Reconstructing the age and historical biogeography of the ancient flowering-plant family Hydatellaceae (Nymphaeales)
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- 作者：William J D Iles (5) (6)
Christopher Lee (5)
Dmitry D Sokoloff (7)
Margarita V Remizowa (7)
Shrirang R Yadav (8)
Matthew D Barrett (10) (9)
Russell L Barrett (10) (9)
Terry D Macfarlane (11)
Paula J Rudall (12)
Sean W Graham (5) (6)
5. Department of Botany ; University of British Columbia ; 3529-6270 University Blvd ; Vancouver ; British Columbia ; V6T 1Z4 ; Canada
6. UBC Botanical Garden & Centre for Plant Research ; University of British Columbia ; 6804 Marine Dr SW ; Vancouver ; British Columbia ; V6T 1Z4 ; Canada
7. Department of Higher Plants ; Biological Faculty ; M.V. Lomonosov Moscow State University ; 119234 ; Moscow ; Russia
8. Department of Botany ; Shivaji University ; Kolhapur ; 416 004 ; Maharashtra ; India
10. School of Plant Biology ; University of Western Australia ; Nedlands ; WA ; 6009 ; Australia
9. Botanic Gardens and Parks Authority ; Kings Park and Botanic Garden ; West Perth ; WA ; 6005 ; Australia
11. Department of Parks & Wildlife ; Western Australian Herbarium ; Science Division ; Brain Street ; Manjimup ; 6258 WA ; Australia
12. Jodrell Laboratory ; Royal Botanic Gardens ; Kew ; TW9 3AB ; Richmond ; Surrey ; UK - 关键词：Aquatic plants ; Austral ; Ephemeral habitats ; Extinction rates ; Intercontinental dispersal ; ANITA ; grade angiosperms ; Trithuria ; Vicariance
- 刊名：BMC Evolutionary Biology
- 出版年：2014
- 出版时间：December 2014
- 年：2014
- 卷：14
- 期：1
- 全文大小：2,864 KB
- 参考文献：1. Martin, HA (2006) Cenozoic climatic change and the development of the arid vegetation in Australia. J Arid Environ 66: pp. 533-563 CrossRef
2. Aston, HI (1973) Aquatic Plants of Australia. Melbourne University Press, Melbourne
3. Diels, L Die Pflanzenwelt von West-Australien s眉dlich des Wendekreises mit einer Einleitung 眉ber die Pflanzenwelt Gesamt-Australiens in Grundz眉gen. In: Engler, A, Drude, O eds. (1906) Die Veg der Erde. Verlag von Wilhelm Engelmann, Leipzig, pp. 1-413
4. Deil, U (2005) A review on habitats, plant traits and vegetation of ephemeral wetlands鈥攁 global perspective. Phytocoenologia 35: pp. 533-705 40-269X/2005/0035-0533" target="_blank" title="It opens in new window">CrossRef
5. Briggs, BG, Marchant, AD, Perkins, AJ (2014) Phylogeny of the restiid clade (Poales) and implications for the classification of Anarthriaceae, Centrolepidaceae and Australian Restionaceae. Taxon 63: pp. 24-46 CrossRef
6. Pignatti, E, Pignatti, S (1994) Centrolepidi-Hydrocotyletea alatae, a new class of ephemeral communities in Western Australia. J Veg Sci 5: pp. 55-62 CrossRef
7. Sokoloff, DD, Remizowa, MV, Macfarlane, TD, Yadav, SR, Rudall, PJ (2011) Hydatellaceae: a historical review of systematics and ecology. Rheedea 21: pp. 115-138
8. Sokoloff, DD, Remizowa, MV, Macfarlane, TD, Rudall, PJ (2008) Classification of the early-divergent angiosperm family Hydatellaceae: one genus instead of two, four new species and sexual dimorphism in dioecious taxa. Taxon 57: pp. 179-200
9. Iles, WJD, Rudall, PJ, Sokoloff, DD, Remizowa, MV, Macfarlane, TD, Logacheva, MD, Graham, SW (2012) Molecular phylogenetics of Hydatellaceae (Nymphaeales): sexual-system homoplasy and a new sectional classification. Am J Bot 99: pp. 663-676 4" target="_blank" title="It opens in new window">CrossRef
10. Saarela, JM, Rai, HS, Doyle, JA, Endress, PK, Mathews, S, Marchant, AD, Briggs, BG, Graham, SW (2007) Hydatellaceae identified as a new branch near the base of the angiosperm phylogenetic tree. Nature 446: pp. 312-315 CrossRef
11. Friedman, WE, Bachelier, JB, Hormaza, JI (2012) Embryology in Trithuria submersa (Hydatellaceae) and relationships between embryo, endosperm, and perisperm in early-diverging flowering plants. Am J Bot 99: pp. 1083-1095 CrossRef
12. Rudall, PJ, Sokoloff, DD, Remizowa, MV, Conran, JG, Davis, JI, Macfarlane, TD, Stevenson, DW (2007) Morphology of Hydatellaceae, an anomalous aquatic family recently recognized as an early-divergent angiosperm lineage. Am J Bot 94: pp. 1073-1092 4.7.1073" target="_blank" title="It opens in new window">CrossRef
13. Rudall, PJ, Remizowa, MV, Prenner, G, Prychid, CJ, Tuckett, RE, Sokoloff, DD (2009) Nonflowers near the base of extant angiosperms? Spatiotemporal arrangement of organs in reproductive units of Hydatellaceae and its bearing on the origin of the flower. Am J Bot 96: pp. 67-82 CrossRef
14. Rudall, PJ, Eldridge, T, Tratt, J, Ramsay, MM, Tuckett, RE, Smith, SY, Collinson, ME, Remizowa, MV, Sokoloff, DD (2009) Seed fertilization, development, and germination in Hydatellaceae (Nymphaeales): implications for endosperm evolution in early angiosperms. Am J Bot 96: pp. 1581-1593 CrossRef
15. Friedman, WE (2008) Hydatellaceae are water lilies with gymnospermous tendencies. Nature 453: pp. 94-97 CrossRef
16. Sokoloff, DD, Remizowa, MV, Macfarlane, TD, Tuckett, RE, Ramsay, MM, Beer, AS, Yadav, SR, Rudall, PJ (2008) Seedling diversity in Hydatellaceae: implications for the evolution of angiosperm cotyledons. Ann Bot 101: pp. 153-164 4" target="_blank" title="It opens in new window">CrossRef
17. Sanmart铆n, I, Ronquist, F (2004) Southern hemisphere biogeography inferred by event-based models: plant versus animal patterns. Syst Biol 53: pp. 216-243 490423430" target="_blank" title="It opens in new window">CrossRef
18. Crisp, MD, Cook, LG (2007) A congruent molecular signature of vicariance across multiple plant lineages. Mol Phylogenet Evol 43: pp. 1106-1117 CrossRef
Australia鈥檚 virtual herbarium.
19. Yadav, SR, Janarthanam, MK (1994) Hydatellaceae: a new family to Indian flora with a new species. Rheedea 4: pp. 17-20
20. Les, DH, Crawford, DJ, Kimball, RT, Moody, ML, Landolt, E (2003) Biogeography of discontinuously distributed hydrophytes: a molecular appraisal of intercontinental disjunctions. Int J Plant Sci 164: pp. 917-932 CrossRef
21. Donoghue, MJ, Moore, BR (2003) Toward an integrative historical biogeography. Integr Comp Biol 43: pp. 261-270 43.2.261" target="_blank" title="It opens in new window">CrossRef
22. Sauquet, H (2013) A practical guide to molecular dating. Comptes Rendus Palevol 12: pp. 355-367 CrossRef
23. Doyle, JA (2008) Integrating molecular phylogenetic and paleobotanical evidence on origin of the flower. Int J Plant Sci 169: pp. 816-843 CrossRef
24. Endress, PK, Doyle, JA (2009) Reconstructing the ancestral angiosperm flower and its initial specializations. Am J Bot 96: pp. 22-66 47" target="_blank" title="It opens in new window">CrossRef
25. Hofmann, C-C, Zetter, R (2010) Upper Cretaceous sulcate pollen from the Timerdyakh Formation, Vilui Basin (Siberia). Grana 49: pp. 170-193 4.2010.512364" target="_blank" title="It opens in new window">CrossRef
26. Sun, G, Dilcher, DL, Zheng, S, Zhou, Z (1998) In search of the first flower: a Jurassic angiosperm, Archaefructus, from northeast China. Science 282: pp. 1692-1695 4.1692" target="_blank" title="It opens in new window">CrossRef
27. Sun, G, Ji, Q, Dilcher, DL, Zheng, S, Nixon, KC, Wang, X (2002) Archaefructaceae, a new basal angiosperm family. Science 296: pp. 899-904 439" target="_blank" title="It opens in new window">CrossRef
28. Friis, EM, Crane, PR, Pedersen, KR (2011) Early Flowers and Angiosperm Evolution. Cambridge University Press, Cambridge CrossRef
29. Cevallos-Ferriz, SRS, Stockey, RA (1989) Permineralized fruits and seeds from the Princeton Chert (Middle Eocene) of British Columbia: Nymphaeaceae. Bot Gaz 150: pp. 207-217 CrossRef
30. Collinson, ME (1980) Recent and Tertiary seeds of the Nymphaeaceae sensu lato with a revision of Brasenia ovula (Brong.) Reid and Chandler. Ann Bot 46: pp. 603-632
31. Drew BT, Ruhfel BR, Smith SA, Moore MJ, Michael J, Briggs BG, Gitzendanner MA, Soltis PS, Soltis DE: Another look at the root of the angiosperms reveals a familiar tale. / Syst Biol In press
32. Feild, TS, Arens, NC, Doyle, JA, Dawson, TE, Donoghue, MJ (2004) Dark and disturbed: a new image of early angiosperm ecology. Paleobiology 30: pp. 82-107 4-8373(2004)030<0082:DADANI>2.0.CO;2" target="_blank" title="It opens in new window">CrossRef
33. Husband, BC, Barrett, SCH (1998) Spatial and temporal variation in population size of Eichhornia paniculata in ephemeral habitats: implications for metapopulation dynamics. J Ecol 86: pp. 1021-1031 46/j.1365-2745.1998.00324.x" target="_blank" title="It opens in new window">CrossRef
34. Graur, D, Martin, W (2004) Reading the entrails of chickens: molecular timescales of evolution and the illusion of precision. Trends Genet 20: pp. 80-86 CrossRef
35. Dos Reis, M, Inoue, J, Hasegawa, M, Asher, RJ, Donoghue, PCJ, Yang, Z (2012) Phylogenomic datasets provide both precision and accuracy in estimating the timescale of placental mammal phylogeny. Proc R Soc B Biol Sci 279: pp. 3491-3500 CrossRef
36. Nee, S, Holmes, EC, May, RM, Harvey, PH Estimating extinction from molecular phylogenies. In: Lawton, JH, May, RM eds. (1995) Extinction Rates. Oxford University Press, Oxford, pp. 164-182
37. Crisp, M, Cook, L, Steane, D (2004) Radiation of the Australian flora: what can comparisons of molecular phylogenies across multiple taxa tell us about the evolution of diversity in present-day communities?. Philos Trans R Soc London B Biol Sci 359: pp. 1551-1571 4.1528" target="_blank" title="It opens in new window">CrossRef
38. Crisp, MD, Cook, LG (2009) Explosive radiation or cryptic mass extinction? Interpreting signatures in molecular phylogenies. Evolution 63: pp. 2257-2265 46.2009.00728.x" target="_blank" title="It opens in new window">CrossRef
39. Taylor, TN, Taylor, EL (1993) The Biology and Evolution of Fossil Plants. Englewood Cliffs, New Jersey, Prentice Hall
40. Hughes, NF (1994) The Enigma of Angiosperm Origins. Cambridge University Press, Cambridge
41. Magall贸n, SA (2010) Using fossils to break long branches in molecular dating: a comparison of relaxed clocks applied to the origin of angiosperms. Syst Biol 59: pp. 384-399 CrossRef
42. Mathews, S, Clements, MD, Beilstein, MA (2010) A duplicate gene rooting of seed plants and the phylogenetic position of flowering plants. Philos Trans R Soc London B Biol Sci 365: pp. 383-395 CrossRef
43. Mohr, BAR, Bernardes-de-Oliveira, MEC, Taylor, DW (2008) Pluricarpellatia, a nymphaealean angiosperm from the Lower Cretaceous of northern Gondwana (Crato Formation, Brazil). Taxon 57: pp. 1147-1158
44. Taylor, DW, Brenner, GJ, Basha, SH (2008) Scutifolium jordanicum gen. et sp. nov. (Cabombaceae), an aquatic fossil plant from the Lower Cretaceous of Jordan, and the relationships of related leaf fossils to living genera. Am J Bot 95: pp. 340-352 40" target="_blank" title="It opens in new window">CrossRef
45. Friis, EM, Pedersen, KR, Crane, PR (2001) Fossil evidence of water lilies (Nymphaeales) in the early Cretaceous. Nature 410: pp. 357-360 CrossRef
46. Friis, EM, Pedersen, KR, von Balthazar, M, Grimm, GW, Crane, PR (2009) Monetianthus mirus gen. et sp. nov., a nymphaealean flower from the early Cretaceous of Portugal. Int J Plant Sci 170: pp. 1086-1101 CrossRef
47. Yamada, T, Nishida, H, Umebayashi, M, Uemura, K, Kato, M (2008) Oldest record of Trimeniaceae from the Early Cretaceous of northern Japan. BMC Evol Biol 8: pp. 135 471-2148-8-135" target="_blank" title="It opens in new window">CrossRef
48. Clarke, JT, Warnock, RCM, Donoghue, PCJ (2011) Establishing a time-scale for plant evolution. New Phytol 192: pp. 266-301 469-8137.2011.03794.x" target="_blank" title="It opens in new window">CrossRef
49. Hughes, NF, McDougall, AB (1990) Barremian-Aptian angiospermid pollen records from southern England. Rev Palaeobot Palynol 65: pp. 145-151 4-6667(90)90065-Q" target="_blank" title="It opens in new window">CrossRef
50. Friis, EM, Pedersen, KR, Crane, PR (2004) Araceae from the Early Cretaceous of Portugal: evidence on the emergence of monocotyledons. Proc Natl Acad Sci U S A 101: pp. 16565-16570 407174101" target="_blank" title="It opens in new window">CrossRef
51. Doyle, JA, Endress, PK (2010) Integrating early Cretaceous fossils into the phylogeny of living angiosperms: Magnoliidae and eudicots. J Syst Evol 48: pp. 1-35 CrossRef
52. Graham, SW, Iles, WJD (2009) Different gymnosperm outgroups have (mostly) congruent signal regarding the root of flowering plant phylogeny. Am J Bot 96: pp. 216-227 CrossRef
53. Rai, HS, Reeves, PA, Peakall, R, Olmstead, RG, Graham, SW (2008) Inference of higher-order conifer relationships from a multi-locus plastid data set. Botany 86: pp. 658-669 CrossRef
54. Graham, SW, Olmstead, RG (2000) Utility of 17 chloroplast genes for inferring the phylogeny of the basal angiosperms. Am J Bot 87: pp. 1712-1730 49" target="_blank" title="It opens in new window">CrossRef
55. Graham, SW, Reeves, PA, Burns, ACE, Olmstead, RG (2000) Microstructural changes in noncoding chloroplast DNA: interpretation, evolution, and utility of indels and inversions in basal angiosperm phylogenetic inference. Int J Plant Sci 161: pp. S83-S96 CrossRef
56. Drummond, AJ, Suchard, MA (2010) Bayesian random local clocks, or one rate to rule them all. BMC Biol 8: pp. 114 41-7007-8-114" target="_blank" title="It opens in new window">CrossRef
57. Dornburg, A, Brandley, MC, McGowen, MR, Near, TJ (2012) Relaxed clocks and inferences of heterogeneous patterns of nucleotide substitution and divergence time estimates across whales and dolphins (Mammalia: Cetacea). Mol Biol Evol 29: pp. 721-736 CrossRef
58. Drummond, AJ, Ho, SYW, Phillips, MJ, Rambaut, A (2006) Relaxed phylogenetics and dating with confidence. PLoS Biol 4: pp. e88 40088" target="_blank" title="It opens in new window">CrossRef
59. Smith, SA, Donoghue, MJ (2008) Rates of molecular evolution are linked to life history in flowering plants. Science 322: pp. 86-89 CrossRef
60. Smith, SA, Beaulieu, JM, Donoghue, MJ (2010) An uncorrelated relaxed-clock analysis suggests an earlier origin for flowering plants. Proc Natl Acad Sci U S A 107: pp. 5897-5902 CrossRef
61. L枚hne, C, Borsch, T, Wiersema, JH (2007) Phylogenetic analysis of Nymphaeales using fast-evolving and noncoding chloroplast markers. Bot J Linn Soc 154: pp. 141-163 CrossRef
62. Soltis, DE, Smith, SA, Cellinese, N, Wurdack, KJ, Tank, DC, Brockington, SF, Refulio-Rodriguez, NF, Walker, JB, Moore, MJ, Carlsward, BS, Bell, CD, Latvis, M, Crawley, S, Black, C, Diouf, D, Xi, Z, Rushworth, CA, Gitzendanner, MA, Sytsma, KJ, Qiu, Y-L, Hilu, KW, Davis, CC, Sanderson, MJ, Beaman, RS, Olmstead, RG, Judd, WS, Donoghue, MJ, Soltis, PS (2011) Angiosperm phylogeny: 17 genes, 640 taxa. Am J Bot 98: pp. 704-730 404" target="_blank" title="It opens in new window">CrossRef
63. Taylor, DW (2008) Phylogenetic analysis of Cabombaceae and Nymphaeaceae based on vegetative and leaf architectural characters. Taxon 57: pp. 1082-1095
64. Heled, J, Drummond, AJ (2010) Bayesian inference of species trees from multilocus data. Mol Biol Evol 27: pp. 570-580 4" target="_blank" title="It opens in new window">CrossRef
65. Ronquist, F (1997) Dispersal-vicariance analysis: a new approach to the quantification of historical biogeography. Syst Biol 46: pp. 195-203 46.1.195" target="_blank" title="It opens in new window">CrossRef
66. Ree, RH, Smith, SA (2008) Maximum likelihood inference of geographic range evolution by dispersal, local extinction, and cladogenesis. Syst Biol 57: pp. 4-14 CrossRef
67. Sanmart铆n, I, van der Mark, P, Ronquist, F (2008) Inferring dispersal: a Bayesian approach to phylogeny-based island biogeography, with special reference to the Canary Islands. J Biogeogr 35: pp. 428-449 CrossRef
68. Yu, Y, Harris, AJ, He, X (2010) S-DIVA (Statistical Dispersal-Vicariance Analysis): a tool for inferring biogeographic histories. Mol Phylogenet Evol 56: pp. 848-850 4.011" target="_blank" title="It opens in new window">CrossRef
69. Nee, S, May, RM, Harvey, PH (1994) The reconstructed evolutionary process. Philos Trans R Soc London B Biol Sci 344: pp. 305-311 4.0068" target="_blank" title="It opens in new window">CrossRef
70. FitzJohn, RG (2012) Diversitree: comparative phylogenetic analyses of diversification in R. Methods Ecol Evol 3: pp. 1084-1092 41-210X.2012.00234.x" target="_blank" title="It opens in new window">CrossRef
71. Core Team, R (2011) R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna
72. Pagel, M, Meade, A, Barker, D (2004) Bayesian estimation of ancestral character states on phylogenies. Syst Biol 53: pp. 673-684 490522232" target="_blank" title="It opens in new window">CrossRef
73. Sugiura, N (1978) Further analysis of the data by Akaike鈥檚 information criterion and the finite corrections. Commun Stat Theory Methods A7 7: pp. 13-26 CrossRef
74. Bell, CD, Soltis, DE, Soltis, PS (2010) The age and diversification of the angiosperms re-revisited. Am J Bot 97: pp. 1296-1303 46" target="_blank" title="It opens in new window">CrossRef
75. Magall贸n, S, Hilu, KW, Quandt, D (2013) Land plant evolutionary timeline: gene effects are secondary to fossil constraints in relaxed clock estimation of age and substitution rates. Am J Bot 100: pp. 556-573 416" target="_blank" title="It opens in new window">CrossRef
76. Ali, JR, Aitchison, JC (2008) Gondwana to Asia: plate tectonics, paleogeography and the biological connectivity of the Indian sub-continent from the Middle Jurassic through latest Eocene (166鈥?5 Ma). Earth-Science Rev 88: pp. 145-166 CrossRef
77. Baker, HG (1955) Self-compatibility and establishment after 鈥渓ong-distance鈥?dispersal. Evolution 9: pp. 347-349 405656" target="_blank" title="It opens in new window">CrossRef
78. Remizowa, MV, Sokoloff, DD, Macfarlane, TD, Yadav, SR, Prychid, CJ, Rudall, PJ (2008) Comparative pollen morphology in the early-divergent angiosperm family Hydatellaceae reveals variation at the infraspecific level. Grana 47: pp. 81-100 4214" target="_blank" title="It opens in new window">CrossRef
79. Rudall, PJ, Remizowa, MV, Beer, AS, Bradshaw, E, Stevenson, DW, Macfarlane, TD, Tuckett, RE, Yadav, SR, Sokoloff, DD (2008) Comparative ovule and megagametophyte development in Hydatellaceae and water lilies reveal a mosaic of features among the earliest angiosperms. Ann Bot 101: pp. 941-956 CrossRef
80. Sokoloff, DD, Remizowa, MV, Yadav, SR, Rudall, PJ (2010) Development of reproductive structures in the sole Indian species of Hydatellaceae, Trithuria konkanensis, and its morphological differences from Australian taxa. Aust Syst Bot 23: pp. 217-228 CrossRef
81. Pannell, JR, Barrett, SCH (1998) Baker鈥檚 Law revisited: reproductive assurance in a metapopulation. Evolution 52: pp. 657-668 411261" target="_blank" title="It opens in new window">CrossRef
82. Rabosky, DL (2010) Extinction rates should not be estimated from molecular phylogenies. Evolution 64: pp. 1816-1824 46.2009.00926.x" target="_blank" title="It opens in new window">CrossRef
83. Nee, S (2006) Birth-death models in macroevolution. Annu Rev Ecol Evol Syst 37: pp. 1-17 46/annurev.ecolsys.37.091305.110035" target="_blank" title="It opens in new window">CrossRef
84. Lancaster, LT (2010) Molecular evolutionary rates predict both extinction and speciation in temperate angiosperm lineages. BMC Evol Biol 10: pp. 162 471-2148-10-162" target="_blank" title="It opens in new window">CrossRef
85. Hamann, U Hydatellaceae. In: Kubitzki, K eds. (1998) Fam Genera Vasc Plants IV Flower Plants - Monocotyledons - Alismatanae Commelinanae. Springer, Berlin, pp. 231-234 CrossRef - 刊物主题：Evolutionary Biology; Animal Systematics/Taxonomy/Biogeography; Entomology; Genetics and Population Dynamics; Life Sciences, general;
- 出版者：BioMed Central
- ISSN：1471-2148
文摘
Background The aquatic flowering-plant family Hydatellaceae has a classic Gondwanan distribution, as it is found in Australia, India and New Zealand. To shed light on the biogeographic history of this apparently ancient branch of angiosperm phylogeny, we dated the family in the context of other seed-plant divergences, and evaluated its biogeography using parsimony and likelihood methods. We also explicitly tested the effect of different extinction rates on biogeographic inferences. Results We infer that the stem lineage of Hydatellaceae originated in the Lower Cretaceous; in contrast, its crown originated much more recently, in the early Miocene, with the bulk of its diversification after the onset of the Pliocene. Biogeographic reconstructions predict a mix of dispersal and vicariance events, but considerations of geological history preclude most vicariance events, besides a split at the root of the family between southern and northern clades. High extinction rates are plausible in the family, and when these are taken into account there is greater uncertainty in biogeographic inferences. Conclusions A stem origin for Hydatellaceae in the Lower Cretaceous is consistent with the initial appearance of fossils attributed to its sister clade, the water lilies. In contrast, the crown clade is young, indicating that vicariant explanations for species outside Australia are improbable. Although long-distance dispersal is likely the primary driver of biogeographic distribution in Hydatellaceae, we infer that the recent drying out of central Australia divided the family into tropical vs. subtropical/temperate clades around the beginning of the Miocene.