The evolutionary history of the Arabidopsis arenosa complex: Diverse tetraploids mask the Western Carpathian center of species and genetic diversity

PLoS ONE

Volumn 7, Issue 8, 2012, Pages

  Schmickl, Roswitha ^a   Paule, Juraj ^b   Klein, Johannes ^c   Marhold, Karol ^d   Koch, Marcus A ^a  

^a UNIVERSITY OF HEIDELBERG   (Germany)

^b SENCKENBERG RESEARCH INSTITUTE   (Germany)

^c JOHANNES GUTENBERG UNIVERSITY   (Germany)

^d INSTITUTE OF BOTANY   (Slovakia)

Author keywords

[No Author keywords available]

Indexed keywords

SPACER DNA; TRANSFER RNA;

AMPLIFIED FRAGMENT LENGTH POLYMORPHISM; ARABIDOPSIS; ARABIDOPSIS ARENOSA; ARTICLE; CHLOROPLAST GENOME; CONTROLLED STUDY; CYTOTYPE; DIPLOIDY; EUROPE; GENETIC MARKER; GENETIC VARIABILITY; GEOGRAPHIC DISTRIBUTION; INTRON; NONHUMAN; PHYLOGEOGRAPHY; PLANT EVOLUTION; SPECIES DIVERSITY; TETRAPLOIDY;

AMPLIFIED FRAGMENT LENGTH POLYMORPHISM ANALYSIS; ARABIDOPSIS; BASE SEQUENCE; BIOLOGICAL EVOLUTION; CHROMOSOMES, PLANT; DIPLOIDY; DNA, CHLOROPLAST; ECOTYPE; EUROPE; GENETIC VARIATION; GEOGRAPHY; HAPLOTYPES; ICE COVER; PRINCIPAL COMPONENT ANALYSIS; SPECIES SPECIFICITY; TETRAPLOIDY;

ARABIDOPSIS ARENOSA; ARABIDOPSIS THALIANA;

EID: 84864561203     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0042691     Document Type: Article

References (56)

1. Carstens BC, Knowles LL, (2007) Shifting distributions and speciation: species divergence during rapid climate change. Mol Ecol 16: 619-627.
2. Beck JB, Schmuths H, Schaal BA, (2008) Native range genetic variation in Arabidopsis thaliana is strongly geographically structured and reflects Pleistocene glacial dynamics. Mol Ecol 17: 902-915.
3. Dennell RW, Martinón-Torres M, Bermúdez de Castro JM, (2011) Hominin variability, climatic instability and population demography in Middle Pleistocene Europe. Quaternary Sci Rev 30: 1511-1524.
4. Schmickl R, Jørgensen MH, Brysting AK, Koch MA, (2010) The evolutionary history of the Arabidopsis lyrata complex: a hybrid in the amphi-Beringian area closes a large distribution gap and builds up a genetic barrier. BMC Evol Biol 10: 98.
5. Schmickl R, Koch MA, (2011) Arabidopsis hybrid speciation processes. Proc Natl Acad Sci U S A 108: 14192-14197.
6. O'Kane SL Jr, Al-Shehbaz IA, (1997) A synopsis of Arabidopsis (Brassicaceae). Novon 7: 323-327.
7. Al-Shehbaz IA, O'Kane SL Jr, Price RA, (1999) Generic placement of species excluded from Arabidopsis (Brassicaceae). Novon 9: 296-307.
8. Clauss MJ, Koch MA, (2006) Poorly known relatives of Arabidopsis thaliana. Trends Plant Sci 11: 449-459.
9. Koch MA, Matschinger M, (2007) Evolution and genetic differentiation among relatives of Arabidopsis thaliana. Proc Natl Acad Sci U S A 104: 6272-6277.
10. Koch MA, Wernisch M, Schmickl R, (2008) Arabidopsis thaliana's wild relatives: an updated overview on systematics, taxonomy and evolution. Taxon 57: 933-943.
11. Säll T, Jakobsson M, Lind-Halldén C, Halldén C, (2003) Chloroplast DNA indicates a single origin of the allotetraploid Arabidopsis suecica. J Evol Biol 16: 1019-1029.
12. Jakobsson M, Hagenblad J, Tavaré S, Säll T, Halldén C, et al. (2006) A unique recent origin of the allotetraploid species Arabidopsis suecica: Evidence from nuclear DNA markers. Mol Biol Evol 23: 1217-1231.
13. Comai L, Tyagi AP, Winter K, Holmes-Davis R, Reynolds SH, et al. (2000) Phenotypic instability and rapid gene silencing in newly formed Arabidopsis allotetraploids. Plant Cell 12: 1551-1568.
14. Měsíček J, (1970) Chromosome counts in Cardaminopsis arenosa agg. (Cruciferae). Preslia 42: 225-248.
15. Jørgensen MH, Ehrich D, Schmickl R, Koch MA, Brysting A, (2011) Interspecific and interploidal gene flow in Central European Arabidopsis (Brassicaceae). BMC Evol Biol 11: 346.
16. Al-Shehbaz IA, O'Kane SL Jr, (2002) Taxonomy and phylogeny of Arabidopsis (Brassicaceae). The Arabidopsis Book doi: 10.1199/tab.0001.
17. Hayek Av (1908-1914) Flora von Steiermark 1-2(1). Berlin: Verlag von Gebrüder Bornträger.
18. Měsíček J (1998) Cardaminopsis. In: Marhold K, Hindák F, editors. Zoznam nižších a vyšších rastlín Slovenska - Checklist of non-vascular and vascular plants of Slovakia. Bratislava: VEDA. 395-396.
19. Kolník M (2007) Arabidopsis. In: Marhold K, Mártonfi P, Mereďa P Jr, Mráz P, editors. Chromosome number survey of the ferns and flowering plants of Slovakia. Bratislava: VEDA. 94-102 Available: http://www.chromosomes.sav.sk. Accessed 2012 Jul 15.
20. Doyle JJ, Doyle JL, (1987) A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochemical Bulletin 19: 11-15.
21. Vos P, Hogers R, Bleeker M, Reijans M, van de Lee T, et al. (1995) AFLP: a new technique for DNA fingerprinting. Nucleic Acids Res 23: 4407-4414.
22. Bonin A, Bellemain E, Eidesen PB, Pompanon F, Brochmann C, et al. (2004) How to track and assess genotyping errors in population genetics studies. Mol Ecol 13: 3261-3273.
23. Ehrich D, (2006) AFLPdat: a collection of R functions for convenient handling of AFLP data. Mol Ecol Notes 6: 603-604.
24. R Development Core Team (2009) A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. Available: http://www.R-project.org. Accessed 2012 Jul 15.
25. Nei M (1987) Molecular Evolutionary Genetics. New York: Columbia University Press.
26. Kosman E, Leonard KJ, (2005) Similarity coefficients for molecular markers in studies of genetic relationships between individuals for haploid, diploid, and polyploid species. Mol Ecol 14: 415-424.
27. Koch MA, Dobeš C, Matschinger M, Bleeker W, Vogel J, et al. (2005) Evolution of the trnF(GAA) gene in Arabidopsis relatives and the Brassicaceae family: monophyletic origin and subsequent diversification of a plastidic pseudogene. Mol Biol Evol 22: 1032-1043.
28. Clement M, Posada D, Crandall KA, (2000) TCS: a computer program to estimate gene genealogies. Mol Ecol 9: 1657-1659.
29. Templeton AR, Crandall KA, Sing CF, (1992) A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping and DNA sequence data. III. Cladogram estimation. Genetics 132: 619-633.
30. Excoffier L, Laval G, Schneider S, (2005) Arlequin (version 3.0): An integrated software package for population genetics data analysis. Evol Bioinform Online 1: 47-50.
31. Gregorius H-R, (1978) The concept of genetic diversity and its formal relationship to heterozygosity and genetic distance. Math Biosci 41: 253-271.
32. Ehlers J, Gibbard PL (2004) Quaternary glaciations - extent and chronology. Amsterdam: Elsevier.
33. Meusel H, Jäger E, Weinert E (1965) Vergleichende Chorologie der zentraleuropäischen Flora. Jena: Gustav Fischer Verlag.
34. Soltis DE, Buggs RJA, Doyle JJ, Soltis PS, (2010) What we still don't know about polyploidy. Taxon 59: 1387-1403.
35. Stuessy TF, Weiss-Schneeweiss H, Keil DJ, (2004) Diploid and polyploid cytotype distribution in Melampodium cinereum and M. leucanthum (Asteraceae, Heliantheae). Am J Bot 91: 889-898.
36. Kolář F, Štech M, Trávníček P, Rauchová J, Urfus T, et al. (2009) Towards resolving the Knautia arvensis agg. (Dipsacaceae) puzzle: primary and secondary contact zones and ploidy segregation at landscape and microgeographic scales. Ann Bot-London 103: 963-974.
37. Schönswetter P, Lachmayer M, Lettner C, Prehsler D, Rechnitzer S, et al. (2007) Sympatric diploid and hexaploid cytotypes of Senecio carniolicus (Asteraceae) in the Eastern Alps are separated along an altitudinal gradient. J Plant Res 120: 721-725.
38. Willis KJ, (1996) Where did all the flowers go? The fate of temperate European flora during glacial periods. Endeavour 20: 110-114.
39. Petit RJ, Brewer S, Bordács S, Burg K, Cheddadi R, et al. (2002) Identification of refugia and post-glacial colonisation routes of European white oaks based on chloroplast DNA and fossil pollen evidence. Forest Ecol Manag 156: 49-74.
40. Heuertz M, Fineschi S, Anzidei M, Pastorelli R, Salvini D, et al. (2004) Chloroplast DNA variation and postglacial recolonization of common ash (Fraxinus excelsior L.) in Europe. Mol Ecol 13: 3437-3452.
41. Hewitt GM, (1999) Post-glacial re-colonization of European biota. Biol J Linn Soc 68: 87-112.
42. Hewitt G, (2000) The genetic legacy of the Quaternary ice ages. Nature 405: 907-913.
43. Magri D, Vendramin GG, Comps B, Dupanloup I, Geburek T, et al. (2006) A new scenario for the quaternary history of European beech populations: palaeobotanical evidence and genetic consequences. New Phytol 171: 199-221.
44. Ronikier M, Cieślak E, Korbecka G, (2008) High genetic differentiation in the alpine plant Campanula alpina Jacq. (Campanulaceae): evidence for glacial survival in several Carpathian regions and long-term isolation between the Carpathians and the Alps. Mol Ecol 17: 1763-1775.
45. Frenzel B, (1964) Über die offene Vegetation der letzten Eiszeit am Ostrande der Alpen. Vhdlg. Zool.-Botan. Ges. Wien Band 103/104: 110-143.
46. Birks HJB, Willis KJ, (2008) Alpines, trees, and refugia in Europe. Plant Ecol Div 1: 147-160.
47. Pawłowski B, (1970) Remarques sur l'endemisme dans la flore des Alpes et des Carpates. Vegetatio 21: 181-243.
48. Tribsch A, Schönswetter P, (2003) Patterns of endemism and comparative phylogeography confirm palaeoenvironmental evidence for Pleistocene refugia in the Eastern Alps. Taxon 52: 477-497.
49. Niklfeld H, (1972) Der niederösterreichische Alpenostrand - ein Glazialrefugium montaner Pflanzensippen. Jahrbuch des Vereins zum Schutze der Alpenpflanzen und-tiere 37: 1-54.
50. Zimmermann A, (1972) Pflanzenareale am niederösterreichischen Alpenostrand und ihre florengeschichtliche Deutung. Dissertationes Botanicae Band 18: 1-146 (excl. Beilagen).
51. Schönswetter P, Paun O, Tribsch A, Niklfeld H, (2003) Out of the Alps: colonization of northern Europe by east alpine populations of the glacier buttercup Ranunculus glacialis L. (Ranunculaceae). Mol Ecol 12: 3373-3381.
52. Fér T, Vašák P, Vojta J, Marhold K, (2007) Out of the Alps or Carpathians? Origin of Central European populations of Rosa pendulina. Preslia 79: 367-376.
53. Koch M, Dobeš C, Bernhardt KG, Kochjarová J, (2003) Cochlearia macrorrhiza (Brassicaceae): a bridging species between Cochlearia taxa from the Eastern Alps and the Carpathians? Plant Syst Evol 242: 137-147.
54. Cieślak E, Ronikier M, Koch MA, (2007) Western Ukrainian Cochlearia (Brassicaceae) - the identity of an isolated edge population. Taxon 56: 112-118.
55. Hey J, Nielsen R, (2007) Integration within the Felsenstein equation for improved Markov chain Monte Carlo methods in population genetics. Proc Natl Acad Sci U S A 104: 2785-2790.
56. Hey J, (2010) Isolation with migration models for more than two populations. Mol Biol Evol 27: 905-920.