Diversification of myco-heterotrophic angiosperms: Evidence from Burmanniaceae

BMC Evolutionary Biology

Volumn 8, Issue 1, 2008, Pages

  Merckx, Vincent ^a   Chatrou, Lars W ^b   Lemaire, Benny ^a   Sainge, Moses N ^c   Huysmans, Suzy ^a   Smets, Erik F ^a,d  

^a UNIVERSITY OF LEUVEN   (Belgium)

^b WAGENINGEN UNIVERSITY   (Netherlands)

^c UNIVERSITY OF BUEA   (Cameroon)

^d UNIVERSITEIT LEIDEN BRANCH   (Netherlands)

Author keywords

[No Author keywords available]

Indexed keywords

ANGIOSPERM; ARTICLE; BIODIVERSITY; BURMANNIACEAE; CONTROLLED STUDY; GENETIC ANALYSIS; HETEROTROPHY; HIGHER PLANT; NONHUMAN; PHYLOGENY; PLANT EVOLUTION; CLASSIFICATION; GENETICS; SPECIES DIFFERENTIATION; TIME;

BURMANNIA; BURMANNIACEAE; GYMNOSIPHON; MAGNOLIOPHYTA;

NICOTINAMIDE ADENINE DINUCLEOTIDE; RIBOSOMAL SPACER DNA; RNA 18S;

ANGIOSPERMS; DNA, RIBOSOMAL SPACER; GENETIC SPECIATION; NAD; PHYLOGENY; RNA, RIBOSOMAL, 18S; TIME FACTORS;

EID: 48749110916     PISSN: None     EISSN: 14712148     Source Type: Journal    
DOI: 10.1186/1471-2148-8-178     Document Type: Article

References (102)

1. A review of African saprophytic flowering plants. M Cheek S Williams, African plants: biodiversity, taxonomy Kew: Royal Botanic Gardens, Timberlake J, Kativu S, 1999 39 49
2. Corsiopsis chinensis gen. et sp. nov. (Corsiaceae): first record of the family in Asia. D Zhang RMK Saunders C Hu, Syst Bot 1999 24 311 314 10.2307/2419691
3. Rediscovery of Haplothismia exannulata Airy Shaw (Burmanniaceae) from its type locality. N Sasidharan P Sujanapal, Rheedea 2000 10 131 134
4. Tiputinia foetida, a new mycoheterotrophic genus of Thismiaceae from Amazonian Ecuador, and a likely case of deceit pollination. C Woodward PE Berry H Maas-van de Kamer K Swing, Taxon 2007 56 157 162
5. The biology of myco-heterotrophic ('saprophytic') plants. JR Leake, New Phytol 1994 127 171 216 10.1111/j.1469-8137.1994.tb04272.x
6. Epiparasitic plants specialized on arbuscular mycorrhizal fungi. MI Bidartondo D Redecker I Hijri A Wiemken TD Bruns L Domínguez A Sérsic JR Leake DJ Read, Nature 2002 419 389 392 10.1038/nature01054 12353033
7. Arbuscular mycorrhizal fungi of the Glomus-group A lineage (Glomerales; Glomeromycota) detected in myco-heterotrophic plants from tropical Africa. T Franke L Beenken M Döring A Kocyan R Agerer, Mycol Progress 2006 5 24 31 10.1007/s11557-006-0500-2
8. Voyria and Voyriella (saprophytic Gentianaceae). PJM Maas P Ruyters, Flora Neotropica 1986 41 1 93
9. Die Burmannien der ersten Regnel'schen Expedition. GOA Malme, Bih Kongl Svenska Vetensk-Akad Handl 1896 22 1 32
10. A monograph of the Burmanniaceae. FP Jonker, Meded Bot Mus Herb Rijksuniv Utrecht 1938 51 1 279
11. Angiosperm biogeography and past continental movements. PH Raven DI Axelrod, Ann Miss Bot Gard 1974 61 539 673 10.2307/2395021
12. The breakup history of Gondwana and its impact on pre-Cenozoic floristic provincialism. S McLoughlin, Aust J Bot 2001 49 271 300 10.1071/BT00023
13. The age of major monocot groups inferred from 800+ rbcL sequences. T Janssen K Bremer, Bot J Linn Soc 2004 146 385 398 10.1111/j.1095-8339.2004. 00345.x
14. Sources of error and confidence intervals in estimating the age of angiosperms from rbcL and 18S rDNA data. MJ Sanderson JA Doyle, Am J Bot 2001 88 1499 1516 10.2307/3558458
15. Taxon sampling effects in molecular clock dating: an example from the African Restionaceae. HP Linder CR Hardy F Rutschmann, Mol Phylogenet Evol 2005 35 569 582 10.1016/j.ympev.2004.12.006 15878126
16. Phylogeny reconstruction and molecular dating in four Neotropical genera of Annonaceae: the effect of taxon sampling in age estimations. MD Pirie LW Chatrou RHJ Erkens JW Maas T van der Niet JB Mols JE Richardson, Plant species-level systematics: new perspectives on pattern & process. Regnum Vegetabile 143 Liechtenstein: A.R.G. Gantner Verlag, Ruggell, Bakker FT, Chatrou LW, Gravendeel B, Pelser PB, 2005 149 174
17. Assessing the quality of molecular divergence time estimates by fossil calibrations and fossil-based model selection. TJ Near MJ Sanderson, Philos Trans R Soc Lond B Biol Sci 2004 359 1450 1477 1483 15519966 10.1098/rstb.2004.1523
18. The mahogany family "out of Africa": divergence time estimation, global biogeographic patterns inferred from plastid rbcL DNA sequences, extant, and fossil distribution of diversity. AN Muellner V Savolainen R Samuel MW Chase, Mol Phylogenet Evol 2006 40 236 250 10.1016/j.ympev.2006.03.001 16624592
19. Reading the entrails of chickens: Molecular timescales of evolution and the illusion of precision. D Graur W Martin, Trends Genet 2004 20 80 86 10.1016/j.tig.2003.12.003 14746989
20. Relaxed phylogenetics and dating with confidence. AJ Drummond SYW Ho MJ Phillips A Rambaut, PLoS Biol 2006 4 e88 16683862 10.1371/journal.pbio.0040088
21. The resurrection of oceanic dispersal in historical biogeography. A de Queiroz, Trends Ecol Evol 2005 20 68 73 10.1016/j.tree.2004.11.006 16701345
22. Relaxed molecular clocks for dating historical plant dispersal events. SS Renner, Trends Plant Sci 2005 10 11 550 558 16226053 10.1016/j.tplants.2005.09. 010
23. Laurasian migration explains Gondwanan disjunctions: evidence from Malpighiaceae. CC Davis CD Bell S Mathews MJ Donoghue, Proc Natl Acad Sci USA 2002 99 6833 6837 11983870 10.1073/pnas.102175899
24. Ancient vicariance or recent long-distance dispersal? Inferences about phylogeny and South American-African disjunctions in Rapateaceae and Bromeliaceae based on ndhF sequence data. TJ Givnish KC Millam TM Evans JC Hall JC Pires PE Berry KJ Sytsma, Int J Plant Sci 2004 165 S35 S54 10.1086/421067
25. Boreotropical migration explains hybridization between geographically distant lineages in the pantropical clade Sideroxyleae (Sapotaceae). JEE Smedmark A Anderberg, Am J Bot 2007 94 1491 1505 10.3732/ajb.94.9.1491
26. The phylogenetic history and biogeography of the frankincense and myrrh family (Burseraceae) based on nuclear and chloroplast sequence data. A Weeks DC Daly BB Simpson, Mol Phylogenet Evol 2004 35 85 101 10.1016/j.ympev.2004.12.021
27. Historical biogeography of Melastomataceae: the roles of Tertiary migration and long-distance dispersal. SS Renner G Clausing K Meyer, Am J Bot 2001 88 1290 1300 10.2307/3558340 11454629
28. Biogeography and divergence times in the mulberry family (Moraceae). NJC Zerega WL Clement SL Datwyler GD Weiblen, Mol Phylogenet Evol 2005 37 402 416 10.1016/j.ympev.2005.07.004 16112884
29. Recent oceanic long-distance dispersal and divergence in the amphi-Atlantic rain forest genus Renealmia L.f. (Zingiberaceae). TE Särkinen MF Newman PJM Maas H Maas AD Poulsen DJ Harris JE Richardson A Clark M Hollingsworth RT Pennington, Mol Phylogenet Evol 2007 44 968 980 10.1016/j.ympev.2007.06.007 17662622
30. Testing macro-evolutionary models using incomplete molecular phylogenies. OG Pybus PH Harvey, Proc R Soc B 2000 267 2267 2272 11413642 10.1098/rspb.2000.1278
31. Detecting diversification rate variation in supertrees. BR Moore KMA Chan MJ Donoghue, Phylogenetic supertrees: combining information to reveal the tree of life Dordrecht: Kluwer Academic, Bininda-Emonds ORP, 2004 487 533
32. Araceae from the early Cretaceous of Portugal: evidence on the emergence of monocotyledons. EM Friis KR Pedersen PR Crane, Proc Natl Acad Sci U S A 2004 101 16565 16570 15546982 10.1073/pnas.0407174101
33. Molecular dating of phylogenetic trees: a brief review of current methods that estimate divergence times. F Rutschmann, Diversity Distrib 2006 12 35 48 10.1111/j.1366-9516.2006.00210.x
34. Breakdown and delayed cospeciation in the arbuscular mycorrhizal mutualism. V Merckx MI Bidartondo, Proc R Soc B 2008 275 1029 1035 10.1098/rspb.2007.1622 18270159
35. Playing chicken (Gallus gallus): methodological inconsistencies of molecular divergence date estimates due to secondary calibration points. S Shaul D Graur, Gene 2002 300 59 61 10.1016/S0378-1119(02)00851-X 12468086
36. Warm tropical ocean surface and global anoxia during the mid-Cretaceous period. PA Wilson RD Norris, Nature 2001 412 425 429 10.1038/35086553 11473314
37. North American nonmarine climates and vegetation during the Late Cretaceous. JA Wolfe GR Upchurch, Palaeogeography, Palaeoclimatology, Palaeoecology 1987 61 33 77 10.1016/0031-0182(87)90040-X
38. Explosive radiation of Malpighiales supports a mid-Cretaceous origin of modern tropical rain forests. CC Davis CO Webb KJ Wurdack CA Jaramillo MJ Donoghue, Am Nat 2005 165 E36 E65 10.1086/428296 15729659
39. Changing partners in the dark: isotopic and molecular evidence of ectomycorrhizal liaisons between forest orchids and trees. MI Bidartondo B Burghardt G Gebauer TD Bruns DJ Read, Proc R Soc B 2004 271 1799 1806 15315895 10.1098/rspb.2004.2807
40. Gondwanan origin of major monocot groups inferred from dispersal-vicariance analysis. K Bremer T Janssen, Monocots: comparative biology and evolution. Aliso 22 Claremont: Rancho Santa Anna Botanic Garden, Columbus JT, Friar EA, Hamilton CW, Porter JM, Prince LM, Simpson MG, 2006 22 27
41. Plate tectonics and Australasian paleobiogeography. PH Raven DI Axelrod, Science 1972 176 1379 1386 10.1126/science.176.4042.1379 17834636
42. Phylogeny and historical biogeography of Lauraceae: evidence from the chloroplast and nuclear genomes. AS Chanderbali H Van Der Werff SS Renner, Ann Miss Bot Gard 2002 88 104 134 10.2307/2666133
43. Historical biogeography of two cosmopolitan families of flowering plants: Annonaceae and Rhamnaceae. JE Richardson LW Chatrou JB Mols RHJ Erkens MD Pirie, Phil Trans R Soc B 2004 359 1495 1508 15519968 10.1098/rstb.2004.1537
44. Repeated evolution of dioecy from monoecy in Siparunaceae. S Renner H Won, Syst Biol 2001 50 700 712 10.1080/106351501753328820 12116940
45. Review of sea floor spreading around Australia. I. Synthesis of the patterns of spreading. JJ Veevers C Powell SR Roots, J Afr Earth Sci 1991 38 373 389 10.1080/08120099108727979
46. Late Cretaceous vicariance in Gondwanan amphibians. I Van Bocxlaer K Roelants SD Biju J Nagaraju F Bossuyt, PLoS ONE 2006 1 e74 17183706 10.1371/journal.pone.0000074
47. Palynological evidence for Tertiary plant dispersals in the SE Asian region in relation to plate tectonics and climate. RJ Morley, Biogeography and Geological Evolution of SE Asia Leiden: Backhuys Publishers, Hall R, Holloway JD, 1998 211 234
48. Tempo and mode of evolutionary radiation in iguanian lizards. LJ Harmon JA Schulte A Larson JB Losos, Science 2003 301 961 964 10.1126/science.1084786 12920297
49. A tropical rainforest in Colorado 1.4 million years after the Cretaceous-Tertiary boundary. KR Johnson B Ellis, Science 2002 296 2379 2383 10.1126/science.1072102 12089439
50. Land plant extinction at the end of the Cretaceous: a quantitative analysis of the North Dakota megafloral record. P Wilf KR Johnson, Paleobiology 2004 30 347 368 10.1666/0094-8373(2004)030<0347:LPEATE>2.0.CO;2
51. Perspectives on the origin of the floristic similarity between eastern Asia and eastern North America. BH Tiffney, J Arnold Arb 1985 66 73 94
52. Trends, rhythms, and aberrations in global climate 65 Ma to present. J Zachos M Pagani L Sloan E Thomas K Billups, Science 2001 292 686 693 10.1126/science.1059412 11326091
53. Late Paleocene-early Eocene climate changes in southwestern Wyoming: Paleobotanical analysis. P Wilf, Geol Soc Am Bull 2000 112 292 307 10.1130/0016-7606(2000)112<0292:LPEECC>2.3.CO;2
54. High plant diversity in Eocene South America: evidence from Patagonia. P Wilf N Rubén Cuneo KR Johnson JF Hicks SL Wing JD Obradovich, Science 2003 300 122 125 10.1126/science.1080475 12677065
55. Some aspects of plant geography of the northern hemisphere during the Late Cretaceous and Tertiary. JA Wolfe, Ann Miss Bot Gard 1975 62 264 279 10.2307/2395198
56. Loss of photosynthetic and chlororespiratory genes from the plastid genome of a parasitic flowering plant. CW dePamphilis JD Palmer, Nature 1990 348 337 339 10.1038/348337a0 2250706
57. Photosynthetic evolution in parasitic plants: insights from the chloroplast genome. RA Bungard, BioEssays 2004 26 235 247 10.1002/bies.10405 14988925
58. Response of tropical vegetation to Paleogene warming. CA Jaramillo, Paleobiology 2002 28 222 243 10.1666/0094-8373(2002)028<0222:ROTVTP>2.0. CO;2
59. Burmanniaceae. PJM Maas H Maas-van de Kamer J van Benthem HCM Snelders T Rübsamen, Flora Neotropica 1986 42 1 189
60. Burmanniaceae. H Maas-van de Kamer, Families and genera of vascular plants, Monocotyledons, Lilianae (except Orchidaceae) Berlin: Springer, Kubitzki K, 1998 154 164
61. Phylogeny and evolution of Burmanniaceae (Dioscoreales) based on nuclear and mitochondrial data. V Merckx P Schols H Maas-Van de Kamer P Maas S Huysmans E Smets, Am J Bot 2006 93 1684 1698 10.3732/ajb.93.11.1684
62. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. TJ White T Burns S Lee J Taylor, PCR protocols: a guide to methods and applications San Diego: Academic Press, Innis M, Gelfand D, Sininsky J, White T, 1990 315 322
63. The Staden Package. R Staden K Beal J Bonfield, Computer Methods in Molecular Biology New York: Humana Press, Miseners S, Krawetz S, 1998 115 130
64. DR Maddison WP Maddison, MacClade 4: analysis of phylogeny and character evolution, Version 4.01 Sunderland: Sinauer Associates 2001
65. Gaps as characters in sequence-based phylogenetic analyses. MP Simmons H Ochoterena, Syst Biol 2000 49 369 381 10.1080/10635159950173889 12118412
66. SeqState - Primer design and sequence statistics for phylogenetic DNA data sets. K Müller, Appl Bioin 2005 4 65 69 10.2165/00822942-200504010- 00008
67. DL Swofford, PAUP*. Phylogenetic analysis using parsimony (* and other methods), Version 4 Sunderland: Sinauer Associates 2002
68. MODELTEST: testing the model of DNA substitution. D Posada KA Crandall, Bioinformatics 1998 14 817 818 10.1093/bioinformatics/14.9.817 9918953
69. MrBayes 3.1 Manual. Draft 5/17/2005. F Ronquist JP Huelsenbeck P van der Mark, http://mrbayes.csit.fsu.edu/mb3.1_manual.pdf
70. MRBAYES. Bayesian inference of phylogeny. JP Huelsenbeck F Ronquist, Bioinformatics 2001 17 754 755 10.1093/bioinformatics/17.8.754 11524383
71. MRBAYES 3: Bayesian phylogenetic inference under mixed models. F Ronquist JP Huelsenbeck, Bioinformatics 2003 19 1572 1574 10.1093/bioinformatics/btg180 12912839
72. A Rambaut AJ Drummond, Tracer v1.4 2007 http://beast.bio.ed.ac.uk/tracer
73. Absolute diversification rates in angiosperm clades. S Magallón MJ Sanderson, Evolution 2001 55 1762 1780 11681732
74. Monocot relationships: an overview. MW Chase, Am J Bot 2004 91 1645 1655 10.3732/ajb.91.10.1645
75. Estimating absolute rates of molecular evolution and divergence times: a penalized likelihood approach. MJ Sanderson, Mol Biol Evol 2002 19 101 109 11752195
76. Triuridaceae fossil flowers from the Upper Cretaceous of New Jersey. MA Gandolfo KC Nixon WL Crepet, Am J Bot 2002 89 1940 1957 10.3732/ajb.89.12.1940
77. Morphological phylogenetic analysis of Pandanales: testing constrasting hypotheses of floral evolution. P Rudall RM Bateman, Syst Bot 2006 31 223 238 10.1600/036364406777585766
78. Upper Cretaceous Zingiberalean fruits with in situ seeds from southeastern Coahuila, Mexico. RA Rodriguez-de la Rosa SRS Cevallos-Ferriz, Int J Plant Sci 1994 155 786 805 10.1086/297218
79. Early Cretaceous lineages of monocot flowering plants. K Bremer, Proc Natl Acad Sci USA 2000 97 4707 4711 10759567 10.1073/pnas.080421597
80. Palm pollen and the fossil record. MM Harley, PhD thesis University of East London and Royal Botanic Garden, Kew 1996
81. The evolutionary history of the Poales/Restionales: a hypothesis. HP Linder, Kew Bull 1987 42 297 318 10.2307/4109686
82. Dating the origin of the Orchidaceae from a fossil orchid with its pollinator. SR Ramírez B Gravendeel RB Singer CR Marshall NE Pierce, Nature 2007 448 1042 1045 10.1038/nature06039 17728756
83. Evolution of the angiosperms: calibrating the family tree. N Wikström V Savolainen MW Chase, Proc R Soc B 2001 268 2211 2220 11674868 10.1098/rspb.2001.1782
84. Darwin's abominable mystery: Insights from a supertree of the angiosperms. TJ Davies TG Barraclough MW Chase PS Soltis DE Soltis V Savolainen, Proc Natl Acad Sci USA 2004 101 1904 1909 14766971 10.1073/pnas.0308127100
85. Identifying the basal angiosperm node in chloroplast genome phylogenies: sampling one's way out of the Felsenstein zone. J Leebens-Mack LA Raubeson L Cui JV Kuehl MH Fourcade TW Chumley JL Boore RK Jansen CW dePamphilis, Mol Biol Evol 2005 22 1948 1963 10.1093/molbev/msi191 15944438
86. r8s: inferring absolute rates of molecular evolution and divergence times in the absence of a molecular clock. MJ Sanderson, Bioinformatics 2003 19 301 302 10.1093/bioinformatics/19.2.301 12538260
87. BEAST: Bayesian evolutionary analysis by sampling trees. AJ Drummond A Rambaut, BMC Evol Biol 2007 7 214 17996036 10.1186/1471-2148-7-214
88. BEAST partitioning. http://tlpcouvreur.googlepages.com/beastpartitioning
89. Extinction rates can be estimated from molecular phylogenies. S Nee EC Holmes RM May PH Harvey, Phil Trans R Soc B 1994 344 77 82 10.1098/rstb.1994. 0054 8878259
90. Global patterns of diversification in the history of modern amphibians. K Roelants DJ Gower M Wilkinson SP Loader SD Biju K Guillaume L Moriau F Bossuyt, Proc Natl Acad Sci USA 2007 104 887 892 17213318 10.1073/pnas.0608378104
91. PhyloGen, version 1.1. A Rambaut, 2002 http://evolve.zoo.ox.ac.uk/ software/PhyloGen
92. New inferences from tree shape: numbers of missing taxa and population growth rates. OG Pybus A Rambaut EC Holmes PJ Harvey, Syst Biol 2002 51 881 888 10.1080/10635150290102582 12554454
93. Rapid lineage accumulation in a non-adaptive radiation: phylogenetic analysis of diversification rates in eastern North American woodland salamanders (Plethodontidae: Plethodon). KH Kozak DW Weisrock A Larson, Proc R Soc B 2006 273 539 546 16537124 10.1098/rspb.2005.3326
94. GENIE: estimating demographic history from molecular phylogenies. OG Pybus A Rambaut, Bioinformatics 2002 18 1404 1405 10.1093/bioinformatics/18.10. 1404 12376389
95. End-Epi: an application for inferring phylogenetic and population dynamical processes from molecular sequences. A Rambaut PH Harvey S Nee, CABIOS 1997 13 303 306 9183536
96. TreeEdit v.1.0 alpha 10. A Rambaut M Charleston, 2002 http://evolve.zoo.ox.ac.uk/software/TreeEdit
97. Testing for constant diversification rates using molecular phylogenies: a general approach based on statistical tests for goodness of fit. E Paradis, Mol Biol Evol 1998 15 476 479
98. Tropical forests are both evolutionary cradles and museums of leaf beetle diversity. DD McKenna BD Farrell, Proc Natl Acad Sci USA 2006 103 10947 10951 16818884 10.1073/pnas.0602712103
99. APE: Analyses of phylogenetics and evolution in R language. E Paradis J Claude K Strimmer, Bioinformatics 2004 20 289 290 10.1093/bioinformatics/btg412 14734327
100. SymmeTREE: whole-tree analysis of differential diversification rates. KMA Chan BR Moore, Bioinformatics 2005 21 1709 1710 10.1093/bioinformatics/bti175 15572466
101. Dispersal-vicariance analysis: new approach to the quantification of historical biogeography. F Ronquist, Syst Biol 1997 46 195 203 10.2307/2413643
102. AL Takhtajan, Floristic regions of the world Los Angeles: University of California Press 1986