The age and biogeography of Citrus and the orange subfamily (Rutaceae: Aurantioideae) in Australasia and New Caledonia

American Journal of Botany

Volumn 95, Issue 12, 2008, Pages 1621-1631

  Pfeil, Bernard E ^a   Crisp, Michael D ^b  

^a CSIRO   (Australia)

^b AUSTRALIAN NATIONAL UNIVERSITY   (Australia)

Author keywords

Aurantioideae; Biogeography; Citrus; Fossil calibration; Gondwana; Molecular dating; New Caledonia; Rutaceae; Trans oceanic dispersal

Indexed keywords

AGE CLASS; CHLOROPLAST; DATA SET; DICOTYLEDON; DISPERSAL; DIVERGENCE; FOSSIL RECORD; FRUIT; GONDWANA; HYPOTHESIS TESTING; LONG RANGE TRANSPORT; MIOCENE; MOLECULAR ANALYSIS; PALEOBOTANY; PHYTOGEOGRAPHY;

AUSTRALASIA; MELANESIA; NEW CALEDONIA [MELANESIA]; PACIFIC ISLANDS; PACIFIC OCEAN;

AILANTHUS; CITRUS; FABACEAE; FABALES; FAGALES; MAGNOLIOPHYTA; ROSIDS; RUTACEAE; SIMAROUBACEAE;

EID: 57349136738     PISSN: 00029122     EISSN: None     Source Type: Journal    
DOI: 10.3732/ajb.0800214     Document Type: Article

References (62)

1. AKAIKE, H. 1974. A new look at the statistical model identification. IEEE Transactions on Automatic Control 19: 716-723.
2. APG II [ANGIOSPERM PHYLOGENY GROUP]. 2003. An update of the angiosperm phylogeny group classification for the orders and families of flowering plants: APG II. Botanical Journal of the Linnean Society 141: 399-436.
3. BASINGER, J. F., AND D. L. DILCHER. 1984. Ancient bisexual flowers. Science 224: 511-513.
4. BEATTIE, G. A. C., P. HOLFORD, D. J. MABBERLEY, A. M. HAIGH, R. J. BAYER, AND P. BROADBENT. 2006. Aspects and insights of Australia - Asia collaborative research on Huanglongbing. In Proceedings of the International Workshop for the Prevention of Citrus Greening Disease in Severely Infected Areas, 47-64; 2006 Japan. International Research Division, Agriculture Forestry Fisheries Research Council Secretariat, Ministry of Agriculture, Forestry and Fisheries, Tokyo, Japan.
5. CHASE, M. W., C. C. MORTON, AND J. A. KALLUNKI. 1999. Phylogenetic relationships of Rutaceae: A cladistic analysis of the subfamilies using evidence from rbcL and atpB sequence variation. American Journal of Botany 86: 1191-1199.
6. CLAYTON, J. W., E. S. FERNANDO, P. S. SOLTIS, AND D. E. SOLTIS. 2007. Molecular phylogeny of the tree-of-heaven family (Simaroubaceae) based on chloroplast and nuclear markers. International Journal of Plant Sciences 168: 1325-1339.
7. CLUZEL, D., S. MEFFRE, P. MAURIZOT, AND A. J. CRAWFORD. 2006. Earliest Eocene (53 Ma) convergence in the southwest Pacific: Evidence from pre-obduction dikes in the ophiolite of New Caledonia. Terra Nova 18: 395-402.
8. COOK, L. G., AND M. D. CRISP. 2005. Not so ancient: The extant crown group of Nothofagus represents a post-Gondwanan radiation. Proceedings of the Royal Society, B, Biological Sciences 272: 2535-2544.
9. CORBETT, S. L., AND S. R. MANCHESTER. 2004. Phyotogeography and fossil history of Ailanthus (Simaroubaceae). International Journal of Plant Sciences 165: 671-690.
10. CRANE, P. R., E. M. FRIIS, AND K. R. PEDERSEN. 1995. The origin and early diversification of angiosperms. Nature 374: 27-33.
11. CREPET, W. L., K. C. NIXON, AND M. A. GANDOLFO. 2004. Fossil evidence and phylogeny: The age of major angiosperm clades based on mesofossil and macrofossil evidence from Cretaceous deposits. American Journal of Botany 91: 1666-1682.
12. CRISP, M. D., AND L. G. COOK. 2007. A congruent molecular signature of vicariance across multiple plant lineages. Molecular Phylogenetics and Evolution 43: 1106-1117.
13. DONOGHUE, M. J., AND B. R. MOORE. 2003. Toward an integrative historical biogeography. Integrative and Comparative Biology 43: 261-270.
14. DONOGHUE, P. C. J., AND M. J. BENTON. 2007. Rocks and clocks: Calibrating the tree of life using fossils and molecules. Trends in Ecology & Evolution 22: 424-431.
15. DRUMMOND, A. J., S. Y. W. HO, M. J. PHILLIPS, AND A. RAMBAUT. 2006. Relaxed phylogenetics and dating with confidence. PLoS Biology 4: e88 doi:10.1371/journal.pbio.0040088.
16. FELSENSTEIN, J. 1985. Confidence limits on phylogenies: An approach using the bootstrap. Evolution; International Journal of Organic Evolution 39: 783-791.
17. FELSENSTEIN, J. 1988. Phylogenies from molecular sequences: Inference and reliability. Annual Review of Genetics 22: 521-565.
18. FERNANDO, E. S., P. A. GADEK, AND C. J. QUINN. 1995. Simaroubaceae, an artificial construct: Evidence from rbcL sequence variation. American Journal of Botany 82: 92-103.
19. FISCHER, T. C., AND R. BUTZMANN. 1998. Citrus meletensis (Rutaceae), a new species from the Pliocene of Valdarno (Italy). Plant Systematics and Evolution 210: 51-55.
20. GADEK, P. A., E. S. FERNANDO, C. J. QUINN, S. B. HOOT, T. TERRAZAS, M. C. SHEAHAN, AND M. W. CHASE. 1996. Sapindales: Molecular delimitation and infraordinal groups. American Journal of Botany 83: 802-811.
21. GILL, P. E., W. MURRAY, AND M. H. WRIGHT. 1981. Practical optimization. Academic Press, New York, New York, USA.
22. GREGOR, H. J. 1989. Aspects of the fossil record and phylogeny of the family Rutaceae (Zanthoxyleae, Toddalioideae. Plant Systematics and Evolution 162: 251-265.
23. HALL, R. 2002. Cenozoic geological and plate tectonic evolution of SE Asia and the SW Pacific: Computer-based reconstructions, model and animations. Journal of Asian Earth Sciences 20: 353-431.
24. HARTLEY, T. G. 2001. On the taxonomy and biogeograpy of Euodia and Melicope (Rutaceae). Allertonia 8: 1-328.
25. HEADS, M. 2005. Dating nodes on molecular phylogenies: A critique of molecular biogeography. Cladistics 21: 62-78.
26. HUELSENBECK, J. P., AND F. RONQUIST. 2001. Mr Bayes: Bayesian inference of phylogeny. Bioinformatics (Oxford, England) 17: 754-755.
27. JIAN, S., P. S. SOLTIS, M. A. GITZENDANNER, M. J. MOORE, R. LI, T. A. HENDRY, Y.-L. QIU, et al. 2008. Resolving an ancient, rapid radiation in Saxifragales. Systematic Biology 57: 38-57.
28. KNAPP, M., R. MUDALIAR, D. HAVELL, S. J. WAGSTAFF, AND P. J. LOCKHART. 2007. The drowning of New Zealand and the problem of Agathis. Systematic Biology 56: 862-870.
29. KNAPP, M., K. STÖCKLER, D. HAVELL, F. DELSUC, F. SEBASTIANI, AND P. J. LOCKHART. 2005. Relaxed molecular clock provides evidence for long-distance dispersal of Nothofagus (southern beech). PLoS Biology 3: e14 doi:10.1371/journal.pbio.0030014.
30. KNOBLOCH, E., AND D. H. MAI. 1986. Monographie der Früchte und Samen in der Kreide von Mitteleuropa. Vydal Ústřední ú stav geologický, Academii Nakladatelství Ĉeskoslovensk é Akademie Věd, Prague, Czechoslovakia.
31. LADIGES, P. Y., AND D. CANTRILL. 2007. New Caledonia-Australian connections: Biogeographic patterns and geology. Australian Systematic Botany 20: 383-389.
32. LADIGES, P. Y., F. UDOVICIC, AND G. NELSON. 2003. Australian biogeographical connections and the phylogeny of large genera in the plant family Myrtaceae. Journal of Biogeography 30: 989-998.
33. LANGLEY, C. H., AND W. M. FITCH. 1974. An examination of the constancy of the rate of molecular evolution. Journal of Molecular Evolution 3: 161-177.
34. LEEBENS-MACK, J., L. A. RAUBESON, L. CUI, J. V. KUEHL, M. H. FOURCADE, T. W. CHUMLEY, J. L. BOORE, et al. 2005. Identifying the basal angiosperm node in chloroplast genome phylogenies: Sampling one's way out of the Felsenstein Zone. Molecular Biology and Evolution 22: 1948-1963.
35. MAGALLÓN, S. A. 2004. Dating lineages: Molecular and paleontological approaches to the temporal framework of clades. International Journal of Plant Sciences 165: S7-S21.
36. MCLOUGHLIN, S. 2001. The breakup history of Gondwana and its impact on pre-Cenozoic floristic provincialism. Australian Journal of Botany 49: 271-300.
37. MORAT, P., T. JAFFRé, AND J.-M. Veillon. 2001. The flora of New Caledonia's calcareous substrates. Adansonia 23: 109-127.
38. MUELLNER, A. N., V. SAVOLAINEN, R. SAMUEL, AND M. W. CHASE. 2006. The mahogany family "out-of-Africa": Divergence time estimation, global biogeographic patterns inferred from plastid rbcL DNA sequences, extant, and fossil distribution of diversity. Molecular Phylogenetics and Evolution 40: 236-250.
39. MUELLNER, A. N., D. D. VASSILIADES, AND S. S. RENNER. 2007. Placing Biebersteiniaceae, a herbaceous clade of Sapindales, in a temporal and geographic context. Plant Systematics and Evolution 266: 233-252.
40. MURIENNE, J., P. GRANDCOLAS, M. D. PIULACHS, X. BELLES, C. D'HAESE, F. LEGENDRE, R. PELLENS, AND E. GUILBERT. 2005. Evolution on a shaky piece of Gondwana: Is local endemism recent in New Caledonia? Cladistics 21: 2-7.
41. PENNY, D., AND M. J. PHILLIPS. 2004. The rise of birds and mammals: Are microevolutionary processes sufficient for macroevolution? Trends in Ecology & Evolution 19: 516-522.
42. PENNY, D., W. T. WHITE, M. D. HENDY, AND M. J. PHILLIPS. 2008. A bias in ML estimates of branch lengths in the presence of multiple signals. Molecular Biology and Evolution 25: 239-242.
43. PFEIL, B. E. In press. The effect of incongruence on molecular dates. Taxon.
44. POON, W.-S., P.-C. SHAW, M. P. SIMMONS, AND P. P.-H. BUT. 2007. Congruence of molecular, morphological, and biochemical profiles in Rutaceae: A cladistic analysis of the subfamilies Rutoideae and Toddalioideae. Systematic Botany 32: 837-846.
45. POSADA, D., AND K. A. CRANDALL. 1998. Modeltest: Testing the model of DNA substitution. Bioinformatics (Oxford, England) 14: 817-818.
46. POUX, C., O. MADSEN, J. GLOS, W. W. DE JONG, and M. VENCES. 2008. Molecular phylogeny and divergence times of Malagasy tenrecs: Influence of data partitioning and taxon sampling on dating analyses. BMC Evolutionary Biology 8:.
47. PRESS, W. H., B. P. FLANNERY, S. A. TEUKOLSKY, AND W. T. VETTERLING. 1992. Numerical recipes in C. Cambridge University Press, New York.
48. RUTSCHMANN, F. 2006. Molecular dating of phylogenetic trees: A brief review of current methods that estimate divergence times. Diversity & Distributions 12: 35-48.
49. SANDERSON, M. J. 2002. Estimating absolute rates of molecular evolution and divergence times: A penalized likelihood approach. Molecular Biology and Evolution 19: 101-109.
50. SANDERSON, M. J. 2003. r8s: Inferring absolute rates of evolution and divergence times in the absence of a molecular clock. Bioinformatics (Oxford, England) 19: 301-302.
51. SANDERSON, M. J., AND J. A. DOYLE. 2001. Sources of error and confidence intervals in estimating the age of angiosperms from rbcL and 18S rDNA data. American Journal of Botany 88: 1499-1516.
52. SCHELLART, W. P., G. S. LISTER, AND V. G. TOY. 2006. A late Cretaceous and Cenozoic reconstruction of the southwest pacific region: Tectonics controlled by subduction and slab rollback processes. Earth-Science Reviews 76: 191-233.
53. SCHERSON, R. A., R. VIDAL, AND M. J. SANDERSON. 2008. Phylogeny, biogeography, and rates of diversification of the new world Astragalus (Leguminosae) with an emphasis on South American radiations. American Journal of Botany 95: 1030-1039.
54. SCOTT, K. D., C. L. MCINTYRE, AND J. PLAYFORD. 2000. Molecular analyses suggest a need for a significant rearrangement of Rutaceae subfamilies and a minor reassessment of species relationships within Flindersia. Plant Systematics and Evolution 223: 15-27.
55. STANNARD, B. 2000. Simaroubaceae. In H. J. Beentje [ed.], Flora of tropical East Africa. A.A. Balkema, Rotterdam, Netherlands.
56. SWINGLE, W. T., AND P. C. REECE. 1967. The botany of Citrus and its wild relatives of the orange subfamily. In W. Reuther, H. J. Webber, and D. L. Batchelor [eds.], The citrus industry, 190-430. University of California Press, Berkeley, California, USA. Website http://lib.ucr.edu/agnic/webber/Vol1/Chapter3.html
57. SWOFFORD, D. L. 2002. PAUP*: Phylogenetic analysis using parsimony (*and other methods), version 4.10b. Sinauer, Sunderland, Massachusetts, USA.
58. TIFFNEY, B. H. 1980. Fruits and seeds of the Brandon lignite, V. Rutaceae. Journal of the Arnold Arboretum. Arnold Arboretum 61: 1-40.
59. TIFFNEY, B. H. 1981. Euodia costata (Chandler) Tiffney, (Rutaceae) from the Eocene of southern England. Palaontologische Zeitschrift 55: 185-190.
60. TIFFNEY, B. H. 1994. Re-evaluation of the age of the Brandon lignite (Vermont, USA) based on plant megafossils. Review of Palaeobotany and Palynology 82: 299-315.
61. WELCH, J. J., AND L. BROMHAM. 2005. Molecular dating when rates vary. Trends in Ecology & Evolution 20: 320-327.
62. YANG, Z., AND B. RANNALA. 1997. Bayesian phylogenetic inference using DNA sequences: A Markov chain Monte Carlo method. Molecular Biology and Evolution 14: 717-724.