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Published February 17, 2023 | Version v1
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Precipitation is the main axis of tropical plant phylogenetic turnover across space and time

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Ringelberg, Jens J., Koenen, Erik J. M., Sauter, Benjamin, Aebli1, Anahita, Rando, Juliana G., Iganci, João R., de Queiroz, Luciano P., Murphy, Daniel J., Gaudeu, Myriam, Bruneau, Anne, Luckow1, Melissa, Lewis, Gwilym P., Miller, Joseph T., Simon, Marcelo F., Jordão, Lucas S. B., Morales, Matías, Bailey, Donovan, Nageswara-Rao, Madhugiri, Nicholls, James A., Loiseau, Oriane, Pennington, R. Toby, Dexter, Kyle G., Zimmermann, Niklaus E., Hughes, Colin E. (2023): Precipitation is the main axis of tropical plant phylogenetic turnover across space and time. Science Advances 9: 1-17, DOI: 10.1126/sciadv.ade4954

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References

  • 1. A. von Humboldt, A. Bonpland, Essai sur la Geographie des Plantes; Accompagne d' un Table Physique des Regions Equinoxales (Levrault, Schoell et Compagnie, Libraires, 1805).
  • 2. G.-L. Buffon, Histoire Naturelle, Generale et Particuliere (Imprimerie Royale, 1763), vol. 10.
  • 3. A. P. de Candolle, Essai Elementaire de Geographie Botanique, in Dictionnaire des Sciences Naturelles (ed. 2) XVIII (F.G. Levrault, 1820), pp. 359-422.
  • 4. E. J. M. Koenen, J. J. Clarkson, T. D. Pennington, L. W. Chatrou, Recently evolved diversity and convergent radiations of rainforest mahoganies (Meliaceae) shed new light on the origins of rainforest hyperdiversity. New Phytol. 207, 327-339 (2015).
  • 5. R. A. Segovia, R. T. Pennington, T. R. Baker, F. C. de Souza, D. M. Neves, C. C. Davis, J. J. Armesto, A. T. Olivera-Filho, K. G. Dexter, Freezing and water availability structure the evolutionary diversity of trees across the Americas. Sci. Adv. 6, eaaz5373 (2020).
  • 6. W. D. Kissling, W. L. Eiserhardt, W. J. Baker, F. Borchsenius, T. L. P. Couvreur, H. Balslev, J.- C. Svenning, Cenozoic imprints on the phylogenetic structure of palm species assemblages worldwide. Proc. Natl. Acad. Sci. U.S.A. 109, 7379-7384 (2012).
  • 7. H. Qian, N. G. Swenson, J. Zhang, Phylogenetic beta diversity of angiosperms in North America. Glob. Ecol. Biogeogr. 22, 1152-1161 (2013).
  • 8. W. L. Eiserhardt, J.-C.Svenning, W. J. Baker, T. L. P. Couvreur, H. Balslev, Dispersal and niche evolution jointly shape the geographic turnover of phylogenetic clades across continents. Sci. Rep. 3, 1164 (2013).
  • 9. M. R. Carvalho, C. A. Jaramillo, F. de la Parra, D. Caballero-Rodriguez, F. Herrera, S. L. Wing, B. L. Turner, C. D 'Apolito, M. Romero-Baez, P. Narvaez, C. Martinez, M. Gutierrez, C. Labandeira, G. Bayona, M. J. Rueda, M. Paez-Reyes, D. Cardenas, A. Duque, J. L. Crowley, C. Santos, D. Silvestro, Extinction at the end-Cretaceous and the origin of modern Neotropical rainforests. Science 372, 63-68 (2021).
  • 10. Y. Xing, R. E. Onstein, R. J. Carter, T. Stadler, H. P. Linder, Fossils and a large molecular phylogeny show that the evolution of species richness, generic diversity, and turnover rates are disconnected. Evolution 68, 2821-2832 (2014).
  • 11. M. J. Donoghue, A phylogenetic perspective on the distribution of plant diversity. Proc. Natl. Acad. Sci. U.S.A. 105, 11549-11555 (2008).
  • 12. C. H. Graham, P. V. A. Fine, Phylogenetic beta diversity: Linking ecological and evolutionary processes across space in time. Ecol. Lett. 11, 1265-1277 (2008).
  • 13. C. Konig, P. Weigelt, H. Kreft, Dissecting global turnover in vascular plants. Glob. Ecol. Biogeogr. 26, 228-242 (2017).
  • 14. F. Mazel, R. O. Wuest, J.-P. Lessard, J.Renaud, G. F. Ficetola, S. Lavergne, W. Thuiller, Global patterns of β- diversity along the phylogenetic time-scale: The role of climate and plate tectonics. Glob. Ecol. Biogeogr. 26, 1211-1221 (2017).
  • 15. D. M. Neves, A. J. Kerkhoff, S. Echeverria-Londono, C. Merow, N. Morueta-holme, R. K. Peet, B. Sandel, J.-C. Svenning, S. K. Wiser, B. J. Enquist, The adaptive challenge of extreme conditions shapes evolutionary diversity of plant assemblages at continental scales. Proc. Natl. Acad. Sci. U.S.A. 118, e2021132118 (2021).
  • 16. A. J.Kerkhoff, P. E. Moriarty, M. D. Weiser, The latitudinal species richness gradient in New World woody angiosperms is consistent with the tropical conservatism hypothesis. Proc. Natl. Acad. Sci. U.S.A. 111, 8125-8130 (2014).
  • 17. D. M. Neves, K. G. Dexter, T. R. Baker, F. Coelho de Souza, A. T. Oliveira-Filho, L. P. Queiroz, H. C. Lima, M. F. Simon, G. P. Lewis, R. A. Segovia, L. Arroyo, C. Reynel, J. L. Marcelo-Pena, I. Huamantupa-Chuquimaco, D. Villarroel, G. A. Parada, A. Daza, R. Linares-Palomino, L. V. Ferreira, R. P. Salomao, G. S. Siqueira, M. T. Nascimento, C. N. Fraga, R. T. Pennington, Evolutionary diversity in tropical tree communities peaks at intermediate precipitation. Sci. Rep. 10, 1188 (2020).
  • 18. T. F. Rangel, N. R. Edwards, P. B. Holden, J. A. F. Diniz-Filho, W. D. Gosling, M. T. P. Coelho, F. A. S. Cassemiro, C. Rahbek, R. K. Colwell, Modeling the ecology and evolution of biodiversity: Biogeographical cradles, museums, and graves. Science 361, eaar5452 (2018).
  • 19. F. P. Peixoto, F. Villalobos, A. S. Melo, J. A. F. Diniz-Filho, R. Loyola, T. F. Rangel, M. V. Cianciaruso, Geographical patterns of phylogenetic beta-diversity components in terrestrial mammals. Glob. Ecol. Biogeogr. 26, 573-583 (2017).
  • 20. J. J. Ringelberg, N. E. Zimmermann, A. Weeks, M. Lavin, C. E. Hughes, Biomes as evolutionary arenas: Convergence and conservatism in the trans-continental succulent biome. Glob. Ecol. Biogeogr. 29, 1100-1113 (2020).
  • 21. M. D. Crisp, M. T. K. Arroyo, L. G. Cook, M. A. Gandolfo, G. J. Jordan, M. S. McGlone, P. H. Weston, M. Westoby, P. Wilf, H. P. Linder, Phylogenetic biome conservatism on a global scale. Nature 458, 754-756 (2009).
  • 22. A. Skeels, M. Cardillo, Environmental niche conservatism explains the accumulation of species richness in Mediterranean-hotspot plant genera. Evolution 71, 582-594 (2017).
  • 23. H. Kreft, W. Jetz, Global patterns and determinants of vascular plant diversity. Proc. Natl. Acad. Sci. U.S.A. 104, 5925-5930 (2007).
  • 24. E. J. M. Koenen, C. A. Kidner, E. R. de Souza, M. F. Simon, J. R. V. Iganci, J. A. Nicholls, G. K. Brown, L. P. de Queiroz, M. A. Luckow, G. P. Lewis, R. T. Pennington, C. E. Hughes, Hybrid capture of 964 nuclear genes resolves evolutionary relationships in the mimosoid legumes and reveals the polytomous origins of a large pantropical radiation. Am. J. Bot. 107, 1710-1735 (2020).
  • 25. G. P. Lewis, B. Schrire, B. Mackinder, M. Lock (Eds.), Legumes of the World (Royal Botanic Gardens, 2005).
  • 26. J. J. Ringelberg, E. J. M. Koenen, J. R. Iganci, L. P. De Queiroz, D. J. Murphy, M. Gaudeul, A. Bruneau, M. Luckow, G. P. Lewis, C. E. Hughes, Phylogenomic analysis of 997 nuclear genes reveals the need for extensive generic re-delimitation in Caesalpinioideae (Leguminosae). PhytoKeys 205, 3-58 (2022).
  • 27. M. Lavin, B. P. Schrire, G. P. Lewis, R. T. Pennington, A. Delgado-Salinas, M. Thulin, C. E. Hughes, A. B. Matos, M. F. Wojciechowski, Metacommunity process rather than continental tectonic history better explains geographically structured phylogenies in legumes. Philos. Trans. R. Soc. Lond. B Biol. Sci. 359, 1509-1522 (2004).
  • 28. G. G. Simpson, Mammals and land bridges. J. Wash. Acad. Sci. 30, 137-163 (1940).
  • 29. B. H. Daru, M. van der Bank, T. J. Davies, Unravelling the evolutionary origins of biogeographic assemblages. Divers. Distrib. 24, 313-324 (2018).
  • 30. C. Penone, B. G. Weinstein, C. H. Graham, T. M. Brooks, C. Rondinini, S. B. Hedges, A. D. Davidson, G. C. Costa, Global mammal beta diversity shows parallel assemblage structure in similar but isolated environments. Proc. Biol. Sci. 283, 20161028 (2016).
  • 31. B. Saladin, W. Thuiller, C. H. Graham, S. Lavergne, L. Maiorano, N. Salamin, N. E. Zimmermann, Environment and evolutionary history shape phylogenetic turnover in European tetrapods. Nat. Commun. 10, 249 (2019).
  • 32. G. R. Moncrieff, W. J. Bond, S. I. Higgins, Revising the biome concept for understanding and predicting global change impacts. J. Biogeogr. 43, 863-873 (2016).
  • 33. A. T. Oliveira-Filho, D. Cardoso, B. D. Schrire, G. P. Lewis, R. T. Pennington, T. J. Brummer, J. Rotella, M. Lavin, Stability structures tropical woody plant diversity more than seasonality: Insights into the ecology of high legume-succulent-plant biodiversity. South African J. Bot. 89, 42-57 (2013).
  • 34. M. Pagel, Inferring the historical patterns of biological evolution. Nature 401, 877-884 (1999).
  • 35. R. T. Pennington, M. Lavin, The contrasting nature of woody plant species in different neotropical forest biomes reflects differences in ecological stability. New Phytol. 210, 25-37 (2016).
  • 36. A.-P. Gorel, O. J. Hardy, G. Dauby, K. G. Dexter, R. A. Segovia, K. Steppe, A. Fayolle, Climatic niche lability but growth form conservatism in the African woody flora. Ecol. Lett. 25, 1164-1176 (2022).
  • 37. M. J. Donoghue, M. J. Sanderson, Confluence, synnovation, and depauperons in plant diversification. New Phytol. 207, 260-274 (2015).
  • 38. C. H. Graham, D. Storch, A. Machac, Phylogenetic scale in ecology and evolution. Glob. Ecol. Biogeogr. 27, 175-187 (2018).
  • 39. M. J. Donoghue, E. J. Edwards, Biome shifts and niche evolution in plants.Annu. Rev. Ecol. Evol. Syst. 45, 547-572 (2014).
  • 40. K. J. Feeley, J. T. Stroud, Where on Earth are the "tropics"? Front. Biogeogr. 10, e38649 (2018).
  • 41. A. E. Zanne, D. C. Tank, W. K. Cornwell, D. J. Mcglinn, B. C. O. Meara, A. T. Moles, P. B. Reich, D. L. Royer, D. E. Soltis,P. S. Soltis, N. G. Swenson, L. Warman, F. Hemmings, M. R. Leishman, J. Oleksyn, J. M. Beaulieu, Three keys to the radiation of angiosperms into freezing environments. Nature 506, 89-92 (2014).
  • 42. O. Hagen, A. Skeels, R. Onstein, W. Jetz, L. Pellissier, Earth history events shaped the evolution of uneven biodiversity across tropical moist forests. Proc. Natl. Acad. Sci. U.S.A. 118, e2026347118 (2021).
  • 43. M. J. Donoghue, E. J. Edwards, Model clades are vital for comparative biology, and ascertainment bias is not a problem in practice:A response to Beaulieu and O 'Meara (2018). Am. J. Bot. 106, 327-330 (2019).
  • 44. T. Westerhold, N. Marwan, A. J. Drury, D. Liebrand, C. Agnini, E. Anagnostou, J. S. K. Barnet, S. M. Bohaty, D. De Vleeschouwer, F. Florindo, T. Frederichs, D. A. Hodell, A. E. Holbourn, D. Kroon, V. Lauretano, K. Littler, L. J. Lourens, M. Lyle, H. Palike, U. Rohl, J. Tian, R. H. Wilkens, P. A. Wilson, J. C. Zachos, An astronomically dated record of Earth 's climate and its predictability over the last 66 million years. Science 369, 1383-1387 (2020).
  • 45. M. Arakaki, P.-A. Christin, R. Nyffeler, A. Lendel, U. Eggli, R. M. Ogburn, E. Spriggs, M. J. Moore, E. J. Edwards, Contemporaneous and recent radiations of the world 's major succulent plant lineages. Proc. Natl. Acad. Sci. U.S.A. 108, 8379-8384 (2011).
  • 46. P. S. Herendeen, in Advances in Legume Systematics part 4: The Fossil Record, P. S. Herendeen, D. L. Dilcher, Eds. (Royal Botanic Gardens, 1992), pp. 85-160.
  • 47. S. Magallon-Puebla, S. R. S. Cevallos-Ferriz, Fossil legume fruits from Tertiary strata of Puebla, Mexico. Can. J. Bot. 72, 1027-1038 (1994).
  • 48. L. Calvillo-Canadell, S. R. S. Cevallos-Ferriz, Diverse assemblage of Eocene and Oligocene leguminosae from Mexico. Int. J. Plant Sci. 166, 671-692 (2005).
  • 49. R. E. Ricklefs, A. E. Schwarzbach, S. S. Renner, Rate of lineage origin explains the diversity anomaly in the world 's mangrove vegetation. Am. Nat. 168, 805-810 (2006).
  • 50. P. Sanchez-Martinez, J. Martinez-Vilalta, K. G. Dexter, R. A. Segovia, M. Mencuccini, Adaptation and coordinated evolution of plant hydraulic traits. Ecol. Lett. 23, 1599-1610 (2020).
  • 51. R Core Team, R: A language and environment for statistical computing (R Foundation for Statistical Computing, 2022);www.R-project.org/.
  • 52. V. A. Funk, R. J. Bayer, S. Keeley, R. Chan, L. Watson, B. Gemeinholzer, E. E. Schilling, J. L. Panero, B. G. Baldwin, N. Garcia-Jacas, A. Susanna, R. K. Jansen, I. Friis, H. Balslev, Everywhere but Antarctica: Using a supertree to understand the diversity and distribution of the Compositae. Biol. Skr. 55, 343-373 (2005).
  • 53. V. A. Funk, C. D. Specht, Meta-trees: Grafting for a global perspective. Proc.Biol.Soc.Wash. 120, 232-240 (2007).
  • 54. E. L. Spriggs, P. A. Christin, E. J. Edwards, C4 photosynthesis promoted species diversification during the Miocene grassland expansion. PLOS ONE 9, e97722 (2014).
  • 55. N. Azani, M. Babineau, C. D. Bailey, H. Banks, A. R. Barbosa, R. B. Pinto, J. S. Boatwright, L. M. Borges, G. K. Brown, A. Bruneau, E. Candido, D. Cardoso, K.-F. Chung, R. P. Clark, A. de S. Conceicao, M. Crisp, P. Cubas, A. Delgado-Salinas, K. G. Dexter, J. J. Doyle, J. Duminil, A. N. Egan, M. de la Estrella, M. J. Falcao, D. A. Filatov, A. P. Fortuna-Perez, R. H. Fortunato, E. Gagnon, P. Gasson, J. G. Rando, A. M. G. de Azevedo Tozzi, B. Gunn, D. Harris, E. Haston, J. A. Hawkins, P. S. Herendeen, C. E. Hughes, J. R. V. Iganci, F. Javadi, S. A. Kanu, S. Kazempour-Osaloo, G. C. Kite, B. B. Klitgaard, F. J. Kochanovski, E. J. M. Koenen, L. Kovar, M. Lavin, M. le Roux, G. P. Lewis, H. C. de Lima, M. C. Lopez-Roberts, B. Mackinder, V. H. Maia, V. Malecot, V. F. Mansano, B. Marazzi, S. Mattapha, J. T. Miller, C. Mitsuyuki, T. Moura, D. J. Murphy, M. Nageswara-Rao, B. Nevado, D. Neves, D. I. Ojeda, R. T. Pennington, D. E. Prado, G. Prenner, L. P. de Queiroz, G. Ramos, F. L. Ranzato Filardi, P. G. Ribeiro, M. de Lourdes Rico-Arce, M. J. Sanderson, J. Santos-Silva, W. M. B. Sao-Mateus, M. J. S. Silva, M. F. Simon, C. Sinou, C. Snak, E. R. de Souza, J. Sprent, K. P. Steele, J. E. Steier, R. Steeves, C. H. Stirton, S. Tagane, B. M. Torke, H. Toyama, D. T. da Cruz, M. Vatanparast, J.J. Wieringa, M. Wink, M. F. Wojciechowski, T. Yahara, T. Yi, E. Zimmerman, A new subfamily classification of the Leguminosae based on a taxonomically comprehensive phylogeny: The Legume Phylogeny Working Group (LPWG). Taxon 66, 44-77 (2017).
  • 56. J. A. Nicholls, R. T. Pennington, E. J. M. Koenen, C. E. Hughes, J. Hearn, L. Bunnefeld, K. G. Dexter, G. N. Stone, C. A. Kidner, Using targeted enrichment of nuclear genes to increase phylogenetic resolution in the neotropical rain forest genus Inga (Leguminosae: Mimosoideae). Front. Plant Sci. 6, 710 (2015).
  • 57. E. Gagnon, A. Bruneau, C. E. Hughes, L. de Queiroz, G. P. Lewis, A new generic system for the pantropical Caesalpinia group (Leguminosae). PhytoKeys 71, 1-160 (2016).
  • 58. A. G. de Lima, J. de Paula-souza, J. J.Ringelberg, M. F. Simon, L. P. de Queiroz, L. M. Borges, V. de F. Mansano, V. C. Souza, V. R. Scalon, New segregates from the Neotropical genus Stryphnodendron (Leguminosae, Caesalpinioideae, mimosoid clade). PhytoKeys 205, 203-237 (2022).
  • 59. S. F. Altschul, W. Gish, W. Miller, E. W. Myers, D. J. Lipman, Basic local alignment search tool. J. Mol. Biol. 215, 403-410 (1990).
  • 60. W. J. Kent, BLAT-The BLAST-like alignment tool. Genome Res. 12, 656-664 (2002).
  • 61. S. Mirarab, Species tree estimation using ASTRAL: Practical considerations. arXiv 1904.03826 (2019).
  • 62. C. Zhang, M. Rabiee, E. Sayyari, S. Mirarab, ASTRAL-III: Polynomial time species tree reconstruction from partially resolved gene trees. BMC Bioinformatics 19, 153 (2018).
  • 63. S. A. Smith, M. J. Moore, J. W. Brown, Y. Yang, Analysis of phylogenomic datasets reveals conflict, concordance, and gene duplications with examples from animals and plants. BMC Evol. Biol. 15, 150 (2015).
  • 64. X. Zhou, S. Lutteropp, L. Czech, A. Stamatakis, M. Von Looz, A. Rokas, Quartet-based computations of Internode Certainty provide robust measures of phylogenetic incongruence. Syst. Biol. 69, 308-324 (2020).
  • 65. D. F. Robinson, L. R. Foulds, Comparison of phylogenetic trees. Math. Biosci. 53, 131-147 (1981).
  • 66. K. P. Schliep, phangorn: Phylogenetic analysis in R. Bioinformatics 27, 592-593 (2011).
  • 67. L. J. Revell, phytools: An R package for phylogenetic comparative biology (and other things). Methods Ecol. Evol. 3, 217-223 (2012).
  • 68. A. J. Aberer, D. Krompass, A. Stamatakis, Pruning rogue taxa improves phylogenetic accuracy: An efficient algorithm and webservice. Syst. Biol. 62, 162-166 (2013).
  • 69. M. A. Suchard, P. Lemey, G. Baele, D. L. Ayres, A. J. Drummond, A. Rambaut, Bayesian phylogenetic and phylodynamic data integration using BEAST 1.10. Virus Evol. 4, vey016 (2018).
  • 70. A. J. Drummond, A. Rambaut, BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol. Biol. 7, 214 (2007).
  • 71. J. W. Brown, S. A. Smith, The past sure is tense: On interpreting phylogenetic divergence time estimates. Syst. Biol. 67, 340-353 (2018).
  • 72. E. J. M. Koenen, D. I. Ojeda, F. T. Bakker, J. J. Wieringa, C. Kidner, O. J. Hardy, R. T. Pennington, P. S. Herendeen, A. Bruneau, C. E. Hughes, The origin of the Legumes is a complex paleopolyploid phylogenomic tangle closely associated with the Cretaceous- - Paleogene (K-Pg) mass extinction event. Syst. Biol. 70, 508-526 (2021).
  • 73. S. A. Smith, J. W. Brown, J. F. Walker, So many genes, so little time: A practical approach to divergence-time estimation in the genomic era. PLOS ONE 13, e0197433 (2018).
  • 74. E. J. M. Koenen, D. I. Ojeda, R. Steeves, J. Migliore, F. T. Bakker, J. J. Wieringa, C. Kidner, O. J. Hardy, R. T. Pennington, A. Bruneau, C. E. Hughes, Large-scale genomic sequence data resolve the deepest divergences in the legume phylogeny and support a near-simultaneous evolutionary origin of all six subfamilies.New Phytol. 225, 1355-1369 (2020).
  • 75. A. Bruneau, M. Mercure, G. P. Lewis, P. S. Herendeen, Phylogenetic patterns and diversification in the caesalpinioid legumes. Botany 86, 697-718 (2008).
  • 76. M. F. Simon, R. Grether, L. P. de Queiroz, C. Skema, R. T. Pennington, C. E. Hughes, Recent assembly of the Cerrado, a neotropical plant diversity hotspot, by in situ evolution of adaptations to fire. Proc. Natl. Acad. Sci. U.S.A. 106, 20359-20364 (2009).
  • 77. C. E. Gonzalez-Orozco, S. W. Laffan, N. Knerr, J. T. Miller, A biogeographical regionalization of Australian Acacia species. J. Biogeogr. 40, 2156-2166 (2013).
  • 78. E. Gagnon, J. J. Ringelberg, A. Bruneau, G. P. Lewis, C. E. Hughes, Global Succulent Biome phylogenetic conservatism across the pantropical Caesalpinia Group (Leguminosae). New Phytol. 222, 1994-2008 (2019).
  • 79. H. ter Steege, N. C. A. Pitman, D. Sabatier, C. Baraloto, R. P. Salomao, J. E. Guevara, O. L. Phillips, C. V. Castilho, W. E. Magnusson, J.-F. Molino, A. Monteagudo, P. N. Vargas, J. C. Montero, T. R. Feldpausch, E. N. H. Coronado, T. J. Killeen, B. Mostacedo, R. Vasquez, R. L. Assis, J. Terborgh, F. Wittmann, A. Andrade, W. F. Laurance, S. G. W. Laurance, B. S. Marimon, B.-H. Marimon Jr., I. C. G. Vieira, I. L. Amaral, R. Brienen, H. Castellanos, D. C. Lopez, J. F. Duivenvoorden, H. F. Mogollon, F. D. de Almeida Matos, N. Davila, R. Garcia-Villacorta, P. R. S. Diaz, F. Costa, T. Emilio, C. Levis, J. Schietti, P. Souza, A. Alonso, F. Dallmeier, A. J. D. Montoya, M. T. F. Piedade, A. Araujo-Murakami, L. Arroyo, R. Gribel, P. V. A. Fine, C. A. Peres, M. Toledo, G. A. Aymard C, T. R. Baker, C. Ceron, J. Engel, T. W. Henkel, P. Maas, P. Petronelli, J. Stropp, C. E. Zartman, D. Daly, D. Neill, M. Silveira, M. R. Paredes, J. Chave, D. de Andrade Lima Filho, P. M. JOrgensen, A. Fuentes, J. Schongart, F. C. Valverde, A. D. Fiore, E. M. Jimenez, M. C. P. Mora, J. F. Phillips, G. Rivas, T. R. van Andel, P. von Hildebrand, B. Hoffman, E. L. Zent, Y. Malhi, A. Prieto, A. Rudas, A. R. Ruschell, N. Silva, V. Vos, S. Zent, A. A. Oliveira, A. C. Schutz, T. Gonzales, M. T. Nascimento, H. Ramirez-Angulo, R. Sierra, M. Tirado, M. N. U. Medina, G. van der Heijden, C. I. A. Vela, E. V. Torre, C. Vriesendorp, O. Wang, K. R. Young, C. Baider, H. Balslev, C. Ferreira, I. Mesones, A. Torres-Lezama, L. E. U. Giraldo, R. Zagt, M. N. Alexiades, L. Hernandez, I.Huamantupa-Chuquimaco, W. Milliken, W. P. Cuenca, D. Pauletto, E. V. Sandoval, L. V. Gamarra, K. G. Dexter, K. Feeley, G. Lopez-Gonzalez, M. R. Silman, Hyperdominance in the Amazonian tree flora. Science 342, 1243092 (2013).
  • 80. D. Cardoso, T. Sarkinen, S. Alexander, A. M. Amorim, V. Bittrich, M. Celis, D. C. Daly, P. Fiaschi, V. A. Funk, L. L. Giacomin, R. Goldenberg, G. Heiden, J. Iganci, C. L. Kelloff, S. Knapp, H. Cavalcante de Lima, A. F. P. Machado, R. M. dos Santos, R. Mello-Silva, F. A. Michelangeli, J. Mitchell, P. Moonlight, P. L. R. de Moraes, S. A. Mori, T. S. Nunes, T. D. Pennington, J.R. Pirani, G. T. Prance, L. P. de Queiroz, A. Rapini, R. Riina, C. A. V. Rincon, N. Roque, G. Shimizu, M. Sobral, J.R. Stehmann, W. D. Stevens, C. M. Taylor, M. Trovo, C. van den Berg, H. van der Werff, P. L. Viana, C. E. Zartman, R. C. Forzza, Amazon plant diversity revealed by a taxonomically verified species list. Proc. Natl. Acad. Sci. U.S.A. 114, 10695-10700 (2017).
  • 81. DRYFLOR, K. Banda-R, A. Delgado-Salinas, K. G. Dexter, R. Linares-Palomino, A. Oliveira-Filho, D. Prado, M. Pullan, C. Quintana, R. Riina, G. M. Rodriguez, J. Weintritt, P. Acevedo-Rodriguez, J. Adarve, E. Alvarez, B. Aranguren, G. A. J. C. Arteaga, A. Castano, A. C. N. Ceballos-Mago, H. Cuadros, D. Freddy, W. Devia, H. Duenas, L. Fajaro, A. Fernandez, M. A. Fernandez, J. Franklin, E. H. Freid, L. A. Galetti, R. Gonto, R. Gonzalez M, R. Graveson, E. H. Helmer, A. Idarrago, R. Lopez, H. Marcano-Vega, O. G. Martinez, H. M. Maturo, M. McDonald, K. McLaren, O. Melo, F. Mijares, V. Mogni, D. Molina, N. D. P. Moreno, J. M. Nassar, D. M. Neves, L. J. Oakley, M. Oatham, A. R. Olvera-Luna, F. F. Pezzini, O. J. R. Dominguez, M. E. Rios, O. Rivera, N. Rodriguez, A. Rojas, T. E. Sarkinen, R. Sanchez, M. Smith, C. Vargas, B. Villanueva, R. T. Pennington, Plant diversity patterns in neotropical dry forests and their conservation implications. Science 353, 1383-1387 (2016).
  • 82. A. Fayolle, M. D. Swaine, J. Aleman, A. F. Azihou, D. Bauman, M. te Beest, E. N. Chidumayo, J. P. G. M. Cromsigt, H. Dessard, M. Finckh, F. M. P. Goncalves, J. F. Gillet, A. Gorel, A. Hick, R. Holdo, B. Kirunda, G. Mahy, I. McNicol, C. M. Ryan, R. Revermann, A. Plumptre, R. Pritchard, P. Nieto-Quintano, C. B. Schmitt, J. Seghieri, A. Swemmer, H. Talila,E. Woollen, A sharp floristic discontinuity revealed by the biogeographic regionalization of African savannas. J. Biogeogr. 46, 454-465 (2019).
  • 83. A. Baselga, Partitioning the turnover and nestedness components of beta diversity. Glob. Ecol. Biogeogr. 19, 134-143 (2010).
  • 84. F. Leprieur, C. Albouy, J. de Bortoli, P. F. Cowman, D. R. Bellwood, D. Mouillot, Quantifying phylogenetic beta diversity: Distinguishing between 'true ' turnover of lineages and phylogenetic diversity gradients. PLOS ONE 7, (2012).
  • 85. G. G. Simpson, Mammals and the nature of continents. Am. J. Sci. 241, 1-31 (1943).
  • 86. H. Kreft, W. Jetz, A framework for delineating biogeographical regions based on species distributions. J. Biogeogr. 37, 2029-2053 (2010).
  • 87. A. Castro-Insua, C. Gomez-Rodriguez, A. Baselga, Dissimilarity measures affected by richness differences yield biased delimitations of biogeographic realms. Nat. Commun. 9, 5085 (2018).
  • 88. A. Baselga, D. Orme, S. Villeger, J. de Bortoli, F. Leprieur, betapart: Partitioning Beta Diversity into Turnover and Nestedness Components (2018); R package version 1.5.1.
  • 89. D. Nychka, R. Furrer, J. Paige, S. Sain, fields: Tools for Spatial Data doi: 10.5065/ D6W957CT(2017); R package version 10.3;https://github.com/NCAR/Fields.
  • 90. M. C. Fitzpatrick, K. Mokany, G. Manion, M. Lisk, S. Ferrier, D. Nieto-Lugilde, gdm: Generalized Dissimilarity Modeling (2020); R package version 1.4.
  • 91. D. N. Karger, O. Conrad, J. Bohner, T. Kawohl, H. Kreft, R. W. Soria-Auza, N. E. Zimmermann, H. P. Linder, M. Kessler, Climatologies at high resolution for the earth 's land surface areas. Sci. Data. 4, 170122 (2017).
  • 92. A. M. Wilson, W. Jetz, Remotely sensed high-resolution global cloud dynamics for predicting ecosystem and biodiversity distributions. PLOS Biol. 14, e1002415 (2016).
  • 93. R. J. Hijmans, raster: Geographic Data Analysis and Modeling (2018); R package version 2.8- 4;https://CRAN.R-project.org/package=raster.
  • 94. D. F. Rosauer, S. Ferrier, K. J. Williams, G. Manion, J. S. Keogh, S. W. Laffan, Phylogenetic generalised dissimilarity modelling: A new approach to analysing and predicting spatial turnover in the phylogenetic composition of communities. Ecography 37, 21-32 (2014).
  • 95. S. Ferrier, G. Manion, J. Elith, K. Richardson, Using generalized dissimilarity modelling to analyse and predict patterns of beta diversity in regional biodiversity assessment. Divers. Distrib. 13, 252-264 (2007).
  • 96. D. L. Warren, M. Cardillo, D. F. Rosauer, D. I. Bolnick, Mistaking geography for biology: Inferring processes from species distributions. Trends Ecol. Evol. 29, 572-580 (2014).
  • 97. I. R. McFadden, M. T. P. Coelho, R. O. Wuest, F. A. S. Cassemiro, N. E. Zimmermann, L. Pellissier,T. F. Rangel, C. H. Graham, Global hotspots of recent and ancestral turnover in birds. Research Square 10.21203/rs.3.rs-131370/v2 (2020).
  • 98. D. M. Olson, E. Dinerstein, E. D. Wikramanayake, N. D. Burgess, G. V. N. Powell, E. C. Underwood, J. A. D 'amico, I. Itoua, H. E. Strand, J. C. Morrison, C. J. Loucks, T. F. Allnutt, T. H. Ricketts, Y. Kura, J. F. Lamoreux, W. W. Wettengel, P. Hedao, K. R. Kassem, Terrestrial ecoregions of the World: A new map of life on Earth. Bioscience 51, 933-938 (2001).
  • 99. S. I. Higgins, R. Buitenwerf, G. R. Moncrieff, Defining functional biomes and monitoring their change globally. Glob. Chang. Biol. 22, 3583-3593 (2016).
  • 100. R. T. Pennington, C. E. R. Lehmann, L. M. Rowland, Tropical savannas and dry forests. Curr. Biol. 28, R541-R545 (2018).
  • 101. K. G. Dexter, R. T. Pennington, A. T. Oliveira-Filho, M. L. Bueno, P. L. Silva de Miranda, D. M. Neves, Inserting tropical dry forests into the discussion on biome transitions in the tropics. Front. Ecol. Evol. 6, 104 (2018).
  • 102. R. T. Corlett, R. B. Primack, Tropical Rain Forests (Wiley, 2011).
  • 103. C. E. R. Lehmann, D. M. Griffith, K. J. Simpson, T. M. Anderson, S. Archibald, D. J. Beerling, W. J. Bond, E. Denton, E. J. Edwards, E. J. Forrestel, D. L. Fox, D. Georges, W. A. Hoffmann, T. A. Kluyver, L. Mucina, S. Pau, J. Ratnam, N. Salamin, B. Santini, M. D. Smith, E. L. Spriggs, R. Westley, C. J. Still, C. A. E. Stromberg, C. P. Osborne, Functional diversification enabled grassy biomes to fill global climate space. bioRxiv 10.1101/583625 (2019).
  • 104. B. H. Daru, T. L. Elliott, D. S. Park, T. J. Davies, Understanding the processes underpinning patterns of phylogenetic regionalization. Trends Ecol. Evol. 32, 845-860 (2017).
  • 105. B. G. Holt, J.-P. Lessard, M. K. Borregaard, S. A. Fritz, M. B. Araujo, D. Dimitrov, P.-H. Fabre, C. H. Graham, G. R. Graves, K. A. JOnsson, D. Nogues-Bravo, Z. Wang, R. J. Whittaker, J. Fjeldsa, C. Rahbek, An update of Wallace 's zoogeographic regions of the world. Science 339, 74-78 (2013).
  • 106. D. H. Ogle, J. C. Doll, P. Wheeler, A. Dinno, FSA: Fisheries Stock Analysis (2021); R package version 0.9.1;https://github.com/droglenc/FSA.
  • 107. A. Dinno, dunn.test: Dunn' s Test of Multiple Comparisons Using Rank Sums (2017); R package version 1.3.5;https://CRAN.R-project.org/package=dunn.test.
  • 108. W. L. Eiserhardt, T. L. P. Couvreur, W. J. Baker, Plant phylogeny as a window on the evolution of hyperdiversity in the tropical rainforest biome. New Phytol. 214, 1408-1422 (2017).
  • 109. N. J. Matzke, Probabilistic historical biogeography: New models for founder-event speciation, imperfect detection, and fossils allow improved accuracy and model-testing. Front. Biogeogr. 5, 242-248 (2013).
  • 110. N. J. Matzke, BioGeoBEARS: BioGeography with Bayesian (and Likelihood) Evolutionary Analysis in R Scripts (2013); R package version 0.2.1.
  • 111. N. J. Matzke, Model selection in historical biogeography reveals that founder-event speciation is a crucial process in island clades. Syst. Biol. 63, 951-970 (2014).
  • 112. D. L. Rabosky, Automatic detection of key innovations, rate shifts, and diversity-dependence on phylogenetic trees. PLOS ONE 9, e89543 (2014).
  • 113. B. R. Moore, S. Hohna, M. R. May, B. Rannala, J. P. Huelsenbeck, Critically evaluating the theory and performance of Bayesian analysis of macroevolutionary mixtures. Proc. Natl. Acad. Sci. U.S.A. 113, 9569-9574 (2016).
  • 114. A. L. S. Meyer, J. J. Wiens, Estimating diversification rates for higher taxa: BAMM can give problematic estimates of rates and rate shifts. Evolution 72, 39-53 (2018).
  • 115. D. L. Rabosky, J. S. Mitchell, J. Chang, Is BAMM flawed? Theoretical and practical concerns in the analysis of multi-rate diversification models. Syst. Biol. 66, 477-498 (2017).
  • 116. D. L. Rabosky, BAMM at the court of false equivalency: A response to Meyer and Wiens. Evolution 72, 2246-2256 (2018).
  • 117. D. L. Rabosky, Extinction rates should not be estimated from molecular phylogenies. Evolution 64, 1816-1824 (2010).
  • 118. S. Louca, M. W. Pennell, Extant timetrees are consistent with a myriad of diversification histories. Nature 580, 502-505 (2020).
  • 119. D. L. Rabosky, M. Grundler, C. Anderson, P. Title,J.J. Shi, J. W. Brown, H. Huang, J.G. Larson, BAMMtools: An R package for the analysis of evolutionary dynamics on phylogenetic trees. Methods Ecol. Evol. 5, 701-707 (2014).
  • 120. H. Xu, X. Luo, J. Qian, X. Pang, J. Song, G. Qian, J. Chen, S. Chen, FastUniq: A fast de novo duplicates removal tool for paired short reads. PLOS ONE 7, e52249 (2012).
  • 121. A. M. Bolger, M. Lohse, B. Usadel, Trimmomatic: A flexible trimmer for Illumina sequence data. Bioinformatics 30, 2114-2120 (2014).
  • 122. M. G. Johnson, E. M. Gardner, Y. Liu, R. Medina, B. Goffinet, A. J. Shaw, N. J. C. Zerega, N. J. Wickett, HybPiper: Extracting coding sequence and introns for phylogenetics from high-throughput sequencing reads using target enrichment. Appl. Plant Sci. 4, 1600016 (2016).
  • 123. H. Li, R. Durbin, Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25, 1754-1760 (2009).
  • 124. A. Bankevich, S. Nurk, D. Antipov, A. A. Gurevich, M. Dvorkin, A. S. Kulikov, V. M. Lesin, S. I. Nikolenko, S. Pham, A. D. Prjibelski, A. V. Pyshkin, A. V. Sirotkin, N. Vyahhi, G. Tesler, M. A. Alekseyev, P. A. Pevzner, SPAdes: A new genome assembly algorithm and its applications to single-cell sequencing. J. Comput. Biol. 19, 455-477 (2012).
  • 125. G. S. C. Slater, E. Birney, Automated generation of heuristics for biological sequence comparison. BMC Bioinformatics 6, 31 (2005).
  • 126. Y. Yang, S. A. Smith, Orthology inference in nonmodel organisms using transcriptomes and low-coverage genomes: Improving accuracy and matrix occupancy for phylogenomics. Mol. Biol. Evol. 31, 3081-3092 (2014).
  • 127. V. Ranwez, S. Harispe, F. Delsuc, E. J. P. Douzery, MACSE: Multiple alignment of coding SEquences accounting for frameshifts and stop codons. PLOS ONE 6, e22594 (2011).
  • 128. J. W. Brown, J. F. Walker, S. A. Smith, Phyx: Phylogenetic tools for unix. Bioinformatics 33, 1886-1888 (2017).
  • 129. A. Stamatakis, RAxML version 8: A tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics 30, 1312-1313 (2014).
  • 130. U. Mai, S. Mirarab, TreeShrink: Fast and accurate detection of outlier long branches in collections of phylogenetic trees. BMC Genomics 19, 272 (2018).
  • 131. A. Criscuolo, S. Gribaldo, BMGE (Block Mapping and Gathering with Entropy): A new software for selection of phylogenetic informative regions from multiple sequence alignments. BMC Evol. Biol. 10, 210 (2010).
  • 132. J. J. Doyle, in Polyploidy and Genome Evolution, P. S. Soltis, D. E. Soltis, Eds. (Springer-Verlag, 2012), pp. 147-180.
  • 133. R. Govindarajulu, C. E. Hughes, P. J. Alexander, C. Donovan Bailey, The complex evolutionary dynamics of ancient and recent polyploidy in Leucaena (Leguminosae; Mimosoideae). Am. J. Bot. 98, 2064-2076 (2011).
  • 134. A. Stamatakis, RAxML-VI-HPC: Maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22, 2688-2690 (2006).
  • 135. S. Q. Le, C. C. Dang, O. Gascuel, Modeling protein evolution with several amino acid replacement matrices depending on site rates. Mol. Biol. Evol. 29, 2921-2936 (2012).
  • 136. N. Lartillot, N. Rodrigue, D. Stubbs, J. Richer, PhyloBayes MPI: Phylogenetic reconstruction with infinite mixtures of profiles in a parallel environment. Syst. Biol. 62, 611-615 (2013).
  • 137. N. Lartillot, H. Brinkmann, H. Philippe, Suppression of long-branch attraction artefacts in the animal phylogeny using a site-heterogeneous model. BMC Evol. Biol. 7, S4 (2007).
  • 138. N. Lartillot, H. Philippe, A Bayesian mixture model for across-site heterogeneities in the amino-acid replacement process. Mol. Biol. Evol. 21, 1095-1109 (2004).
  • 139. M. Plummer, N. Best, K. Cowles, K. Vines, CODA: Convergence diagnosis and output analysis for MCMC. R News 6, 7-11 (2006).
  • 140. D. V. Dugas, D. Hernandez, E. J. M. Koenen, E. Schwarz, S. Straub, C. E. Hughes, R. K. Jansen, M. Nageswara-Rao, M. Staats, J. T. Trujillo, N. H. Hajrah, N. S. Alharbi, A. L. Al-Malki, J. S. M. Sabir, C. D. Bailey, Mimosoid legume plastome evolution: IR expansion, tandem repeat expansions, and accelerated rate of evolution in clpP. Sci. Rep. 5, 16958 (2015).
  • 141. S. Huang, W. Wu, Z. Chen, Q. Zhu, W. L. Ng, Q. Zhou, Characterization of the chloroplast genome of Erythrophleum fordii (Fabaceae). Conserv. Genet. Resour. 11, 165-167 (2019).
  • 142. J. P. Huelsenbeck, F. Ronquist, MRBAYES: Bayesian inference of phylogeny. Bioinformatics 17, 754-755 (2001).
  • 143. A. Rambaut, A. J. Drummond, D. Xie, G. Baele, M. A. Suchard, Posterior summarisation in Bayesian phylogenetics using Tracer 1.7. Syst. Biol. 67, 901-904 (2018).
  • 144. B. D. Mishler, N. Knerr, C. E. Gonzalez-Orozco, A. D. Thornhill, S. W. Laffan, J. T. Miller, Phylogenetic measures of biodiversity and neo- and paleo-endemism in Australian Acacia. Nat. Commun. 5, 4473 (2014).
  • 145. E. R. de Souza, G. P. Lewis, F. Forest, A. S. Schnadelbach, C. van den Berg, L. P. de Queiroz, Phylogeny of Calliandra (Leguminosae: Mimosoideae) based on nuclear and plastid molecular markers. Taxon. 62, 1200-1219 (2013).
  • 146. C. E. Hughes, C. D. Bailey, S. Krosnick, M. A. Luckow, Relationships among genera of the informal Dichrostachys and Leucaena groups (Mimosoideae) inferred from nuclear ribosomal ITS sequences. Adv. Legum. Syst. 10, 221-238 (2003).
  • 147. S. B. Cannon, M. R. McKain, A. Harkess, M. N. Nelson, S. Dash, M. K. Deyholos, Y. Peng, B. Joyce, C. N. Stewart, M. Rolf, T. Kutchan, X. Tan, C. Chen, Y. Zhang, E. Carpenter, G. K. S. Wong, J. J. Doyle, J. Leebens-Mack, Multiple polyploidy events in the early radiation of nodulating and nonnodulating legumes. Mol. Biol. Evol. 32, 193-210 (2015).
  • 148. M. F. Simon, R. Grether, L. P. de Queiroz, T. E. Sarkinen, V. F. Dutra, C. E. Hughes, The evolutionary history of Mimosa (Leguminosae): Toward a phylogeny of the sensitive plants. Am. J. Bot. 98, 1201-1221 (2011).
  • 149. T. N. C. Vasconcelos, S. Alcantara, C. O. Andrino, F. Forest, M. Reginato, M. F. Simon, J. R. Pirani, Fast diversification through a mosaic of evolutionary histories characterizes the endemic flora of ancient Neotropical mountains. Proc. R. Soc. B Biol. Sci. 287, 20192933 (2020).
  • 150. M. Morales, R. H. Fortunato, M. F. Simon, A new species of Mimosa L. ser. Bipinnatae DC. (Leguminosae) from the Cerrado: Taxonomic and phylogenetic insights. Plants 9, 934 (2020).
  • 151. J. S. Boatwright, O. Maurin, M. van der Bank, Phylogenetic position of Madagascan species of Acacia s.l. and new combinations in Senegalia and Vachellia (Fabaceae, Mimosoideae, Acacieae). Bot. J. Linn. Soc. 179, 288-294 (2015).
  • 152. D. F. Comben, G. A. McCulloch, G. K. Brown, G. H. Walter, Phylogenetic placement and the timing of diversification in Australia 's endemic Vachellia (Caesalpinioideae, Mimosoid Clade, Fabaceae) species. Aust. Syst. Bot. 33, 103-109 (2020).
  • 153. V. Terra, F. C. P. Garcia, L. P. de Queiroz, M. van der Banke, J. T. Miller, Phylogenetic relationships in Senegalia (Leguminosae-Mimosoideae) emphasizing the South American lineages. Syst. Bot. 42, 458-464 (2017).
  • 154. M. F. Simon, J. F. B. Pastore, A. F. Souza, L. M. Borges, V. R. Scalon, P. G. Ribeiro, J. Santos-Silva, V. C. Souza, L. P. Queiroz, Molecular phylogeny of Stryphnodendron (Mimosoideae, Leguminosae) and generic delimitations in the Piptadenia Group. Int. J. Plant Sci. 177, 44-59 (2016).
  • 155. V. Terra, J. J. Ringelberg, B. Maslin, E. J. M. Koenen, J. Ebinger, D. Seigler, C. E. Hughes, Dilemmas in generic delimitation of Senegalia and allies (Caesalpinioideae, mimosoid clade): How to reconcile phylogenomic evidence with morphology and taxonomy? PhytoKeys 205, 261-278 (2022).
  • 156. L. M. Borges, P. W. Inglis, M. F. Simon, P. G. Ribeiro, L. P. de Queiroz, Misleading fruits: The non-monophyly of Pseudopiptadenia and Pityrocarpa supports generic re-circumscriptions and a new genus within mimosoid legumes. PhytoKeys 205, 239-259 (2022).
  • 157. J. Ferm, A preliminary phylogeny of Zapoteca (Fabaceae: Caesalpinioideae: Mimosoid clade). Plant Syst. Evol. 305, 341-352 (2019).
  • 158. E. R. de Souza, M. V. Krishnaraj, L. P. de Queiroz, Sanjappa, a new genus in the tribe Ingeae (Leguminosae: Mimosoideae) from India. Rheedea. 26, 1-12 (2016).
  • 159. J. Ferm, P. Korall, G. P. Lewis, B. Stahl, Phylogeny of the Neotropical legume genera Zygia and Marmaroxylon and close relatives. Taxon. 68, 661-672 (2019).
  • 160. G. E. Brewer, J.J. Clarkson, O. Maurin, A. R. Zuntini, V. Barber, S. Bellot, N. Biggs, R. S. Cowan, N. M. J. Davies, S. Dodsworth, S. L. Edwards, W. L. Eiserhardt, N. Epitawalage, S. Frisby, A. Grall, P. J. Kersey, L. Pokorny, I.J. Leitch, F. Forest, W. J. Baker, Factors affecting targeted sequencing of 353 nuclear genes from herbarium specimens spanning the diversity of Angiosperms. Front. Plant Sci. 10, 1102 (2019).
  • 161. M. L. Hart, L. L. Forrest, J. A. Nicholls, C. A. Kidner, Retrieval of hundreds of nuclear loci from herbarium specimens. Taxon. 65, 1081-1092 (2016).
  • 162. F. T. Bakker, A. Antonelli, J. A. Clarke, J. A. Cook, S. V. Edwards, P. G. P. Ericson, S. Faurby, N. Ferrand, M. Gelang, R. G. Gillespie, M. Irestedt, K. Lundin, E. Larsson, P. Matos-Maravi, J. Muller, T. von Proschwitz, G. K. Roderick, A. Schliep, N. Wahlberg, J. Wiedenhoeft, M. Kallersjo, The global museum: Natural history collections and the future of evolutionary science and public education. PeerJ. 8, e8225 (2020).
  • 163. X. Jiang, S. V. Edwards, L. Liu, The multispecies coalescent model outperforms concatenation across diverse phylogenomic data sets. Syst. Biol. 69, 795-812 (2020).
  • 164. R. P. Clark, K.-W. Jiang, E. Gagnon, Reinstatement of Ticanto (Leguminosae-Caesalpinioideae) - the final piece in the Caesalpinia group puzzle. PhytoKeys 205, 59-98 (2022).
  • 165. S. A. O 'Donnell, J. J. Ringelberg, G. P. Lewis, Re-circumscription of the mimosoid genus Entada including new combinations for all species of the phylogenetically nested Elephantorrhiza (Leguminosae, Caesalpinioideae, mimosoid clade). PhytoKeys 205, 99-145 (2022).
  • 166. C. E. Hughes, J. J. Ringelberg, G. P. Lewis, S. A. Catalano, Disintegration of the genus Prosopis L. (Leguminosae, Caesalpinioideae, mimosoid clade). PhytoKeys 205, 147-189 (2022).
  • 167. C. E. Hughes, J. J. Ringelberg, M. Luckow, J. L. C. Jimenez, Mezcala - A new segregate genus of mimosoid legume (Leguminosae, Caesalpinioideae, mimosoid clade) narrowly endemic to the Balsas Depression in Mexico. PhytoKeys 205, 191-201 (2022).
  • 168. I. Tamayo-Cen, B. M. Torke, J. E. Lopez Contreras, G. Carnevali Fernandez-Concha, I. Ramirez Morillo, L. L. Can Itza, R. Duno de Stefano, Revisiting the phylogeny and taxonomy of the Pithecellobium clade (Leguminosae, Caesalpinioideae) with new generic circumscriptions. PhytoKeys 205, 279-298 (2022).
  • 169. G. K. Brown, J. Aju, M. J. Bayly, D. J. Murphy, T. G. B. McLay, Phylogeny and classification of the Australasian and Indomalayan mimosoid legumes Archidendron and Archidendropsis (Leguminosae, subfamily Caesalpinioideae, mimosoid clade). PhytoKeys. 205, 299-333 (2022).
  • 170. E. Demeulenaere, T. Schils, J.G. Burleigh, J. J. Ringelberg, E. J. M. Koenen, S. M. Ickert-Bond, Phylogenomic assessment prompts recognition of the Serianthes clade and confirms the monophyly of Serianthes and its relationship with Falcataria and Wallaceodendron in the wider ingoid clade (Leguminosae, Caesalpinioideae). PhytoKeys 205, 335-361 (2022).
  • 171. E. J. M. Koenen, On the taxonomic affinity of Albizia carbonaria Britton (Leguminosae, Caesalpinioideae-mimosoid clade). PhytoKeys 205, 363-370 (2022).
  • 172. G. A. Peraza, E. J. M. Koenen, R. Riina, C. E. Hughes, J. J. Ringelberg, G. C. Fernandez-Concha, I. M. R. Morillo, L. L. C. Itza, I. Tamayo-Cen, J. H. R. Prado, X. Cornejo, S. Mattapha, R. D. de Stefano, Re-establishment of the genus Pseudalbizzia (Leguminosae, Caesalpinioideae, mimosoid clade): The New World species formerly placed in Albizia. PhytoKeys 205, 371-400 (2022).
  • 173. M. V. B. Soares, E. J. M. Koenen, J. R. V. Iganci, M. P. Morim, A new generic circumscription of Hydrochorea (Leguminosae, Caesalpinioideae, mimosoid clade) with an amphi-Atlantic distribution. PhytoKeys 205, 401-437 (2022).
  • 174. E. R. de Souza, P. G. C. de Almeida, L. Rocha, E. J. M. Koenen, M. A. Burgos, G. P. Lewis, C. E. Hughes, Boliviadendron, a new segregate genus of mimosoid legume (Leguminosae, Caesalpinioideae, mimosoid clade) narrowly endemic to the interior Andean valleys of Bolivia. PhytoKeys 205, 439-452 (2022).
  • 175. E. J. M. Koenen, Osodendron gen. nov. (Leguminosae, Caesalpinioideae), a new genus of mimosoid legumes of tropical Africa. PhytoKeys 205, 453-470 (2022).
  • 176. C. Meyer, P. Weigelt, H. Kreft, Multidimensional biases, gaps and uncertainties in global plant occurrence information. Ecol. Lett. 19, 992-1006 (2016).
  • 177. M. A. Hyde, B. T. Wursten, P. Ballings, M. Coates Palgrave, Flora of Mozambique: Species information: Individual images: Entada rheedii. www.mozambiqueflora.com/speciesdata/ image-display.php?species_id=126520&image_id=13 [retrieved 31 May 2022].
  • 178. A. South, rworldxtra: Country Boundaries at High Resolution (2012); R package version 1.01; https://CRAN.R-project.org/package=rworldxtra.
  • 179. J. C. Zachos, G. R. Dickens, R. E. Zeebe, An early Cenozoic perspective on greenhouse warming and carbon-cycle dynamics. Nature 451, 279-283 (2008).
  • 180. H. Morlon, E. Lewitus, F. L. Condamine, M. Manceau, J. Clavel, J. Drury, RPANDA: An R package for macroevolutionary analyses on phylogenetic trees. Methods Ecol. Evol. 7, 589-597 (2016).
  • 181. D. J. Bertioli, S. B. Cannon, L. Froenicke, G. Huang, A. D. Farmer, E. K. S. Cannon, X. Liu, D. Gao, J. Clevenger, S. Dash, L. Ren, M. C. Moretzsohn, K. Shirasawa, W. Huang, B. Vidigal, B. Abernathy, Y. Chu, C. E. Niederhuth, P. Umale, A. C. G. Araujo, A. Kozik, K. D. Kim, M. D. Burow, R. K. Varshney, X. Wang, X. Zhang, N. Barkley, P. M. Guimaraes, S. Isobe, B. Guo, B. Liao, H. T. Stalker, R. J. Schmitz, B. E. Scheffler, S. C. M. Leal-Bertioli, X. Xun, S. A. Jackson, R. Michelmore, P. Ozias-Akins, The genome sequences of Arachis duranensis and Arachis ipaensis, the diploid ancestors of cultivated peanut. Nat. Genet. 48, 438-446 (2016).
  • 182. J.S. Stai,A. Yadav, C. Sinou, A. Bruneau, J. J. Doyle, D. Fernandez-Baca, S. B. Cannon, Cercis: A non-polyploid genomic relic within the generally polyploid legume family. Front. Plant Sci. 10, 345 (2019).
  • 183. J. Schmutz, S. B. Cannon, J. Schlueter, J. Ma, T. Mitros, W. Nelson, D. L. Hyten, Q. Song, J. J. Thelen, J. Cheng, D. Xu, U. Hellsten, G. D. May, Y. Yu, T. Sakurai, T. Umezawa, M. K. Bhattacharyya, D. Sandhu, B. Valliyodan, E. Lindquist, M. Peto, D. Grant, S. Shu, D. Goodstein, K. Barry, M. Futrell-Griggs, B. Abernathy, J. Du, Z. Tian, L. Zhu, N. Gill, T. Joshi, M. Libault, A. Sethuraman, X.-C. Zhang, K. Shinozaki, H. T. Nguyen, R. A. Wing, P. Cregan, J. Specht, J. Grimwood, D. Rokhsar, G. Stacey, R. C. Shoemaker, S. A. Jackson, Genome sequence of the palaeopolyploid soybean. Nature 463, 178-183 (2010).
  • 184. N. D. Young, F. Debelle, G. E. D. Oldroyd, R. Geurts, S. B. Cannon, M. K. Udvardi, V. A. Benedito, K. F. X. Mayer, J. Gouzy, H. Schoof, Y. Van de Peer, S. Proost, D. R. Cook, B. C. Meyers, M. Spannagl, F. Cheung, S. De Mita, V. Krishnakumar, H. Gundlach, S. Zhou, J. Mudge, A. K. Bharti, J. D. Murray, M. A. Naoumkina, B. Rosen, K. A. T. Silverstein, H. Tang, S. Rombauts, P. X. Zhao, P. Zhou, V. Barbe, P. Bardou, M. Bechner, A. Bellec, A. Berger, H. Berges, S. Bidwell, T. Bisseling, N. Choisne, A. Couloux, R. Denny, S. Deshpande, X. Dai, J. J. Doyle, A.-M. Dudez, A. D. Farmer, S. Fouteau, C. Franken, C. Gibelin, J. Gish, S. Goldstein, A. J.Gonzalez, P. J. Green, A. Hallab, M. Hartog, A. Hua, S. J.Humphray, D.-H. Jeong, Y. Jing, A. Jocker, S. M. Kenton, D.-J. Kim, K. Klee, H. Lai, C. Lang, S. Lin, S. L. Macmil, G. Magdelenat, L. Matthews, J. M. Corrison, E. L. Monaghan, J.-H. Mun, F. Z. Najar, C. Nicholson, C. Noirot, M. O 'Bleness, C. R. Paule, J. Poulain, F. Prion, B. Qin, C. Qu, E. F. Retzel, C. Riddle, E. Sallet, S. Samain, N. Samson, I.Sanders, O. Saurat, C. Scarpelli, T. Schiex, B. Segurens, A. J. Severin, D. J. Sherrier, R. Shi, S. Sims, S. R. Singer, S. Sinharoy, L. Sterck, A. Viollet, B.-B. Wang, K. Wang, M. Wang, X. Wang, J. Warfsmann, J. Weissenbach, D. D. White, J. D. White, G. B. Wiley, P. Wincker, Y. Xing, L. Yang, Z. Yao, F. Ying, J. Zhai, L. Zhou, A. Zuber, J. Denarie, R. A. Dixon, G. D. May, D. C. Schwartz, J. Rogers, F. Quetier, C. D. Town, B. A. Roe, The Medicago genome provides insight into the evolution of rhizobial symbioses. Nature 480, 520-524 (2011).
  • 185. M. Griesmann, Y. Chang, X. Liu, Y. Song, G. Haberer, M. B. Crook, B. Billault-Penneteau, D. Lauressergues, J. Keller, L. Imanishi, Y. P. Roswanjaya, W. Kohlen, P. Pujic, K. Battenberg, N. Alloisio, Y. Liang, H. Hilhorst, M. G. Salgado, V. Hocher, H. Gherbi, S. Svistoonoff, J. J. Doyle, S. He, Y. Xu, S. Xu, J. Qu, Q. Gao, X. Fang, Y. Fu, P. Normand, A. M. Berry, L. G. Wall, J.-M. Ane, K. Pawlowski, X. Xu, H. Yang, M. Spannagl, K. F. X. Mayer, G. K.-S. Wong, M. Parniske, P.-M. Delaux, S. Cheng, Phylogenomics reveals multiple losses of nitrogenfixing root nodule symbiosis. Science 361, eaat1743 (2018).
  • 186. S. L. Wing, F. Herrera, C. A. Jaramillo, C. Gomez-Navarro, P. Wilf, C. C. Labandeira, Late Paleocene fossils from the Cerrejon Formation, Colombia, are the earliest record of Neotropical rainforest. Proc. Natl. Acad. Sci. U.S.A. 106, 18627-18632 (2009).
  • 187. F. Herrera, M. R. Carvalho, S. L. Wing, C. Jaramillo, P. S. Herendeen, Middle to Late Paleocene Leguminosae fruits and leaves from Colombia. Aust. Syst. Bot. 32, 385-408 (2019).
  • 188. H. D. MacGinitie, in Carnegie Institution of Washington publication 599. Contributions of Paleontology (Washington D.C., USA, 1953).
  • 189. P. S. Herendeen, F. Herrera, Eocene fossil legume leaves referable to the extant genus Arcoa (Caesalpinioideae, Leguminosae). Int. J. Plant Sci. 180, 220-231 (2019).
  • 190. W. L. Crepet, D. L. Dilcher, Investigations of angiosperms from the Eocene of North America: A mimosoid inflorescence. Am. J. Bot. 64, 714-725 (1977).
  • 191. P. Guinet, E. Sabrouty, H. A. Soliman, A. M. Omrah, Etudes des caracteres du pollen des Legumineuses-Mimosoideae des sediments Tertiaires du Nord Ouest de l 'Egypte. Mem. Travel. Ec. Prat. des Hautes Etudes, Inst. Montpellier. 17, 159-171 (1987).
  • 192. J. T. Miller, D. J. Murphy, S. Y. W. Ho, D. J. Cantrill, D. Seigler, Comparative dating of Acacia: Combining fossils and multiple phylogenies to infer ages of clades with poor fossil records. Aust. J. Bot. 61, 436-445 (2013).
  • 193. M. Caccavari, V. Barreda, A new calymmate mimosoid polyad from the Miocene of Argentina. Rev. Palaeobot. Palynol. 109, 197-203 (2000).