Dispersal assembly of rain forest tree communities across the Amazon basin

Proceedings of the National Academy of Sciences of the United States of America

Volumn 114, Issue 10, 2017, Pages 2645-2650

  Dexter, Kyle G ^a,b   Lavin, Mathew ^c   Torke, Benjamin M ^d   Twyford, Alex D ^a   Kursar, Thomas A ^e,f   Coley, Phyllis D ^e,f   Drake, Camila ^b   Hollands, Ruth ^b   Pennington, R Toby ^b  

^a UNIVERSITY OF EDINBURGH   (United Kingdom)

^b ROYAL BOTANIC GARDEN EDINBURGH   (United Kingdom)

^c MONTANA STATE UNIVERSITY   (United States)

^d INSTITUTE OF SYSTEMATIC BOTANY   (United States)

^e UNIVERSITY OF UTAH   (United States)

^f SMITHSONIAN TROPICAL RESEARCH INSTITUTE   (Panama)

Author keywords

Amazonia; Biogeography; Community assembly; Phylogenetic structure; Tropical trees

Indexed keywords

BURSERACEAE; CONFERENCE PAPER; GUATTERIA; LEGUME; NEOTROPICS; PHYLOGENY; PLANT COMMUNITY; PRIORITY JOURNAL; PROTIEAE; RAIN FOREST; SWARTZIA; BIODIVERSITY; CLASSIFICATION; GENETICS; GEOGRAPHY; SPECIES DIFFERENCE; TREE;

BIODIVERSITY; GEOGRAPHY; PHYLOGENY; RAINFOREST; SPECIES SPECIFICITY; TREES;

EID: 85014847221     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1613655114     Document Type: Article

References (75)

1. Valencia R, Balslev H, Paz Y, Miño CG (1994) High tree alpha-diversity in Amazonian Ecuador. Biodivers Conserv 3: 21-28.
2. ter Steege H, et al. (2013) Hyperdominance in the Amazonian tree flora. Science 342(6156): 1243092.
3. Pitman NCA, et al. (2001) Dominance and distribution of tree species in upper Amazonian terra firme forests. Ecology 82: 2101-2117.
4. Prance GT (1977) The phytogeographic subdivisions of Amazonia and their influence on the selection of biological reserves. Extinction is Forever, eds Prance GT, Elias TS (New York Botanical Garden Press, Bronx, NY), pp 195-213.
5. ter Steege H, et al. (2006) Continental-scale patterns of canopy tree composition and function across Amazonia. Nature 443(7110): 444-447.
6. Gentry AH (1981) Distributional patterns and an additional species of the Passiflora vitifolia complex: Amazonian species diversity due to edaphically differentiated communities. Plant Syst Evol 137: 95-105.
7. Moritz C, Patton JL, Schneider CJ, Smith TB (2000) Diversification of rainforest faunas: An integrated molecular approach. Annu Rev Ecol Syst 31: 533-563.
8. Fine PVA, Daly DC, Villa Muñoz G, Mesones I, Cameron KM (2005) The contribution of edaphic heterogeneity to the evolution and diversity of Burseraceae trees in the western Amazon. Evolution 59(7): 1464-1478.
9. Fiaschi P, Pirani JR (2009) Review of plant biogeographic studies in Brazil. J Syst Evol 47: 477-496.
10. Lavin M (2004) 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.
11. Richardson JE, Chatrou LW, Mols JB, Erkens RHJ, Pirie MD (2004) Historical biogeography of two cosmopolitan families of flowering plants: Annonaceae and Rhamnaceae. Philos Trans R Soc Lond B Biol Sci 359(1450): 1495-1508.
12. Weeks A, Daly DC, Simpson BB (2005) The phylogenetic history and biogeography of the frankincense and myrrh family (Burseraceae) based on nuclear and chloroplast sequence data. Mol Phylogenet Evol 35(1): 85-101.
13. Bardon L, et al. (2013) Origin and evolution of Chrysobalanaceae: Insights into the evolution of plants in the Neotropics. Bot J Linn Soc 171: 19-37.
14. Muellner AN, Savolainen V, Samuel R, Chase MW (2006) The mahogany family "outof- Africa": Divergence time estimation, global biogeographic patterns inferred from plastid rbcL DNA sequences, extant, and fossil distribution of diversity. Mol Phylogenet Evol 40(1): 236-250.
15. Renner SS (2004) Tropical trans-Atlantic disjunctions, sea surface currents, and wind patterns. Int J Plant Sci 165: S23-S33.
16. Pennington RT, Dick CW (2004) The role of immigrants in the assembly of the South American rainforest tree flora. Philos Trans R Soc Lond B Biol Sci 359(1450): 1611-1622.
17. Haffer J (1969) Speciation in Amazonian forest birds. Science 165(3889): 131-137.
18. Colinvaux PA, DeOliveira PE, Moreno JE, Miller MC, Bush MB (1996) A long pollen record from lowland Amazonia: Forest and cooling in glacial times. Science 274: 85-88.
19. Bueno ML, et al. (2016) Effects of quaternary climatic fluctuations on the distribution of Neotropical savanna species. Ecography, 10.1111/ecog.01860.
20. Hoorn C, et al. (2010) Amazonia through time: Andean uplift, climate change, landscape evolution, and biodiversity. Science 330(6006): 927-931.
21. Latrubesse EM, et al. (2010) The Late Miocene paleogeography of the Amazon Basin and the evolution of the Amazon River system. Earth Sci Rev 99: 99-124.
22. Hubbell SP (2001) The Unified Neutral Theory of Biodiversity and Biogeography (Princeton Univ Press, Princeton, NJ).
23. Rowland L, et al. (2015) Death from drought in tropical forests is triggered by hydraulics not carbon starvation. Nature 528(7580): 119-122.
24. Lavin M (2006) Floristic and geographic stability of discontinuous seasonally dry tropical forests explains patterns of plant phylogeny and endemism. Neotropical Savannas and Seasonally Dry Forests: Plant Biodiversity, Biogeography and Conservation, eds Pennington RT, Ratter JA, Lewis GP (CRC Press, Boca Raton, FL), pp 433-447.
25. Pennington RT, Dick CW (2010) Diversification of the Amazonian flora and its relation to key geological and environmental events: A molecular perspective. Amazonia, Landscape and Species Evolution: A Look into the Past, eds Hoorn C, Vonhof H, Wesselingh F (Wiley-Blackwell, Hoboken, NJ), pp 373-385.
26. Pennington TD (1997) The Genus Inga: Botany (Royal Botanic Gardens, Kew, UK).
27. Valencia R, et al. (2004) Tree species distributions and local habitat variation in the Amazon: Large forest plot in eastern Ecuador. J Ecol 92: 214-229.
28. Webb CO (2000) Exploring the phylogenetic structure of ecological communities: An example for rain forest trees. Am Nat 156(2): 145-155.
29. Honorio-Coronado EN, et al. (2015) Phylogenetic diversity of Amazonian tree communities. Divers Distrib 21: 1295-1307.
30. Fine PVA, Zapata F, Daly DC (2014) Investigating processes of neotropical rain forest tree diversification by examining the evolution and historical biogeography of the Protieae (Burseraceae). Evolution 68(7): 1988-2004.
31. Daly DC (1987) A taxonomic revision of Protium Burm. F. (Burseraceae) in Eastern Amazonia and the Guianas. PhD dissertation, City University of New York, New York.
32. Van Roosmalen MGM (1985) A Guide to the Fruits of the Guianan Flora. (University of Utrecht Press/Veenman, Wageningen, The Netherlands).
33. Hamrick JL, Murawski DA, Nason JD (1993) The influence of seed dispersal mechanisms on the genetic structure of tropical tree populations. Frugivory and Seed Dispersal: Ecological and Evolutionary Aspects, eds Fleming TH, Estrada A (Springer, Netherlands), pp 281-297.
34. Chapman CA (1989) Primate seed dispersal: The fate of dispersed seeds. Biotropica 21: 148-154.
35. Williamson GB, Costa F, Vera CVM (1999) Dispersal of Amazonian trees: Hydrochory in Swartzia polyphylla. Biotropica 31: 460-465.
36. Pennington RT, Prado DE, Pendry CA (2000) Neotropical seasonally dry forests and Quaternary vegetation changes. J Biogeogr 27: 261-273.
37. Neves DMR, Dexter KG, Pennington RT, Bueno ML, Oliveira-Filho AT (2015) Environmental and historical controls of floristic composition across the South American dry diagonal. J Biogeogr 42: 1566-1576.
38. Dick CW, Heuertz M (2008) The complex biogeographic history of a widespread tropical tree species. Evolution 62(11): 2760-2774.
39. Dexter KG, Pennington TD, Cunningham CW (2010) Using DNA to assess errors in tropical tree identifications: How often are ecologists wrong and when does it matter? Ecol Monogr 80: 267-286.
40. Dexter KG, Terborgh JW, Cunningham CW (2012) Historical effects on beta diversity and community assembly in Amazonian trees. Proc Natl Acad Sci USA 109(20): 7787-7792.
41. Endara MJ, Jaramillo J (2011) The influence of microtopography and soil properties on the distribution of the speciose genus of trees, Inga (Fabaceae: Mimosoideae), in Ecuadorian Amazonia. Biotropica 43: 157-164.
42. Kursar TA, et al. (2009) The evolution of antiherbivore defenses and their contribution to species coexistence in the tropical tree genus Inga. Proc Natl Acad Sci USA 106(43): 18073-18078.
43. Gerhold P, Cahill JF, Winter M, Bartish IV, Prinzing A (2015) Phylogenetic patterns are not proxies of community assembly mechanisms (they are far better). Funct Ecol 29: 600-614.
44. Sedio BE, Wright SJ, Dick CW (2012) Trait evolution and the coexistence of a species swarm in the tropical forest understorey. J Ecol 100: 1183-1193.
45. Salazar D, Jaramillo MA, Marquis RJ (2016) Chemical similarity and local community assembly in the species rich tropical genus Piper. Ecology 97(11): 3176-3183.
46. Ricklefs RE (1987) Community diversity: Relative roles of local and regional processes. Science 235(4785): 167-171.
47. Givnish TJ (1999) On the causes of gradients in tropical tree diversity. J Ecol 87: 193-210.
48. Monro AK (2006) The revision of species-rich genera: A phylogenetic framework for the strategic revision of Pilea (Urticaceae) based on cpDNA, nrDNA, and morphology. Am J Bot 93(3): 426-441.
49. Ribas CC, Aleixo A, Nogueira ACR, Miyaki CY, Cracraft J (2012) A palaeobiogeographic model for biotic diversification within Amazonia over the past three million years. Proc Biol Sci 279(1729): 681-689.
50. Morales-Jimenez AL, Disotell T, Di Fiore A (2015) Revisiting the phylogenetic relationships, biogeography, and taxonomy of spider monkeys (genus Ateles) in light of new molecular data. Mol Phylogenet Evol 82(Pt B): 467-483.
51. Pennington RT, Lavin M, Oliveira-Filho A (2009) Woody plant diversity, evolution, and ecology in the tropics: Perspectives from seasonally dry tropical forests. Annu Rev Ecol Evol Syst 40: 437-457.
52. Särkinen T, Pennington RT, Lavin M, Simon MF, Hughes CE (2012) Evolutionary islands in the Andes: Persistence and isolation explain high endemism in Andean dry tropical forests. J Biogeogr 39: 884-900.
53. Hughes CE, Pennington RT, Antonelli A (2013) Neotropical plant evolution: Assembling the big picture. Bot J Linn Soc 171: 1-18.
54. Pennington RT, et al. (2010) Contrasting plant diversification histories within the Andean biodiversity hotspot. Proc Natl Acad Sci USA 107(31): 13783-13787.
55. Wilkinson JM, Marshall LG, Lundberg JG, Kreslavsky MH (2010) Megafan environments in northern South America and their impact on Amazon Neogene aquatic ecosystems. Amazonia, Landscape and Species Evolution: A Look into the Past, eds Hoorn C, Vonhof H, Wesselingh F (Wiley-Blackwell, Hoboken, NJ), pp 162-184.
56. Smith BT, et al. (2014) The drivers of tropical speciation. Nature 515(7527): 406-409.
57. Pennington RT, Lavin M (2016) The contrasting nature of woody plant species in different neotropical forest biomes reflects differences in ecological stability. New Phytol 210(1): 25-37.
58. Misiewicz TM, Fine PVA (2014) Evidence for ecological divergence across a mosaic of soil types in an Amazonian tropical tree: Protium subserratum (Burseraceae). Mol Ecol 23(10): 2543-2558.
59. Koptur S (1984) Outcrossing and pollinator limitation of fruit set: Breeding systems of neotropical Inga trees (Fabaceae: Mimosoideae). Evolution 38: 1130-1143.
60. Richardson JE, Pennington RT, Pennington TD, Hollingsworth PM (2001) Rapid diversification of a species-rich genus of neotropical rain forest trees. Science 293(5538): 2242-2245.
61. Torke BM, Perez AJ (2013) Notes on the genus Swartzia (Leguminosae) in Ecuador, with descriptions of two new species. Phytotaxa 147: 13-25.
62. de Oliveira AA, Mori SA (1999) A central Amazonian terra firme forest, I: High tree species richness on poor soils. Biodiv Cons. 8: 1245-1259.
63. Torke BM, Schaal BA (2008) Molecular phylogenetics of the species-rich neotropical genus Swartzia (Leguminosae, Papilionoideae) and related genera of the swartzioid clade. Am J Bot 95(2): 215-228.
64. Torke BM, Mansano V (2009) A phylogenetically based sectional classification of Swartzia (Leguminosae, Papilionoideae). Taxon 58: 913-924.
65. Erkens RHJ, Maas JW, Couvreur TLP (2009) From Africa via Europe to South America: Migrational route of a species-rich genus of Neotropical lowland rain forest trees (Guatteria, Annonaceae). J Biogeogr 36: 2338-2352.
66. Erkens RHJ, Chatrou LW, Maas JW, van der Niet T, Savolainen V (2007) A rapid diversification of rainforest trees (Guatteria; Annonaceae) following dispersal from Central into South America. Mol Phylogenet Evol 44(1): 399-411.
67. Maas PJM, et al. (2015) Confronting a morphological nightmare: Revision of the Neotropical genus Guatteria (Annonaceae). Blumea 60: 1-219.
68. Katoh K, Standley DM (2013) MAFFT multiple sequence alignment software version 7: Improvements in performance and usability. Mol Biol Evol 30(4): 772-780.
69. Stamatakis A (2006) RAxML-VI-HPC: Maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22(21): 2688-2690.
70. Sanderson MJ (2002) Estimating absolute rates of molecular evolution and divergence times: A penalized likelihood approach. Mol Biol Evol 19(1): 101-109.
71. Nicholls JA, et al. (2015) Using targeted enrichment of nuclear genes to increase phylogenetic resolution in the neotropical rain forest genus Inga (Leguminosae: Mimosoideae). Front Plant Sci 6: 710.
72. de Vienne DM, Giraud T, Martin OC (2007) A congruence index for testing topological similarity between trees. Bioinformatics 23(23): 3119-3124.
73. Simon MF, et al. (2009) Recent assembly of the Cerrado, a neotropical plant diversity hotspot, by in situ evolution of adaptations to fire. Proc Natl Acad Sci USA 106(48): 20359-20364.
74. Dexter KG, Pennington TD (2011) Inga pitmanii (Fabaceae), a new species from Madre de Dios, Peru. Novon 21: 322-325.
75. Drummond AJ, Suchard MA, Xie D, Rambaut A (2012) Bayesian phylogenetics with BEAUti and the BEAST 1.7. Mol Biol Evol 29(8): 1969-1973.