Population structure and historical biogeography of European Arabidopsis lyrata

Heredity

Volumn 105, Issue 6, 2010, Pages 543-553

  Ansell, S W ^a   Stenoien H K ^b   Grundmann, M ^a   Schneider, H ^a   Hemp, A ^c   Bauer, N ^d   Russell, S J ^a   Vogel, J C ^a  

^a DEPARTMENT OF LIFE SCIENCES   (United Kingdom)

^b NORWEGIAN UNIVERSITY OF SCIENCE AND TECHNOLOGY   (Norway)

^c UNIVERSITY OF POTSDAM   (Germany)

^d DEPARTMENT OF ZOOLOGY   (Hungary)

Author keywords

bottlenecks; glacial survival; model organism; population structure

Indexed keywords

PLANT DNA;

ALLOZYME; BAYESIAN ANALYSIS; BIOGEOGRAPHY; CHLOROPLAST; COLD TOLERANCE; DEMOGRAPHIC HISTORY; ECOLOGICAL MODELING; GENETIC DIFFERENTIATION; GENETIC STRUCTURE; GENOMICS; HABITAT TYPE; HERB; INBREEDING; PERIGLACIAL ENVIRONMENT; POPULATION BOTTLENECK; POPULATION STRUCTURE; SURVIVAL;

ARABIDOPSIS; ARTICLE; CHLOROPLAST; CLASSIFICATION; EUROPE; GENETIC VARIABILITY; GENETICS; HAPLOTYPE; MOLECULAR EVOLUTION; MOLECULAR GENETICS; PHYLOGENY;

ARABIDOPSIS; CHLOROPLASTS; DNA, PLANT; EUROPE; EVOLUTION, MOLECULAR; GENETIC VARIATION; HAPLOTYPES; MOLECULAR SEQUENCE DATA; PHYLOGENY;

AUSTRIA;

ARABIDOPSIS; ARABIDOPSIS LYRATA; ARABIDOPSIS THALIANA;

EID: 78649321675     PISSN: 0018067X     EISSN: 13652540     Source Type: Journal    
DOI: 10.1038/hdy.2010.10     Document Type: Article

References (54)

1. Al-Shehbaz IA, O'Kane SL (2002). Taxonomy and phylogeny of Arabidopsis (Brassicaceae). In: Somerville CR, Meyerowitz EM (eds) The Arabidopsis Book. American Society of Plant Biologist: Rockville, Maryland, pp 1-22.
2. Alsos IG, Engelsknt T, Gielly L, Taberlet P, Brochmann C (2005). Impact of ice ages on circumpolar molecular diversity: insights from an ecological key species. Mol Ecol 14: 2739-2753.
3. Ansell SW, Grundmann M, Russell SJ, Schneider H, Vogel JC (2008). Genetic discontinuity, breeding-system change and population history of Arabis alpina in the Italian Peninsula and adjacent Alps. Mol Ecol 17: 2245-2257.
4. Ansell SW, Schneider H, Pedersen N, Grundmann M, Russell SJ, Vogel JC (2007). Recombination diversifies chloroplast trnF pseudogenes in Arabidopsis lyrata. J Evol Biol 20: 2400-2411.
5. 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.
6. Casgrain P, Legendre P (2001). The R-package for Multivariant and Spatial Analysis. Version 4: 00 (d6) Department de sciences biologiques, Universite de Montreal Available at http://www. bio.umontreal.ca/casgrain/en/labo/R/v4/index. html.
7. Charlesworth D, Bartolome C, Schierup MH, Mable BK (2003). Haplotype structure of the stigmatic self-incompatibility gene in natural populations of Arabidopsis lyrata. Mol Biol. Evol 20: 1741-1753.
8. Clauss MJ, Mitchell-Olds T (2006). Population genetic structureof Arabidopsis lyrata in Europe. Mol Ecol 15: 2753-2766.
9. Cornuet JM, Luikart G (1996). Description and power analysisof two tests for detecting recent population bottlenecks fromallele frequency data. Genetics 144: 2001-2014.
10. Ehrich D, Gaudel M, Assefa A, Koch MA, Mummenhoff K,Nemomissa S, et al., Intrabiodiv Consortium (2007). Geneticconsequences of pleistocene range shifts: contrast betweenthe arctic, the alps and the east African mountains. Mol Ecol16: 2545-2559.
11. Evanno G, Regnaut S, Goudet J (2005). Detecting the number ofclusters of individuals using the software STRUCTURE: asimulation study. Mol Ecol 14: 2611-2620.
12. Excoffier L, Laval G, Schneider S (2005). ARLEQUIN (version3.0): An intregated software package for population geneticdata analysis. Evol Bioinform Online 1: 47-50.
13. Gabrielsen TM, Bachmann K, Jakobsen KS, Brochmann C (1997).Glacial survival does not matter: RAPD phylogeography ofNordic Saxifraga oppositifolia. Mol Ecol 6: 831-842.
14. Gaudeul M, Stennien HK, Agren J (2007). Landscape structure,clonal proprogation, and genetic diversity in Scandinavianpopulations of Arabidopsis lyrata (Brassicaceae). Am J Botany94: 1146-1155.
15. Hall TA (1999). BioEdit: A User-Friendly Biological SequenceAlignment Editor and Analysis Program. North Carolina StateUniversity: Raleigh. Available at http://www.mbio.ncsu.edu/BioEdit/bioedit.html.
16. Hamrick JL, Godt MJW (1996). Effects of life history traits ongenetic diversity in plant species. Philos Trans R Soc Lond, SerB 351: 1291-1298.
17. Hejeny S, Slavik B (1992). Cardaminopsis petraea, Kvetena CeskeRepubliky. vol. 3. Academia Press: Praha, pp 117-118.
18. Hemp A (1996). Okologie, Verbreitung und Gesellschaftsans-chlup ausgewhlter Eiszeitrelikte (Cardaminopsis petraea, Drabaaizoides, Saxifraga decipiens, Arabis alpina und Asplenium viride)in der Pegnitzalb. Berichte der Bayrischen Botanischen Ge-sellschaft 66/67, 233-267.
19. Hewitt GM (2004). Genetic consequences of climate oscillationsin the quaternary. Philos Trans R Soc Lond, Ser B 359: 183-195.
20. Ibrahim K, Nichols RA, Hewitt GM (1996). Spatial patterns ofgenetic variation generated by different forms of dispersalduring range expansion. Heredity 77: 282-291.
21. Jalas J, Suominen J (1994). Atlas florae Europaeae. Cruciferae(Symbrium to Aubrieta). vol. 10. Helsinki University Press:Helsinki, pp 180-181.
22. Jonsell B, Kustas K, Nordal I (1995). Genetic variation in Arabispetraea, a disjunct species in northern Europe. Ecography 18:321-332.
23. Karkkainen K, Kuittinen H, van Treuren R, Vogl C, Oikarien S,Savolainen O (1999). Genetic basis of inbreeding depressionin Arabis petraea. Evolution 53: 1354-1365.
24. Kivimaki M, Karkkainen K, Gaudeul M, Loe G, Agren J (2007).Gene, phenotype and function: Glabrous1 and resistance toherbivory in natural populations of Arabidopsis lyrata. MolEcol 16: 453-462.
25. Koch MA, Haubold B, Mitchell-Olds T (2000). Comparativeevolutionary analysis of the chalcone synthase and alcoholdehydrogenase loci among different lineages Arabidopsis,Arabis, and related genera (Brassicaceae). Mol Biol Evol 17:1483-1498.
26. Koch MA, Matschinger M (2007). Evolution and geneticdifferentiation among relatives of Arabidopsis thaliana. ProcNatl Acad Sci 104: 6272-6277.
27. Kuittinen H, Niittyvuopio A, Rinne P, Savolainen O (2007).Natural variation in Arabidopsis lyrata vernalization requirement conferred by a FRIGIDA indel polymorphism. Mol BiolEvol 25: 319-329.
28. Lang G (1994). Quartare Vegetationsgeschichte Europas. GustavFischer: Jena.
29. Leinonen PH, Sandring S, Quilot B, Clauss MJ, Mitchell-Olds T, Rgen J et al. (2009). Local adaptation in Euorpean populations of Arabidopsis lyrata (Brassicaceae). Am J Botany 96: 1129-1137.
30. Lewis PO, Zaykin D (2001). Genetic Data Analysis: Computer program for the analysis of allelic data Version 1.1. Available at http://hydrodictyon.eeb. uconn.edu/people/plewis/software.php.
31. Mable BK, Adam A (2007). Patterns of genetic diversity in outcrossing and selfing populations of Arabidopsis lyrata. Mol Ecol 16: 3565-3580.
32. Mitchell-Olds T (2006). Genetic mechanisms and evolutionary significance of natural variation in Arabidopsis. Nature 441: 947-952.
33. Mráz P, Gaudeul M, Rioux D, Gielly L, Choler P, Taberlet P, IntraBioDiv Consortium (2007). Genetic structure of Hypo-chaeris uniflora (Asteraceae) suggests vicariance in the Carpathians and rapid post-glacial colonization of the Alps from an eastern Alpine refugium. J Biogeogr 34: 2100-2114.
34. Muller M-H, Leppälä J, Savolainen O (2008). Genome-wide effects of postglacial colonization in Arabidopsis lyrata. Heredity 100: 47-58.
35. Nielsen R (2005). Molecular signatures of natural selection. Ann Rev Genet 39: 197-218.
36. Petit RJ, Aguinagalde I, de Baeulie JL, Bittkau C, Brewer S, Cheddadi R et al. (2003). Glacial refugia: hotspots but not melting pots of genetic diversity. Science 300: 1563-1565.
37. Petit RJ, El Mousadik A, Pons O (1998). Identifying populations for conservation on the basis of genetic markers. Conserv Biol 12: 844-855.
38. Piry S, Luikart G, Cornuet J-M (1999). BOTTLENECK: a computer program for detecting recent reductions in the effective population size using allele frequency data. J Hered 90: 502-503.
39. Polataschek A (1966). Cytotaxonomische Beitrage zur Flora der̈ Ostalpenländer, I. Osterreichische Botanische Zeitschrift 113:1-46.
40. Pritchard JK, Stephens M, Donelly P (2000). Inference of population structure using multilocus genotype data. Genetics 155: 945-959.
41. Ratcliffe DA (1994). Arabis petraea In: Stewart A, Pearman DA, Preston CD (eds). Scarce plants of the British Isles. JNCC: Peterborough. pp 51.
42. Rogers AR, Harpending H (1992). Population growth makes waves in the distribution of pairwise genetic differences. Mol Biol Evol 9: 552-569.
43. Ross-Ibarra J, Wright SI, Foxe JP, Kawabe A, DeRose-Wilson L, Gos G et al. (2008). Patterns of Polymorphism and Demographic History in Natural Populations of Arabidopsis lyrata. PloS One 3: e2411.?
44. Sandring S, Agren J (2009). Pollinator-mediated selection onfloral display and flowering time in the perennial herbArabidopsis lyrata. Evolution 63: 1292-1300.
45. Schierup MH (1998). The effect of enzyme heterozygosity on growth in a strictly outcrossing species: the self-incompatible Arabis petraea (Brassicaceae). Hereditas 128: 21-31.
46. Schierup MH, Bechsgaard JS, Nielsen LH, Christiansen FB (2006). Selection at work in self-incompatible Arabidopsis lyrata: mating patterns in a natural population. Genetics 72: 477-484.
47. Schmickl R, Kiefer C, Dobes? C, Koch MA (2009). Evolution of trnF(GAA) pseudogenes in cruciferous plants. Plant Syst Evol 282: 229-240.
48. Stern R, Leidi S, Dale I, Grayer C (2005). INSTAT-an interactive statistical package. Statistical Services Centre, The University of Reading, UK. Available at http://www.rdg.ac.uk/ssc/software/instat/instat.html.
49. Taberlet P, Fumagalli L, Wust-Saucy A-M, Cosson J-F (1998). Comparative phylogeography and postglacial colonisation routes in Europe. Mol Ecol 7: 453-464.
50. van Treuren R, Kuittinen H, Karkkainen K, Baena-Gonzalez E, Savolainen O (1997). Evolution of microsatellites in Arabis petraea and Arabis lyrata, outcrossing relatives of Arabidopsis thaliana. Mol Biol Evol 14: 220-229.
51. Weir BS, Cockerham CC (1984). Estimating F-statistics for the analysis of population structure. Evolution 38: 1358-1370.
52. Wright SI, Lauga B, Charlesworth D (2003). Subdivision and haplotype structure in natural populations of Arabidopsis lyrata. Mol Ecol 12: 1247-1263.
53. Wright SI, Foxe JP, De-Rose-Wilson L, Kawabe A, Loosely M, Gaut BS et al. (2006). Testing for Effects of Recombination Rate on Nucleotide Diversity in Natural Populations of Arabidopsis lyrata. Genetics 174: 1421-1430.
54. Yeh FC, Yang R, Boyle T (1999). POPGENE Microsoft Window-based Freeware for Population Genetic Analysis Version 1 31 Centre for International Forestry Research, University of Alberta. Available at http://www.ualberta.ca/Bfyeh/.