Diversification of land plants: Insights from a family-level phylogenetic analysis

BMC Evolutionary Biology

Volumn 11, Issue 1, 2011, Pages

  Fiz Palacios, Omar ^a,b   Schneider, Harald ^c   Heinrichs, Jochen ^d   Savolainen, Vincent ^a,e  

^a IMPERIAL COLLEGE LONDON   (United Kingdom)

^b UPPSALA UNIVERSITY   (Sweden)

^c DEPARTMENT OF LIFE SCIENCES   (United Kingdom)

^d UNIVERSITY OF GÖTTINGEN   (Germany)

^e ROYAL BOTANIC GARDENS   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

CLIMATE MODELING; CLIMATE VARIATION; CRETACEOUS; DIVERSITY INDEX; EXTINCTION; FERN; FOSSIL RECORD; GEOLOGICAL TIME; GYMNOSPERM; LIVERWORT; MOLECULAR ANALYSIS; MOSS; PALEOENVIRONMENT; PHYLOGENETICS; PHYLOGENY; TOPOLOGY;

BRYOPHYTA; EMBRYOPHYTA; FILICOPHYTA; GYMNOSPERMAE; MAGNOLIOPHYTA; MARCHANTIOPHYTA;

ANGIOSPERM; ARTICLE; CLIMATE; EMBRYOPHYTA; FERN; FOSSIL; GENETIC VARIABILITY; GENETICS; GYMNOSPERM; MOSS; PHYLOGENY;

ANGIOSPERMS; BRYOPHYTA; CLIMATE; EMBRYOPHYTA; FERNS; FOSSILS; GENETIC VARIATION; GYMNOSPERMS; PHYLOGENY;

EID: 81355160990     PISSN: None     EISSN: 14712148     Source Type: Journal    
DOI: 10.1186/1471-2148-11-341     Document Type: Article

References (57)

1. Biological response to climate change on a tropical mountain. Pounds JA, Fogden MPL, Campbell JH, Nature 1999 398 611 615 10.1038/19297 (Pubitemid 29183687)
2. A globally coherent fingerprint of climate change impacts across natural systems. Parmesan C, Yohe G, Nature 2003 421 37 42 10.1038/nature01286 12511946 (Pubitemid 36077078)
3. Fingerprints of global warming on wild animals and plants. Root TL, Price JT, Hall KR, Schneider H, Rosenzweig C, Pounds JA, Nature 2003 421 57 60 10.1038/nature01333 12511952 (Pubitemid 36077083)
4. Causes of mass extinctions. Wignall PB, Extinctions in the history of life Cambridge University Press, Taylor PD, 2004 151 174
5. Fragments of the earliest land plants. Wellman CH, Osterhoff PL, Mohiuddin U, Nature 2003 425 282 285 10.1038/nature01884 13679913 (Pubitemid 37158401)
6. Origin and radiation of the earliest vascular land plants. Steemans P, Le Herisse A, Melvin J, Miller MA, Paris F, Verniers J, Wellmann CH, Science 2009 324 353 10.1126/science.1169659 19372423
7. Towards a natural classification of liverworts (Marchantiophyta) based on the chloroplast gene rbcL. Heinrichs J, Gradstein SR, Wilson R, Schneider H, Crypt Bryol 2005 26 131 150 (Pubitemid 40623533)
8. A Checklist of the Mosses. Crosby MR, Magill RE, Allen B, He S, 1999 http://www.mobot.org/MOBOT/tropicos/most/checklist.shtml
9. Morphology and classification of mosses. Buck WR, Goffinet B, Bryophyte Biology Cambridge: Cambridge University Press, Shaw AJ, Goffinet B, 2000 71 123
10. Phylogeny and diversification of bryophytes. Shaw J, Renzaglia K, Am J Bot 2004 91 1557 1581 10.3732/ajb.91.10.1557 21652309 (Pubitemid 43203439)
11. A classification of extant ferns. Smith AR, Pryer KM, Schuettpelz E, Korall P, Schneider H, Wolf PG, Taxon 2006 55 705 731 10.2307/25065646
12. Starr A, Evers CA, Starr L, Biology: Concepts and Applications Without Physiology New York: Brooks/Cole Publishing 2008
13. Angiosperm phylogeny website, v8. Stevens PF, 2001 http://www.mobot.org/ MOBOT/research/APweb
14. The origin and early evolution of plants on land. Kenrick P, Crane PR, Nature 1997 389 33 39 10.1038/37918 (Pubitemid 27387682)
15. Horsetails and ferns are a monophyletic group and the closest living relatives to seed plants. Pryer KM, Schneider H, Smith AR, Cranfill R, Wolf PG, Hunt JS, Sipes SD, Nature 2001 409 618 622 10.1038/35054555 11214320 (Pubitemid 32154813)
16. The deepest divergences in land plants inferred from phylogenomic evidence. Qiu Y, et al. Proc Natl Acad Sci USA 2006 103 15511 15516 10.1073/pnas.0603335103 17030812 (Pubitemid 44625623)
17. Rosid radiation and the rapid rise of angiosperm-dominated forests. Wang H, Moore MJ, Soltis PS, Bell CD, Brockington SF, Alexandre R, Davis CC, Latvis M, Manchester SR, Soltis DE, Proc Natl Acad Sci USA 2009 106 3853 3858 10.1073/pnas.0813376106 19223592
18. Evidence for the earliest stage of angiosperm pollen evolution: A paleoequatorial section from Israel. Brenner GJ, Flowering plant origin, evolution and phylogeny New York: Chapman & Hall, Taylor DW, Hickey LJ, 1996 91 115
19. Absolute diversification rates in angiosperm clades. Magallán S, Sanderson MJ, Evolution 2001 55 1762 1780 11681732 (Pubitemid 32983995)
20. Detecting diversification rate variation in supertrees. Moore BR, Chan KMA, Donoghue MJ, Phylogenetic Supertrees: Combining Information to Reveal the Tree of Life Dordrecht: Netherlands Kluwer Academic, Bininda-Emonds ORP, 2004 487 533
21. Frakes L, Francis JE, Syktus JI, Climate modes of the phanerozoic Cambridge: Cambridge Univ. Press 1992
22. PALEOMAP Project. Scotese CR, 2001 http://www.scotese.com/Default.htm
23. LASER: A Maximum Likelihood Toolkit for Detecting Temporal Shifts in Diversification Rates From Molecular Phylogenies. Rabosky DL, Evol Bioinf Online 2006 2 257 260
24. Nine exceptional radiations plus high turnover explain species diversity in jawed vertebrates. Alfaro ME, Santini F, Brock C, Alamillo H, Dornburg A, Rabosky DL, Carnelale G, Harmon LJ, Proc Natl Acad Sci USA 2009 106 13410 13414 10.1073/pnas.0811087106 19633192
25. The delayed resurgence of equatorial forests after the Permian-Triassic ecologic crisis. Looy CV, Brugman WA, Dilcher DL, Visscher H, Proc Natl Acad Sci USA 1999 96 13857 13862 10.1073/pnas.96.24.13857 10570163
26. Life in the end-Permian dead zone. Looy CV, Twitchett RJ, Dilcher DL, Van Konijnenburg-Van JHA, Visscher H, Proc Natl Acad Sci USA 2001 98 7879 7883 10.1073/pnas.131218098 11427710 (Pubitemid 32642655)
27. The age and diversification of the angiosperms re-revisited. Bell CD, Soltis DE, Soltis PS, Am J Bot 2010 97 1296 1303 10.3732/ajb.0900346 21616882
28. Ferns diversified in the shadow of the angiosperms. Schneider H, Schuettpelz E, Pryer KM, Cranfill R, Magallán S, Lupia R, Nature 2004 428 553 557 10.1038/nature02361 15058303 (Pubitemid 38480537)
29. Why are there so many kinds of flowering plants? Burger WC, Bioscience 1981 31 572 581 10.2307/1308218
30. Angiosperm diversification through time. Magallán S, Castillo A, Am J Bot 2009 96 349 365 10.3732/ajb.0800060 21628193
31. Evidence for a Cenozoic radiation of ferns in an angiosperm-dominated canopy. Schuettpelz E, Pryer KM, Proc Natl Acad Sci USA 2009 106 11200 11205 10.1073/pnas.0811136106 19567832
32. Dating the Diversification of the Pleurocarpous Mosses. Newton AE, Wikstrom N, Bell N, Forrest NL, Ignatov MS, Pleurocarpous Mosses: Systematics and Evolution CRC Press, Newton AE, Tangney RS, 2007 337 366
33. High rates of nucleotide substitution in nuclear small-subunit (18S) rDNA from holoparasitic flowering plants. Nickrent D, Starr EM, J Mol Evol 1994 39 62 70 8064875 (Pubitemid 24181125)
34. Phylogenetic relationships among the diplolepidous-alternate mosses (Bryidae) inferred from nuclear and chloroplast DNA sequences. Cox C, Goffinet B, Newton AE, Shaw AJ, Hedderson TAJ, Bryologist 2000 103 224 241 10.1639/0007-2745(2000)103[0224:PRATDA]2.0.CO;2 (Pubitemid 30400344)
35. A Rapid Bootstrap Algorithm for the RAxML Web-Servers. Stamatakis A, Hoover P, Rougemont J, Syst Biol 2008 75 758 771
36. Modeltest: testing the model of DNA substitution. Posada D, Crandall KA, Bioinformatics 1998 14 817 818 10.1093/bioinformatics/14.9.817 9918953 (Pubitemid 28552116)
37. r8s: inferring absolute rates of molecular evolution and divergence times in the absence of a molecular clock. Sanderson MJ, Bioinformatics 2003 19 301 303 10.1093/bioinformatics/19.2.301 12538260 (Pubitemid 36181923)
38. Diversity of early angiosperm pollen in a cladistic context. Doyle JA, Hotton CL, Pollen and spores Oxford: Clarendon Press, Blackmore S, Barnes A, 1991 169 195
39. Dating the early evolution of plants: detection and molecular clock analyses of orthologs. Zimmer A, Lang D, Richardt S, Frank W, Reski R, Rensing R, Mol Genet Genom 2007 278 393 402 10.1007/s00438-007-0257-6 (Pubitemid 47437683)
40. APE: Analyses of Phylogenetics and Evolution in R language. Paradis E, Claude J, Strimmer K, Bioinformatics 2004 20 289 290 10.1093/bioinformatics/ btg412 14734327 (Pubitemid 38195693)
41. The origins and diversification of C4 grasses and savanna-adapted ungulates. Bouchenak-Khelladi Y, Verboom GA, Hodkinson TR, Salamin N, Francois O, Chonghaile GN, Savolainen V, Global Change Biol 2009 1 21
42. ApTreeshape: a statistical analysis of phylogenetic treeshape. Bortolussi N, Durand E, Blum MGB, Francois O, Bioinformatics 2006 22 363 364 10.1093/bioinformatics/bti798 16322049 (Pubitemid 43205387)
43. Bryophytes. Stotler RE, Crandall-Stotler BJ, 2011 http://bryophytes. plant.siu.edu/
44. Some plant remains from the Upper Cretaceous and Tertiary of West Africa. Chesters KIM, Ann Mag Nat Hist 1955 12 498 504
45. Palaeobotanical evidence on the early radiation of magnoliid angiosperms. Crane PR, Friis EM, Pedersen KR, Plant Syst Evol 1994 8 51 72
46. Archaeanthus: an early angiosperm from the Cenomanian of the western interior of North America. Dilcher DL, Crane PR, Ann Mo Bot Gard 1984 71 351 383 10.2307/2399030
47. Phylogenetic pattern, diversity, and diversification of eudicots. Magallon S, Crane PR, Herendeen PS, Ann Mo Bot Gard 1999 86 297 372 10.2307/2666180 (Pubitemid 29358256)
48. Virgininanthus calycanthoides gen. et sp. nov.: a calycanthaceous flower from the Potomac Group (Early Cretaceous) of eastern North America. Friis EM, Eklund H, Pedersen KR, Crane PR, Int J Plant Sci 1994 155 772 785 10.1086/297217
49. Angiosperm floral structures from the Early Cretaceous of Portugal. Friis EM, Pedersen KR, Crane PR, Plant Syst Evol 1994 8 31 49
50. Fossil evidence of water lilies (Nymphaeales) in the Early Cretaceous. Friis EM, Pedersen KR, Crane PR, Nature 2001 410 356 360
51. Nordenskioldia and Trochodendron (Trochodendraceae) from the Miocene of Northwestern North America. Manchester SR, Crane PR, Dilcher DL, Bot Gazette 1991 152 357 368 10.1086/337898
52. Early Cretaceous tetrads, zonasulcate pollen, and Winteraceae. I. Taxonomy, morphology, and ultrastructure. Doyle JA, Hotton CL, Ward JV, Am J Bot 1990 77 1544 1557 10.2307/2444487
53. Early Cretaceous tetrads, zonasulcate pollen, and Winteraceae. II. Cladistic analysis and implications. Doyle JA, Am J Bot 1990 77 1558 1568 10.2307/2444488
54. Evolution of leafy liverworts (Jungermanniidae, Marchantiophyta): estimating divergence times from chloroplast DNA sequences using penalized likelihood with integrated fossil evidence. Heinrichs J, Hentschel J, Wilson R, Feldberg K, Schneider H, Taxon 2007 56 31 44 (Pubitemid 46492437)
55. Palaeobiology and phylogenetic implications of anatomically preserved Archaeocalamites from the Dinantian of Oxroad Bay and Loch Humphrey Bun, Scotland. Bateman RM, Palaeontographica Abt B Palaephytol 1991 223 1 59
56. Implications of fossil conifers for the phylogenetic relationships of living families. Miller CN, Bot Rev 1999 30 239 277
57. Dating the diversification of the pleurocarpous mosses. Newton AE, Wikström N, Bell N, Forrest LL, Ignatov MS, Pleurocarpous mosses: Systematics and Evolution CRC Press, Boca Raton, Systematics Association, Newton A, Tangney N, 2006 337 366