Phylogeography of native ploidy levels and invasive tetraploids of Solidago gigantea

Molecular Ecology

Volumn 17, Issue 24, 2008, Pages 5245-5256

  Schlaepfer, Daniel R ^a   Edwards, Peter J ^a   Widmer, Alex ^a   Billeter, Regula ^a  

^a ETH ZURICH   (Switzerland)

Author keywords

cpDNA; Invasive alien species; Maternal chloroplast inheritance; Multiple introduction; Multiple polyploidization

Indexed keywords

CHLOROPLAST DNA; SPACER DNA;

ARTICLE; ASIA; DNA SEQUENCE; EUROPE; EXTRACHROMOSOMAL INHERITANCE; GENETIC VARIABILITY; GENETICS; GEOGRAPHY; HAPLOTYPE; MOLECULAR EVOLUTION; NORTH AMERICA; PHYLOGENY; POLYPLOIDY; POPULATION GENETICS; SOLIDAGO;

ASIA; DNA, CHLOROPLAST; DNA, INTERGENIC; EUROPE; EVOLUTION, MOLECULAR; EXTRACHROMOSOMAL INHERITANCE; GENETIC VARIATION; GENETICS, POPULATION; GEOGRAPHY; HAPLOTYPES; NORTH AMERICA; PHYLOGENY; POLYPLOIDY; SEQUENCE ANALYSIS, DNA; SOLIDAGO;

ASTERACEAE; SOLIDAGO; SOLIDAGO GIGANTEA;

EID: 57349155268     PISSN: 09621083     EISSN: 1365294X     Source Type: Journal    
DOI: 10.1111/j.1365-294X.2008.03980.x     Document Type: Article

References (89)

1. Adams KL, Wendel JF (2005) Polyploidy and genome evolution in plants. Current Opinion in Plant Biology, 8, 135 141.
2. Austerlitz F, Jung-Muller B, Godelle B, Gouyon PH (1997) Evolution of coalescence times, genetic diversity and structure during colonization. Theoretical Population Biology, 51, 148 164.
3. Avise JC (2000) Phylogeography: The History and Formation of Species. Harvard University Press, Cambridge, Massachusetts.
4. Beerli P, Felsenstein J (2001) Maximum likelihood estimation of a migration matrix and effective population sizes in n subpopulations by using a coalescent approach. Proceedings of the National Academy of Sciences, USA, 98, 4563 4568.
5. Bennett MD, Leitch IJ, Hanson L (1998) DNA amounts in two samples of angiosperm weeds. Annals of Botany, 82, 121 134.
6. Bettin O, Cornejo C, Edwards PJ, Holderegger R (2007) Phylogeography of the high alpine plant Senecio halleri (Asteraceae) in the European Alps: in situ glacial survival with postglacial stepwise dispersal into peripheral areas. Molecular Ecology, 16, 2517 2524.
7. Borsch T, Hilu KW, Quandt D et al 2003) Noncoding plastid trnT-trnF sequences reveal a well resolved phylogeny of basal angiosperms. Journal of Evolutionary Biology, 16, 558 576.
8. Bossdorf O, Auge H, Lafuma L et al 2005) Phenotypic and genetic differentiation between native and introduced plant populations. Oecologia, 144, 1 11.
9. Brochmann C, Brysting AK, Alsos IG et al 2004) Polyploidy in arctic plants. Biological Journal of the Linnean Society, 82, 521 536.
10. Brown AHD, Marshall DS (1981) Evolutionary changes accompanying colonization in plants. In : Evolution Today. Proceedings of 2nd International Congress of Systematics and Evolutionary Biology (eds Scudder GGE, Reveal JL pp. 351 363. Carnegie-Mellon University, Pittsburg, Pennsylvania.
11. Buckley TR, Cordeiro M, Marshall DC, Simon C (2006) Differentiating between hypotheses of lineage sorting and introgression in New Zealand alpine cicadas (Maoricicada dugdale). Systematic Biology, 55, 411 425.
12. Burban C, Petit RJ, Carcreff E, Jactel H (1999) Rangewide variation of the maritime pine bast scale Matsucoccus feytaudi Duc. (Homoptera: Matsucoccidae) in relation to the genetic structure of its host. Molecular Ecology, 8, 1593 1602.
13. Castelloe J, Templeton AR (1994) Root probabilities for intraspecific gene trees under neutral coalescent theory. Molecular Phylogenetics and Evolution, 3, 102 113.
14. Chapin FS, Zavaleta ES, Eviner VT et al 2000) Consequences of changing biodiversity. Nature, 405, 234 242.
15. Chmielewski JG, Semple JC (1985) The cytogeography and post-glacial migration of Solidago flexicaulis (Compositae) into southern Ontario (Canada). Naturaliste Canadien (Quebec), 112, 307 312.
16. Clement M, Posada D, Crandall KA (2000) tcs: a computer program to estimate gene genealogies. Molecular Ecology, 9, 1657 1659.
17. Colautti RI, Bailey SA, van Overdijk CDA, Amundsen K, MacIsaac HJ (2006) Characterised and projected costs of nonindigenous species in Canada. Biological Invasions, 8, 45 59.
18. Comai L (2005) The advantages and disadvantages of being polyploid. Nature Reviews Genetics, 6, 836 846.
19. Crandall KA, Templeton AR (1993) Empirical tests of some predictions from coalescent theory with applications to intraspecific phylogeny reconstruction. Genetics, 134, 959 969.
20. Demesure B, Sozi N, Petit RJ (1995) A set of universal primers for amplification of polymorphic noncoding regions of mitochondrial and chloroplast DNA in plants. Molecular Ecology, 4, 129 131.
21. Dietz H, Edwards PJ (2006) Recognition that causal processes change during plant invasion helps explain conflicts in evidence. Ecology, 87, 1359 1367.
22. Dixon CJ (2006) A means of estimating the completeness of haplotype sampling using the Stirling probability distribution. Molecular Ecology Notes, 6, 650 652.
23. Dlugosch KM, Parker IM (2007) Molecular and quantitative trait variation across the native range of the invasive species Hypericum canariense: evidence for ancient patterns of colonization via pre-adaptation? Molecular Ecology, 16, 4269 4283.
24. Donnelly P, Tavare S (1986) The ages of alleles and a coalescent. Advances in Applied Probability, 18, 1 19.
25. Doyle JJ (1991) DNA protocols for plants. In : Molecular Techniques in Taxonomy (eds Hewitt GM, Young JPW, Johnston AWB pp. 283 293. NATO ASI Series H, Springer Verlag, Berlin, Germany.
26. Durka W, Bossdorf O, Prati D, Auge H (2005) Molecular evidence for multiple introductions of garlic mustard (Alliaria petiolata, Brassicaceae) to North America. Molecular Ecology, 14, 1697 1706.
27. Dyke AS, Andrews JT, Clark PU et al 2002) The laurentide and innuitian ice sheets during the last glacial maximum. Quaternary Science Reviews, 21, 9 31.
28. Egan AN, Crandall KA (2008) Incorporating gaps as phylogenetic characters across eight DNA regions: ramifications for North American Psoraleeae (Leguminosae). Molecular Phylogenetics and Evolution, 46, 532 546.
29. Ehrendorfer F (1980) Polyploidy and distribution. In : Polyploidy: Biological Relevance (ed. Lewis WH pp. 45 60. Plenum Press, New York and London.
30. Ellstrand NC, Schierenbeck KA (2000) Hybridization as a stimulus for the evolution of invasiveness in plants? Proceedings of the National Academy of Sciences, USA, 97, 7043 7050.
31. Elphinstone MS, Hinten GN, Anderson MJ, Nock CJ (2003) An inexpensive and high-throughput procedure to extract and purify total genomic DNA for population studies. Molecular Ecology Notes, 3, 317 320.
32. Excoffier L, Laval G, Schneider S (2005) Arlequin ver. 3.0: an integrated software package for population genetics data analysis. Evolutionary Bioinformatics Online, 1, 47 50.
33. Farris JS, Kallersjo M, Kluge AG, Bult C (1995) Constructing a significance test for incongruence. Systematic Biology, 44, 570 572.
34. Felber-Girard M, Felber F, Buttler A (1996) Habitat differentiation in a narrow hybrid zone between diploid and tetraploid Anthoxanthum alpinum. New Phytologist, 133, 531 540.
35. Felsenstein J (1981) Evolutionary trees from DNA sequences: a maximum likelihood approach. Journal of Molecular Evolution, 17, 368 376.
36. Goldman N, Anderson JP, Rodrigo AG (2000) Likelihood-based tests of topologies in phylogenetics. Systematic Biology, 49, 652 670.
37. Holt JA, Holt SDS, Bures P (2007) Experimental design in intraspecific organelle DNA sequence studies III: statistical measures of sampling success. Taxon, 56, 847 856.
38. Hudson RR (1990) Gene genealogies and the coalescent process. In : Oxford Surveys in Evolutionary Biology (eds Futuyama D, Antonovics J pp. 1 44. Oxford University Press, Oxford, UK.
39. Huelsenbeck JP, Ronquist F (2001) MrBayes: Bayesian inference of phylogenetic trees. Bioinformatics, 17, 754 755.
40. Husband BC, Sabara HA (2004) Reproductive isolation between autotetraploids and their diploid progenitors in fireweed, Chamerion angustifolium (Onagraceae). New Phytologist, 161, 703 713.
41. Johnson MTJ, Husband BC, Burton TL (2003) Habitat differentiation between diploid and tetraploid Galax urceolata (Diapensiaceae). International Journal of Plant Sciences, 164, 703 710.
42. Joly S, Bruneau A (2004) Evolution of triploidy in Apios americana (Leguminosae) revealed by genealogical analysis of the histone H3-D gene. Evolution, 58, 284 295.
43. Kelchner SA (2000) The evolution of non-coding chloroplast DNA and its application in plant systematics. Annals of the Missouri Botanical Garden, 87, 482 498.
44. Knowles LL, Maddison WP (2002) Statistical phylogeography. Molecular Ecology, 11, 2623 2635.
45. Kress WJ, Wurdack KJ, Zimmer EA, Weigt LA, Janzen DH (2005) Use of DNA barcodes to identify flowering plants. Proceedings of the National Academy of Sciences, USA, 102, 8369 8374.
46. Löhne C, Borsch T (2005) Molecular evolution and phylogenetic utility of the petD group II intron: a case study in basal angiosperms. Molecular Biology and Evolution, 22, 317 332.
47. Maddison DR, Maddison WP (2005) MacClade 4: Analysis of Phylogeny and Character Evolution, Version 4.08. Sinauer & Associates, Sunderland, Massachusetts.
48. Maron JL, Vila M, Bommarco R, Elmendorf S, Beardsley P (2004) Rapid evolution of an invasive plant. Ecological Monographs, 74, 261 280.
49. McCauley DE, Sundby AK, Bailey MF, Welch ME (2007) Inheritance of chloroplast DNA is not strictly maternal in Silene vulgaris (Caryophyllaceae): evidence from experimental crosses and natural populations. American Journal of Botany, 94, 1333 1337.
50. Melville MR, Morton JK (1982) A biosystematic study of the Solidago canadensis (Compositae) complex. 1. The Ontario populations. Canadian Journal of Botany - Revue Canadienne de Botanique, 60, 976 997.
51. Milligan BG (1992) Is organelle DNA strictly maternally inherited? Power analysis of a binomial distribution. American Journal of Botany, 79, 1325 1328.
52. Mitchell CE, Agrawal AA, Bever JD et al 2006) Biotic interactions and plant invasions. Ecology Letters, 9, 726 740.
53. Müller K (2005) SeqState: primer design and sequence statistics for phylogenetic DNA datasets. Applied Bionformatics, 4, 65 69.
54. Ogden TH, Rosenberg MS (2007) How should gaps be treated in parsimony? A comparison of approaches using simulation. Molecular Phylogenetics and Evolution, 42, 817 826.
55. Panchal M, Beaumont MA (2007) The automation and evaluation of nested clade phylogeographic analysis. Evolution, 61, 1466 1480.
56. Pandit MK, Tan HTW, Bisht MS (2006) Polyploidy in invasive plant species of Singapore. Botanical Journal of the Linnean Society, 151, 395 403.
57. Petit RJ (2008) The coup de grâce for the nested clade phylogeographic analysis? Molecular Ecology, 17, 516 518.
58. Petit RJ, Grivet D (2002) Optimal randomization strategies when testing the existence of a phylogeographic structure. Genetics, 161, 469 471.
59. Pons O, Petit RJ (1996) Measuring and testing genetic differentiation with ordered versus unordered alleles. Genetics, 144, 1237 1245.
60. Posada D, Crandall KA (1998) ModelTest: testing the model of DNA substitution. Bioinformatics, 14, 817 818.
61. Rambaut A, Drummond A (2007) Tracer v1.4, Available from URL: http://beast.bio.ed.ac.uk/Tracer [Last visited 16 January 2008].
62. Rambaut A, Grassly NC (1997) Seq-Gen: an application for the Monte Carlo simulation of DNA sequence evolution along phylogenetic frees. Computer Applications in the Biosciences, 13, 235 238.
63. Ray N, Adams JM (2001) A GIS-based vegetation map of the world at the last glacial maximum (25 000-15 000 BP). Internet Archaeology, 11, 1 44. Available from URL : http://intarch.ac.uk/journal/issue11/rayadams_index.html.
64. Ronquist F, Huelsenbeck JP (2003) MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics, 19, 1572 1574.
65. Rousset F (1997) Genetic differentiation and estimation of gene flow from F-statistics under isolation by distance. Genetics, 145, 1219 1228.
66. Rousset F (2008) Genepop'007: a complete re-implementation of the genepop software for Windows and Linux. Molecular Ecology Resources, 8, 103 106.
67. Schlaepfer DR (2008) Ecological significance of ploidy level of native and invasive populations of Solidago gigantea. PhD thesis. ETH Zurich No. 17677. Available from URL: http://e-collection.ethbib.ethz.ch.
68. Schlaepfer DR, Edwards PJ, Semple JC, Billeter R (2008) Cytogeography of Solidago gigantea (Asteraceae) and its invasive ploidy level. Journal of Biogeography, 35, 2119 2127.
69. Semple JC, Cook RE (2006) Solidago. In : Flora of North America North of Mexico (ed. Flora of North America Editorial Committee pp. 107 166. Oxford University Press, Oxford and New York.
70. Simmons MP, Ochoterena H (2000) Gaps as characters in sequence-based phylogenetic analyses. Systematic Biology, 49, 369 381.
71. Slatkin M (1993) Isolation by distance in equilibrium and non-equilibrium populations. Evolution, 47, 264 279.
72. Soltis DE (1984) Autopolyploidy in Tolmiea menziesii (Saxifragaceae). American Journal of Botany, 71, 1171 1174.
73. Soltis DE, Morris AB, McLachlan JS, Manos PS, Soltis PS (2006) Comparative phylogeography of unglaciated eastern North America. Molecular Ecology, 15, 4261 4293.
74. Stebbins GL (1971) Chromosomal Evolution in Higher Plants. Edward Arnold, London.
75. Swofford DL (2002) paup*: Phylogenetic Analysis Using Parsimony (and Other Methods), Version 4. Sinauer & Associates, Sunderland, Massachusetts.
76. Swofford DL, Olsen GJ, Waddell PJ, Hillis DM (1996) Phylogenetic inference. In : Molecular Systematics (eds Hillis DM, Mortiz C, Mable BK pp. 407 514. Sinauer & Associates, Sunderland, Massachusetts.
77. Syring J, Farrell K, Businsky R, Cronn R, Liston A (2007) Widespread genealogical nonmonophyly in species of Pinus subgenus Strobus. Systematic Biology, 56, 163 181.
78. Templeton AR, Boerwinkle E, Sing CF (1987) A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping. 1. Basic theory and an analysis of alcohol dehydrogenase activity in Drosophila. Genetics, 117, 343 351.
79. Theoharides KA, Dukes JS (2007) Plant invasion across space and time: factors affecting nonindigenous species success during four stages of invasion. New Phytologist, 176, 256 273.
80. Thompson JD, Lumaret R (1992) The evolutionary dynamics of polyploid plants - origins, establishment and persistence. Trends in Ecology & Evolution, 7, 302 307.
81. Thompson J, Gibson T, Plewniak F, Jeanmougin F, Higgins D (1997) The Clustal_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Research, 25, 4876 4882.
82. Trewick SA, Morgan-Richards M, Chapman HM (2004) Chloroplast DNA diversity of Hieracium pilosella (Asteraceae) introduced to New Zealand: reticulation, hybridization, and invasion. American Journal of Botany, 91, 73 85.
83. Verlaque R, Aboucaya A, Fridlender A (2002) Invasive alien flora of France: ecology, life-forms and polyploidy. Botanica Helvetica, 112, 121 136.
84. Watanabe K, Kajita T, Murata J (2006) Chloroplast DNA variation and geographical structure of the Aristolochia kaempferi group (Aristolochiaceae). American Journal of Botany, 93, 442 453.
85. Weber E (1997) Phenotypic variation of the introduced perennial Solidago gigantea in Europe. Nordic Journal of Botany, 17, 631 638.
86. Weber E, Schmid B (1993) Das Neophytenproblem. Dissertationes Botanicae, 196, 209 227.
87. Widmer A, Lexer C (2001) Glacial refugia: sanctuaries for allelic richness, but not for gene diversity. Trends in Ecology & Evolution, 16, 267 269.
88. Wilcox TP (2004) SG Runner: A Mac OS X shell-wrapper for Seq-Gen. Published by the author, Long Key, Florida.
89. Zhang J (1996) A molecular biosystematic study of North American Solidago and related genera (Asteraceae: Astereae) based on chloroplast DNA RFLP Analysis. PhD Thesis. University of Waterloo, Canada.