The Evolution of Colchicaceae, with a Focus on Chromosome Numbers

Systematic Botany

Volumn 39, Issue 2, 2014, Pages 415-427

  Chacón, Juliana ^a   Cusimano, Natalie ^a   Renner, Susanne S ^a  

^a UNIVERSITY OF MUNICH   (Germany)

Author keywords

African Colchicaceae; ancestral chromosome number; maximum likelihood inference; polyploidy

Indexed keywords

EID: 84900836479     PISSN: 03636445     EISSN: 15482324     Source Type: Journal    
DOI: 10.1600/036364414X680852     Document Type: Article

References (50)

1. Abbott, R., D. Albach, S. Ansell, J. W. Arntzen, S. J. E. Baird, N. Bierne, J. Boughman, A. Brelsford, C. A. Buerkle, R. Buggs, R. K. Butlin, U. Dieckmann, F. Eroukhmanoff, A. Grill, S. H. Cahan, J. S. Hermansen, G. Hewitt, A. G. Hudson, C. Jiggins, J. Jones, B. Keller, T. Marczewski, J. Mallet, P. Martinez-Rodriguez, M. Modie;st, S. Mullen, R. Nichols, A. W. Nolte, C. Parisod, K. Pfennig, A. M. Rice, M. G. Ritchie, B. Seifert, C. M. Smadja, R. Stelkens, J. M. Szymura, R. Vainodie;la, J. B. W. Wolf, and D. Zinner. 2013. Hybridization and speciation. Journal of Evolutionary Biology 26: 229-246.
2. Akaike, H. 1974. A new look at the statistical model identification. IEEE Transactions on Automatic Control 19: 716-723.
3. Barrett, S. C. H. and A. L. Case. 2006. The ecology and evolution of gender strategies in plants: the example of Australian Wurmbea (Colchicaceae). Australian Journal of Botany 54: 417-433.
4. Case, A. L., S. W. Graham, T. D. Macfarlane, and S. C. H. Barrett. 2008. A phylogenetic study of evolutionary transitions in sexual systems in Australasian Wurmbea (Colchicaceae). International Journal of Plant Sciences 169: 141-156.
5. Caujape-Castells, J., R. K. Jansen, N. Membrives, J. Pedrola-Monfort, J. M. Montserrat, and A. Ardanuy. 2001. Historical biogeography of Androcymbium Willd. (Colchicaceae) in Africa: evidence from cpDNA RFLPs. Botanical Journal of the Linnean Society 136: 379-392.
6. Chaco n, J. and S. S. Renner (2014). Assessing model sensitivity in ancestral area reconstruction using LAGRANGE: A case study using the Colchicaceae family. Journal of Biogeography doi:10.1111/jbi.12301.
7. Chaco n, J., M. C. Assis, A. W. Meerow, and S. S. Renner. 2012a. From East Gondwana to Central America: Historical biogeography of the Alstroemeriaceae. Journal of Biogeography 39: 1806-1818.
8. Chaco n, J., A. Sousa, C. M. Baeza, and S. S. Renner. 2012b. Ribosomal DNA distribution and a genus-wide phylogeny reveal patterns of chromosomal evolution in Alstroemeria (Alstroemeriaceae). American Journal of Botany 99: 1501-1512.
9. Cusimano, N., A. Sousa, and S. S. Renner. 2012. Maximum likelihood inference implies a high, not a low, ancestral haploid chromosome number in Araceae, with a critique of the bias introduced by 'x'. Annals of Botany 109: 681-692.
10. Del Hoyo, A. and J. Pedrola-Monfort. 2008. Phylogeny of Androcymbium (Colchicaceae) based on morphology and DNA sequences. Plant Systematics and Evolution 273: 151-167.
11. Del Hoyo, A., J. L. Garcia-Marin, and J. Pedrola-Monfort. 2009. Temporal and spatial diversification of the African disjunct genus Androcymbium (Colchicaceae). Molecular Phylogenetics and Evolution 53: 848-861.
12. Drummond, A. J., M. A. Suchard, D. Xie, and A. Rambaut. 2012. Bayesian Phylogenetics with BEAUti and the BEAST 1.7. Molecular Biology and Evolution 29: 1969-1973.
13. Eigsti, O. J., P. Dustin, and N. Gay-Winn. 1945. On the discovery of the action of Colchicine on mitosis in 1889. Science 110: 692.
14. Fay, M. F., M. W. Chase, N. Rønsted, D. S. Devey, Y. Pillon, J. C. Pires, G. Petersen, O. Seberg, and J. I. Davis. 2006. Phylogenetics of Liliales: Summarized evidence from combined analyses of five plastid and one mitochondrial loci. Aliso 22: 559-565.
15. Felsenstein, J. 1973. Maximum likelihood and minimum-steps methods for estimating evolutionary trees from data on discrete characters. Systematic Zoology 22: 240-249.
16. Felsenstein, J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39: 783-791.
17. Harpke, D., S. Meng, T. Rutten, H. Kerndorff, and B. F. R. Blattner. 2013. Phylogeny of Crocus (Iridaceae) based on one chloroplast and two nuclear loci: Ancient hybridization and chromosome number evolution. Molecular Phylogenetics and Evolution 66: 617-627.
18. Husband, B. C. 2004. The role of triploid hybrids in the evolutionary dynamics of mixed-ploidy populations. Biological Journal of the Linnean Society. Linnean Society of London 82: 537-546.
19. Katoh, T. and D. M. Standley. 2013. MAFFT Multiple Sequence alignment software version 7: improvements in performance and usability. Molecular Biology and Evolution 30: 772-780.
20. Katoh, K., K.-I. Kuma, H. Toh, and T. Miyata. 2005. MAFFT version 5: Improvement in accuracy of multiple sequence alignment. Nucleic Acids Research 33: 511-518.
21. Levin, D. A. 1983. Polyploidy and novelty in flowering plants. American Naturalist 122: 1-25.
22. Maddison, D. R. and W. P. Maddison. 2002. MacClade 4: Analysis of phylogeny and character evolution, version 4.05 for OS X. Sinauer, Sunderland, Massachusetts, USA.
23. Manning, J., F. Forest, and A. Vinnersten. 2007. The genus Colchicum L. redefined to include Androcymbium Willd. based on molecular evidence. Taxon 56: 872-882.
24. Mayrose, I., M. S. Barker, and S. P. Otto. 2010. Probabilistic models of chromosome number evolution and the inference of polyploidy. Systematic Biology 59: 132-144.
25. Mayrose, I., S. H. Zhan, C. J. Rothfels, K. Magnuson-Ford, M. S. Barker, L. H. Rieseberg, and S. P. Otto. 2011. Recently formed polyploid plants diversify at lower rates. Science 333: 1257.
26. Metzgar, J. S., E. R. Alverson, S. Chen, A. V. Vaganov, and S. M. Ickert-Bond. 2013. Diversification and reticulation in the circumboreal fern genus Cryptogramma. Molecular Phylogenetics and Evolution 67: 589-599.
27. Miller, M. A., W. Pfeiffer, and T. Schwartz. 2010. Creating the CIPRES Science Gateway for inference of large phylogenetic trees. Pp 1-8 in Proceedings of the Gateway Computing Environments Workshop (GCE). New Orleans, LA: Institute of Electrical and Electronics Engineers (IEEE).
28. Ness, R. W., S. W. Graham, and S. C. H. Barrett. 2011. Reconciling gene and genome duplication events: Using multiple nuclear gene families to infer the phylogeny of the aquatic plant family Pontederiaceae. Molecular Biology and Evolution 28: 3009-3018.
29. Nordenstam, B. 1998. Colchicaceae. Pp. 175-185 in The families and genera of vascular plants, Vol. 3. Flowering plants. Monocotyledons. Lilianae (except Orchidaceae), ed. K. Kubitzki. Berlin: Springer-Verlag.
30. Ocampo, G. and J. T. Columbus. 2012. Molecular phylogenetics, historical biogeography, and chromosome number evolution of Portulaca (Portulacaceae). Molecular Phylogenetics and Evolution 63: 97-112.
31. Paradis, E., J. Claude, and K. Strimmer. 2004. APE: analyses of phylogenetics and evolution in R language. Bioinformatics 20: 289-290.
32. Pernice, B. 1889. Sulla cariocinesi delle cellule epiteliali e dell'endotelio dei vasi della mucosa dello stomaco e dell'intestino, nello studio della gastroenterite sperimentale (nell'avvelenamento per colchico). Sicilia Medica 1: 265-279.
33. Persson, K. 1999. The genus Colchicum in Turkey. II. Revision of the largeleaved autumnal species. Edinburgh Journal of Botany 56: 103-142.
34. Persson, K. 2007. Nomenclatural synopsis of the genus Colchicum (Colchicaceae), with some new species and combinations. Botanische Jahrbu¨cher 127: 165-242.
35. Persson, K. 2009. Colchicaceae. IAPT/IOPB chromosome data 7 ed. K. Marhold. Taxon 58: 181-183.
36. Persson, K., G. Petersen, A. del Hoyo, O. Seberg, and T. Jorgensen. 2011. A phylogenetic analysis of the genus Colchicum L. (Colchicaceae) based on sequences from six plastid regions. Taxon 60: 1349-1365.
37. Sanderson, M. J. 2002. Estimating absolute rates of molecular evolution and divergence times: A penalized likelihood approach. Molecular Biology and Evolution 19: 101-109.
38. Schubert, I. and M. A. Lysak. 2011. Interpretation of karyotype evolution should consider chromosome structural constraints. Trends in Genetics 27: 207-216.
39. Simmons, M. P. 2004. Independence of alignment and tree search. Molecular Phylogenetics and Evolution 31: 874-879.
40. Stamatakis, A. 2006. RAxML-VI-HPC: Maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22: 2688-2690.
41. Sousa, A., N. Cusimano, and S. S. Renner 2014. Combining FISH and model-based predictions to understand chromosome evolution in Typhonium (Araceae). Annals of Botany 113:.
42. Suda, J. and T. Herben. 2013. Ploidy frequencies in plants with ploidy heterogeneity: fitting a general gametic model to empirical population data. Proceedings. Biological Sciences 280, no. 1751.
43. Therman, E. and C. Denniston. 1984. Random arrangement of chromosomes in Uvularia (Liliaceae). Plant Systematics and Evolution 147: 289-297.
44. Thi, N. P. I., J. S. Kim, and J.-H. Kim. 2013. Molecular phylogenetic relationships and implications for the circumscription of Colchicaceae (Liliales). Botanical Journal of the Linnean Society 172: 255-269.
45. Vaughton, G. and M. Ramsey. 2003. Self-compatibility and floral biology in subdioecious Wurmbea dioica (Colchicaceae). Australian Journal of Botany 51: 39-45.
46. Vinnersten, A. and S. Larsson. 2010. Colchicine is still a chemical marker for the expanded Colchicaceae. Biochemical Systematics and Ecology 38: 1193-1198.
47. Vinnersten, A. and J. Manning. 2007. A new classification of Colchicaceae. Taxon 56: 171-178.
48. Vinnersten, A. and G. Reeves. 2003. Phylogenetic relationships within Colchicaceae. American Journal of Botany 90: 1455-1462.
49. Vogel, S. and U. Mudie;ller-Doblies. 2011. Desert geophytes under dew and fog: The "curly-whirlies" of Namaqualand (South Africa). Flora 206: 3-31.
50. Weiss-Schneeweiss, H., K. Emadzade, T.-S. Jang, and G. M. Schneeweiss. 2013. Evolutionary consequences, constraints and potential of polyploidy in plants. Cytogenetic and Genome Research 140: 137-150.