2006).
Xie, W., Lewis, P. O., Fan, Y., Kuo, L. & Chen, M. H. Improving marginal likelihood estimation for Bayesian phylogenetic model selection. Syst. Biol. 60, 150–160 (2011).
Baele, G. et al. Improving the accuracy of demographic and molecular clock model comparison while accommodating phylogenetic uncertainty. Mol. Biol. Evol. 29, 2157–2167 (2012).
Baele, G., Lemey, P. & Vansteelandt, S. Make the most of your samples: Bayes factor estimators for high-dimensional models of sequence evolution. BMC Bioinform. 14, 85 (2013).
Matzke, N. J. Model selection in historical biogeography reveals that founder-event speciation in a crucial process in island clades. Syst. Biol. 63, 951–970 (2014).
Ree, R. H. & Smith, S. A. Maximum likelihood inference of geographic range evolution by dispersal, local extinction, and cladogenesis. Syst. Biol. 57, 4–14 (2008).
Ree, R. H. & Sanmartín, I. Conceptual and statistical problems with the DEC+J model of founder-event speciation and its comparison with DEC via model selection. J. Biogeogr. 45, 741–749 (2018).
Condamine, F. L., Rolland, J. & Morlon, H. Macroevolutionary perspectives to environmental change. Ecol. Lett. 16, 72–85 (2013).
Zachos, J. C., Dickens, G. R. & Zeebe, R. E. An early cenozoic perspective on greenhouse warming and carbon-cycle dynamics. Nature 451, 279–283 (2008).
Maddison, W. P., Midford, P. E. & Otto, S. P. Estimation a binary character’s effect on speciation and extinction. Syst. Biol. 56, 701–710 (2007).
FitzJohn, R. G. Diversitree: Comparative phylogenetic analyses of diversification in R. Methods Ecol. Evol. 3, 1084–1092 (2012).
Rabosky, D. L. & Goldberg, E. E. Model inadequacy and mistaken inferences of trait-dependent speciation. Syst. Biol. 64, 340–355 (2015).
Beaulieu, J. M. & O’Meara, B. C. Detecting hidden diversification shifts in models of trait-dependent speciation and extinction. Syst. Biol. 65, 583–601 (2016).
Caetano, D. S., O’Meara, B. C. & Beaulieu, J. M. Hidden state models improve state-dependent diversification approaches, including biogeographical models. Evolution 72, 2308–2324 (2018).
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