Mid-miocene divergence of Ionopsidium and Cochlearia and its impact on the systematics and biogeography of the tribe Cochlearieae (Brassicaceae)

Taxon

Volumn 61, Issue 1, 2012, Pages 76-92

  Koch, Marcus A ^a  

^a UNIVERSITY OF HEIDELBERG   (Germany)

Author keywords

Biogeography; Bivonaea; Bivonaeeae; Brassicaceae; Cochlearia; Cochlearieae; Ionopsidium; Mediterranean; Miocene

Indexed keywords

BIOGEOGRAPHY; COHORT ANALYSIS; DICOTYLEDON; EVOLUTIONARY BIOLOGY; MEDITERRANEAN ENVIRONMENT; MIOCENE; PHYLOGENETICS; SALINITY; TAXONOMY;

IBERIAN PENINSULA;

BIVONAEA; BRASSICACEAE; COCHLEARIA; IONOPSIDIUM; PASTOREA; THLASPI;

EID: 84857770562     PISSN: 00400262     EISSN: None     Source Type: Journal    
DOI: 10.1002/tax.611006     Document Type: Article

References (85)

1. Al-Shehbaz, I.A., Beilstein, M.A. & Kellogg, E.A. 2006. Systematics and phylogeny of the Brassicaceae: An overview. Pl. Syst. Evol. 259: 89-120.
2. Bailey, C.D., Koch, M.A., Mayer, M., Mummenhoff, K., O'Kane, S.L., Warwick, S.I., Windham, M. & Al-Shehbaz, I.A. 2006. A global nrDNA ITS phylogeny of the Brassicaceae. Molec. Biol. Evol. 23: 2142-2160.
3. Baum, D.A., Yoon, H.S. & Oldham, R.L. 2005. Molecular evolution of the transcription factor LEAFY in Brassicaceae. Molec. Phylogenet. Evol. 37: 1-14.
4. Beilstein, M.A., Al-Shehbaz, I.A. & Kellogg, E.A. 2006. Brassicaceae phylogeny and trichome evolution. Amer. J. Bot. 93: 607-619.
5. Beilstein, M., Al-Shehbaz, I.A., Mathews, S. & Kellogg, E.A. 2008. Brassicaceae phylogeny inferred from phytochrome A and ndhF sequence data: Tribes and trichomes revisited. Amer. J. Bot. 95: 1307-1327.
6. Beilstein, M.A., Nagalingum, N.S., Clements, M.D., Manchster, S.R. & Mathews, S. 2010. Dated molecular phylogenies indicate a Miocene origin for Arabidopsis thaliana. Proc. Natl. Acad. Sci. U.S.A. 107: 18724-18728.
7. Bowmann, J.L. 2006. Molecules and morphology: Comparative developmental genetics of the Brassicaceae. Pl. Syst. Evol. 259: 199-215.
8. Brock, A., Herzfeld, T., Paschke, R., Koch, M. & Dräger, B. 2006. Brassicaceae contain nortropane alkaloids. Phytochemistry 67: 2050-2057.
9. Candolle, A.P. de. 1821. Mémoire sur la famille des Crucifères. Mém. Mus. Hist. Nat. 7(1): 169-252.
10. Ceccarelli, M. & Cionini, P.G. 1993. Tissue-specific nuclear repatterning in plant cells. Genome 36: 1092-1098,
11. Chiarugi, A. 1928. Richerchi sui genera Ionopsidium Rchb. e Bivonaea DC. con speciale riguardo agli endemismi di Toscana e di Spagna. Nuovo Giorn. Bot. Ital. 34: 1452-1496.
12. Cires, E., Samain, M.-S, Goetghebeur, P. & Fernández Prieto J.A. 2011. Genetic structure in peripheral Western European populations of the endangered species Cochlearia pyrenaica (Brassicaceae). Pl. Syst. Evol. 297: 75-85.
13. Cieślak, E., Ronikier, M. & Koch, M. 2007. Western Ukrainian Cochlearia (Brassicaceae) in the Central European context of the genus: Identity of an isolated edge population. Taxon 56: 112-118.
14. Couvreur, T.L.P., Franzke, A., Al-Shehbaz, I.A., Bakker, F.T., Koch, M.A. & Mummenhoff, K. 2010. Molecular phylogenetics, temporal diversification and principles of evolution in the mustard family (Brassicaceae). Molec. Biol. Evol. 27: 55-71.
15. Dauvergne, X., Cérantola, X., Salaün, S., Magné, C., Kervarec, N., Bessières, M.-A. & Deslandes, E. 2006. General occurrence of the glucosinolate glucocochlearin within the Cochlearia genus. Carbohyd. Res. 341: 2166-2169.
16. Dobeš, C., Mitchell-Olds, T. & Koch, M. 2004. Extensive chloroplast haplotype variation indicates Pleistocene hybridization and radiation of North American Arabis drummondii, A. × divaricarpa, A. holboellii (Brassicaceae). Molec. Ecol. 13: 349-370.
17. Doyle, J.J. & Doyle, J.L. 1987. A rapid DNA isolation procedure for small amounts of fresh leaf tissue. Phytochem. Bull. 19: 11-15.
18. Drummond, A.J. & Rambaut, A. 2007. BEAST: Bayesian evolutionary analysis by sampling trees. B. M. C. Evol. Biol. 7: 214. doi:10.1186/1471-2148-7-214.
19. Durbin, M.L., Learn, G.H., Huttley, G.A. & Clegg, M.T. 1995. Evolution of the chalcone synthase gene family in the genus Ipomaea. Proc. Natl. Acad. Sci. U.S.A. 92: 3338-3342.
20. Franzke, A., Lysak, M.A., Al-Shehbaz, I.A., Koch, M.A. & Mummenhoff, K. 2011. Cabbage family affairs: The evolutionary history of Brassicaceae. Trends Pl. Sci. 16: 108-116.
21. German, D.A., Friesen, N., Neuffer, B., Al-Shehbaz, I.A. & Hurka, H. 2009. Contribution to ITS phylogeny of the Brassicaceae, with a special reference to some Asian taxa. Pl. Syst. Evol. 283: 33-56.
22. Gernhard, T. 2008. New analytic results for speciation times in neutral models. Bull. Math. Biol. 70: 1082-1097.
23. Gill, J.J.B. 1971. Cytogenetic studies in Cochlearia L.: The chromosomal homogeneity within both the 2n = 12 diploids and the 2n = 14 diploids and cytogenetic relationship between the two chromosome levels. Ann. Bot. 35: 947-956.
24. Gill, J.J.B. 1973. Cytogenetic studies in Cochlearia L. (Cruciferae): The origins of C. officinals L. and C. micacea Marshall. Genetica 44: 217-234.
25. Gill, J.J.B. 1975. Cochlearia L. Pp. 143-146 in: Stace, C.A. (ed.), Hybridization and the flora of the British Isles. London: Academic Press.
26. Gill, J.J.B. 1976. Cytogenetic studies in Cochlearia L. (Cruciferae): The chromosomal constitution of C. danica. Genetica 46: 115-127.
27. Goldman, N., Anderson, J.P. & Rodrigo, A.G. 2000. Likelihoodbased tests of topologies in phylogenetics. Syst. Biol. 49: 652-670.
28. Heywood, V.H. 1961. On the identity and relationships of Ionopsidium heterspermum and I. abulense. Feddes Repert. Spec. Nov. Regni Veg. 64: 8-11.
29. Jalas, J., Suominen, J. & Lampinen, R. 1996. Atlas Florae Europaea, vol. 11, Cruciferae (Ricotia to Raphanus). Helsinki: The Committee for Mapping the Flora of Europe & Societas Biologica Fennica Vanamo.
30. Joly, S., Heenan, P.B. & Lockhardt, P.J. 2009. A Pleistocene intertribal allopolyploidization event precedes the species radiation of Pachycladon (Brassicaceae) in New Zealand. Molec. Phylogenet. Evol. 51: 365-372.
31. Jordon-Thaden, I., Hase, I., Al-Shehbaz, I.A. & Koch, M.A. 2010. Molecular phylogeny and systematics of the genus Draba (Brassicaceae) and identification of its closest related genera. Molec. Phylogenet. Evol. 55: 524-540.
32. Khosravi, A.R., Mohsenzadeh, S. & Mummenhoff, K. 2009. Phylogenetic relationships of Old World Brassicaceae from Iran based on nuclear ribosomal DNA sequences. Biochem. Syst. Ecol. 37: 106-115.
33. Koch, M. 1996. Zur Ausbreitung des Dänisches Löffelkrautes (Cochlearia danica L.) als Küstensippe in das niedersächsische Binnenland. Florist. Rundbr. 30: 20-23.
34. Koch, M. 1997. Kurznotiz zur südlichen Ausbreitung des Dänischen Löffelkrauts (Cochlearia danica L.) in Nordrhein-Westfalen. Florist. Rundbr. 31: 136-138.
35. Koch, M. 2002. Genetic differentiation and speciation in prealpine Cochlearia (Brassicaceae): Allohexaploid Cochlearia bavarica (Brassicaceae) compared to its diploid ancestor Cochlearia pyrenaica in Germany and Austria. Pl. Syst. Evol. 232: 35-49.
36. Koch, M. & Al-Shehbaz, I.A. 2000. Systematics of Chinese genera Yinshania, Hilliella, and Cochleariella (Brassicaceae): Evidence from plastid trnL intron and nuclear ITS DNA sequence data. Ann. Missouri Bot. Gard. 87: 246-272.
37. Koch, M. & Al-Shehbaz, I.A. 2004. Taxonomic and phylogenetic evaluation of the American "Thlaspi " species: Identity and relationship to the Eurasian genus Noccaea (Brassicaceae). Syst. Bot. 29: 375-384.
38. Koch, M.A. & Al-Shehbaz, I.A. 2009. Molecular systematics and evolution of "wild" crucifers (Brassicaceae or Cruciferae). Pp. 1-18 in: Gupta, S. (ed.), Biology and breeding of crucifers. London: Taylor and Francis.
39. Koch, M.A. & Matschinger, M. 2007. Evolution and genetic differentiation among relatives of Arabidopsis thaliana. Proc. Natl. Acad. Sci. U.S.A. 104: 6272-6277.
40. Koch, M. & Mummenhoff, K. 2001. Thlaspi s.str. (Brassicaceae) versus Thlaspi s.l.: Morphological and anatomical characters in the light of molecular data. Pl. Syst. Evol. 227: 209-225.
41. Koch, M., Dobeš, C., Bernhardt, K.-G. & Kochjarova, J. 2003b. Cochlearia macrorrhiza: A bridging species between Cochlearia taxa from the Eastern Alps and the Carpathians. Pl. Syst. Evol. 242: 137-147.
42. Koch, M.A., Dobeš, C., Kiefer, C., Schmickl, R., Klimes, L. & Lysak, M.A. 2007. Supernetwork identifies multiple events of plastid trnF(GAA) pseudogene evolution in the Brassicaceae. Molec. Biol. Evol. 24: 63-73.
43. Koch, M., Haubold, B. & Mitchell-Olds, T. 2000. Comparative evolutionary analysis of chalcone synthase and alcohol dehydrogenase loci in Arabidopsis, Arabis and related genera. Molec. Biol. Evol. 17: 1483-1498.
44. Koch, M., Haubold, B. & Mitchell-Olds, T. 2001a. Molecular systematics of the Cruciferae: Evidence from coding plastome matK and nuclear CHS sequences. Amer. J. Bot. 88: 534-544.
45. Koch, M., Hurka, H. & Mummenhoff, K. 1996. Chloroplast DNA restriction site variation and RAPD-analyses in Cochlearia (Brassicaceae): Biosystematics and speciation processes. Nordic J. Bot. 16: 585-604.
46. Koch, M., Huthmann, M. & Hurka, H. 1998. Isozymes, speciation and evolution in the polyploid complex Cochlearia L. (Brassicaceae). Bot. Acta 111: 451-466.
47. Koch, M.A., Karl, R., Kiefer, C. & Al-Shehbaz, I.A. 2010. Colonizing the American continent: Systematics of the genus Arabis in North America (Brassicaceae). Amer. J. Bot. 97: 1040-1057.
48. Koch, M., Mummenhoff, K. & Al-Shehbaz, I.A. 2003a. Molecular systematics, evolution, and population biology in the mustard family (Brassicaceae): A review of a decade of studies. Ann. Missouri Bot. Gard. 90: 151-171.
49. Koch, M., Mummenhoff, H. & Hurka, H. 1999. Molecular phylogenetics of Cochlearia L. and allied genera based on chloroplast trnL intron and nuclear ribosomal ITS DNA sequence analysis contradict traditional classification. Pl. Syst. Evol. 216: 207-230.
50. Koch, M., Weisshaar, B., Kroymann J., Haubold, B. & Mitchell-Olds, T. 2001b. Comparative genomics and regulatory evolution: Conservation and function of the chs and Apetala3 promoters. Molec. Biol. Evol. 18: 1882-1891.
51. Krijgsman, W. 2002. The Mediterranean: Mare Nostrum of earth sciences. Earth Planet. Sci. Lett. 205: 1-12.
52. Lihová, J., Shimizu, K.K. & Marhold, K. 2006. Allopolyploid origin of Cardamine asarifolia (Brassicaceae): Incongruence between plastid and nuclear ribosomal DNA sequences solved by a singlecopy nuclear gene. Molec. Phylogenet. Evol. 39: 759-786.
53. Lojacono, P.M. 1881. Minaea Lojac. Nuovo Giorn. Bot. Ital. 13: 291-307.
54. Lysak, M. & Koch, M.A. 2011. Phylogeny, genome and karyotype evolution of crucifers (Brassicaceae). Pp. 1-32 in: Schmidt, R. & Bancroft, I. (eds.), Genetics and genomics of the Brassicaceae. New York: Springer.
55. Lysak, M.A., Koch, M.A., Leitch, I.J., Beaulieau, J.M. & Meister, A. 2009. The dynamic ups and downs of genome size evolution in Brassicaceae. Molec. Biol. Evol. 26: 85-98.
56. Maere, S., De Bodt, S., Raes, J., Casneuf, T., Van Montagu, M., Kuiper, M. & Van de Peer, Y. 2005. Modeling gene and genome duplications in eukaryots. Proc. Natl. Acad. Sci. U.S.A. 102: 5454-5429.
57. Martín-Bravo, S., Valcárcel, V., Vargas, P. & Luceño, M. 2010. Geographical speciation related to Pleistocene range shifts in the western Mediterranean mountains (Reseda sect. Glaucoreseda, Resedaceae). Taxon 59: 466-482.
58. Morales, R. 1993. Jonopsidium Rchb. Pp. 249-252 in: Castroviejo, S., Aedo, C., Gómez-Campo, C., Laínz, M., Montserrat, P., Morales, R., Munoz Garmendia, F., Nieto Feliner, G., Rico, E., Talavera, S. & Villar, L. (eds.), Flora Iberica, vol. 4, Cruciferae to Monotropaceae. Madrid: Consejo Superior de Investigaciones Científicas.
59. Mummenhoff, K. & Koch, M. 1994. Chloroplast DNA restriction site variation and phylogenetic relationships in the genus Thlaspi sensu lato (Brassicaceae). Syst. Bot. 19: 73-88.
60. Mummenhoff, K., Franzke, A. & Koch, M. 1997a. Molecular data reveal convergence in fruit characters, traditionally used in the classification of Thlaspi s.l. (Brassicaceae): Evidence from ITSDNA sequences. Bot. J. Linn. Soc. 125: 183-199.
61. Mummenhoff, K., Franzke, A. & Koch, M. 1997b. Molecular phylogenetics of Thlaspi s.l. (Brassicaceae) based on chloroplast DNA restriction site variation and sequences of the internal transcribed spacer of nuclear ribosomal DNA. Canad. J. Bot. 75: 469-482.
62. Nylander, J.A.A., Ronquist, F., Huelsenbeck, J.P. & Nieves-Aldrey, J.L. 2004. Bayesian phylogenetic analysis of combined data. Syst. Biol. 53: 47-67.
63. Posada, D. & Crandall, K.A. 1998. MODELTEST: Testing the model of DNA substitution. Bioinformatics 14: 817-818.
64. Rambaut, A. & Drummond, A.J. 2007. Tracer, version 1.4. http://beast.bio.ed.ac.uk/Tracer.
65. Reeves, R.D. 1988. Nickel and zinc accumulation by species of Thlaspi L., Cochlearia L., and other genera of the Brassicaceae. Taxon 37: 309-318.
66. Rodríguez-Sánchez, F., Pérez-Barrales, R., Ojeda, F., Vargas, P. & Arroyo, J. 2008. The strait of Gibraltar as a melting pot for plant biodiversity. Quatern. Sci. Rev. 27: 2100-2117.
67. Santos-Gally, R., Vargas, P. & Arroyo, J. 2011. Insights into Neogene Mediterranean biogeography based on phylogenetic relationships of mountain and lowland lineages of Narcissus (Amaryllidaceae). J. Biogeogr. doi:10.1111/j.1365-2699.2011.02526.x.
68. Schranz, M.E. & Mitchell-Olds, T. 2006. Independent ancient polyploidy events in the sister families Brassicaceae and Cleomaceae. Pl. Cell 18: 1152-1165.
69. Shimodaira, H. & Hasegawa, M. 1999. Multiple comparisons of loglikelihoods with applications to phylogenetic inference. Molec. Biol. Evol. 16: 1114-1116.
70. Shu, G., Amaral, W., Hileman, L.C. & Baum, D.A. 2000. LEAFY and the evolution of rosette flowering in violet cress (Jonopsidium acaule, Brassicaceae). Amer. J. Bot. 87: 634-641.
71. Suc, J.P. 1984. Origin and evolution of the Mediterranean vegetation and climate in Europe. Nature 307: 429-432.
72. Swofford, D.L. 2002. PAUP*: Phylogenetic analysis using parsimony (*and other methods), version 4. Sunderland, Massachusetts: Sinauer.
73. Taberlet, P., Gielly, L., Pautou, G. & Bouvet, J. 1991. Universal primers for amplification of three non-coding regions of chloroplast DNA. Pl. Molec. Biol. 17: 1105-1109.
74. Thompson, J.D., Gibson, T.J., Plewniak, F., Jeanmougin, F. & Higgins, D.G. 1997. The CLUSTAL_X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucl. Acids Res. 25: 4876-4882.
75. Todaro, A. 1854. Pastorea Tod. ex Bertol. P. 520 in: Bertoloni, A. (ed.), Flora italica, vol. 10. Bologna: Masi.
76. Vogt, R. 1987. Die Gattung Cochlearia L. (Cruciferae) auf der Iberischen Halbinsel. Mitt. Bot. Staatssamml. München 23: 393-421.
77. Vogt, R. 1993. Genus Cochlearia. Pp. 227-233 in: Castroviejo, S., Aedo, C., Gómez-Campo, C., Laínz, M., Montserrat, P., Morales, R., Munoz Garmendia, F., Nieto Feliner, G., Rico, E., Talavera, S. & Villar, L. (eds.), Flora Iberica, vol. 4, Cruciferae to Monotropaceae. Madrid: Consejo Superior de Investigaciones Científicas.
78. Warwick, S.I. & Al-Shehbaz, I.A. 2006. Brassicaceae: Chromosome number index and database on CD-Rom. Pl. Syst. Evol. 259: 237-248.
79. Warwick, S.I., Mummenhoff, K., Sauder, C.A., Koch, M.A. & Al-Shehbaz, I.A. 2010. Closing the gaps: Phylogenetic relationships in the Brassicaceae based on DNA sequence data of nuclear ribosomal ITS region. Pl. Syst. Evol. 285: 209-232.
80. Wolfe, K.H., Sharp, P.M. & Li, W.H. 1989. Rates of synonymous substitutions in plant genes. J. Molec. Evol. 29: 208-211.
81. Yokoyama, Y., Lambeck, K., De Deckler, P., Johnston, P. & Fifield, L.K. 2000. Timing of the last glacial maximum from observed sea-level minima. Nature 406: 713-716.
82. Yoon, H.-S. 2003. A floral meristem identity gene influences physiological and ecological aspect of floral organogenesis. J. Pl. Biol. 46: 271-276.
83. Yoon, H.S. & Baum, D.A. 2004. Transgenic study of parallelism in plant morphological evolution. Proc. Natl. Acad. Sci. U.S.A. 101: 6524-6529.
84. Yule, G.U. 1924. A mathematical theory of evolution based on the conclusions of Dr J. C. Willis. Philos. Trans., Ser. B 213: 21-87.
85. Zwickl, D.J. 2006. Genetic algorithm approaches for the phylogenetic analysis of large biological sequence data sets under the maximum likelihood criterion. Ph.D. dissertation, University of Texas at Austin, Texas, U.S.A.