High genetic diversity and population differentiation in Boechera fecunda, a rare relative of Arabidopsis

Molecular Ecology

Volumn 16, Issue 19, 2007, Pages 4079-4088

  Song, Bao Hua ^a   Mitchell Olds, Thomas ^a  

^a DUKE UNIVERSITY   (United States)

Author keywords

Adaptation; Boechera fecunda; Conservation; Genetic variation; Molecular markers; Population differentiation

Indexed keywords

MICROSATELLITE DNA;

ARABIDOPSIS; ARTICLE; BRASSICACEAE; COMPARATIVE STUDY; DNA SEQUENCE; ENVIRONMENTAL PROTECTION; GENE FREQUENCY; GENETIC POLYMORPHISM; GENETICS; PHYSIOLOGY; SPECIES DIFFERENCE; SPECIES EXTINCTION; UNITED STATES;

ARABIDOPSIS; BRASSICACEAE; CONSERVATION OF NATURAL RESOURCES; EXTINCTION, BIOLOGICAL; GENE FREQUENCY; MICROSATELLITE REPEATS; MONTANA; POLYMORPHISM, GENETIC; SEQUENCE ANALYSIS, DNA; SPECIES SPECIFICITY;

ARABIDOPSIS; ARABIDOPSIS THALIANA; BOECHERA; BOECHERA STRICTA;

EID: 34748855518     PISSN: 09621083     EISSN: 1365294X     Source Type: Journal    
DOI: 10.1111/j.1365-294X.2007.03500.x     Document Type: Article

References (56)

1. Amos W (1999) Two problems with the measurement of genetic diversity and genetic distance. In : Genetics and the Extinction of Species (eds Landweber LF, Dobson AP), pp. 75 100. Princeton University Press, Princeton, New Jersey.
2. Avise J, Hamrick JL (1995) Conservation Genetics: Case Histories from Nature. Chapman & Hall, New York.
3. Brooks TM, Mittermeier RA, da Fonseca GAB et al 2006) Global biodiversity conservation priorities. Science, 313, 58 61.
4. Charlesworth B, Charlesworth D, Barton NH (2003) The effects of genetic and geographic structure on neutral variation. Annual Review of Ecology, Evolution, and Systematics, 34, 99 125.
5. Clauss MJ, Mitchell-Olds T (2003) Population genetics of tandem trypsin inhibitor genes in Arabidopsis species with contrasting ecology and life history. Molecular Ecology, 12, 1287 1299.
6. Cornuet JM, Luikart G (1996) Description and power analysis of two tests for detecting recent population bottlenecks from allele frequency data. Genetics, 144, 2001 2014.
7. Crandall KA, Bininda-Emonds ORP, Mace GM, Wayne RK (2000) Considering evolutionary processes in conservation biology. Trends in Ecology & Evolution, 15, 290 295.
8. Davies N, Villablanca FX, Roderick GK (1999) Determining the source of individuals: multilocus genotyping in nonequilibrium population genetics. Trends in Ecology & Evolution, 14, 17 21.
9. Dobes C, Mitchell-Olds T, Koch MA (2004) Intraspecific diversification in North American Boechera stricta (= Arabis drummondii), Boechera xdivaricarpa, and Boechera holboellii (Brassicaceae) inferred from nuclear and chloroplast molecular markers - an integrative approach. American Journal of Botany, 91, 2087 2101.
10. Drury WH (1974) Rare species. Biological Conservation, 6, 162 169.
11. Ellis JR, Pashley CH, Burke JM, McCauley DE (2006) High genetic diversity in a rare and endangered sunflower as compared to a common congener. Molecular Ecology, 15, 2345 2355.
12. Ellstrand NC, Elam DR (1993) Population genetic consequences of small population-size - implications for plant conservation. Annual Review of Ecology and Systematics, 24, 217 242.
13. Frankham R (1995) Effective population size/adult population size ratios in wildlife: a review. Genetical Research, 66, 95 107.
14. Gitzendanner MA, Soltis PS (2000) Patterns of genetic variation in rare and widespread plant congeners. American Journal of Botany, 87, 783 792.
15. Goudet J (2001) fstat, a Program to Estimate and Test Gene Diversities and Fixation Indices (v. 2.9. 3), http://www2.unil.ch/popgen/softwares/fstat. htm.
16. Hamilton MB, Mitchell-Olds T (1994) The mating system and relative performance of selfed and outcrossed progeny in Arabis fecunda (Brassicaceae). American Journal of Botany, 81, 1252 1256.
17. Hamrick JL, Godt MJW (1989) Allozyme Diversity in Plant Species. Sinauer & Associates, Sunderland, Massachusetts.
18. Hamrick JL, Godt MJW (1996) Conservation genetics of endemic plant species. Conservation Genetics - Case Histories from Nature, 281 304.
19. Hedrick P (1992) Population genetics - shooting the RAPDs. Nature, 355, 679 680.
20. Hedrick PW (1999) Perspective: highly variable loci and their interpretation in evolution and conservation. Evolution, 53, 313 318.
21. Hedrick PW (2001) Conservation genetics: where are we now? Trends in Ecology & Evolution, 16, 629 636.
22. Hedrick PW, Parker KM (1998) MHC variation in the endangered Gila topminnow. Evolution, 52, 194 199.
23. Jensen JL, Bohonak AJ, Kelley ST (2005) Isolation by distance, web service. v.3.0.1. BMC Genetics 6, 13. Available from URL: http://ibdws.sdsu.edu/ .
24. Koch MA, Haubold B, Mitchell-Olds T (2000) Comparative evolutionary analysis of chalcone synthase and alcohol dehydrogenase loci in Arabidopsis, Arabis, and related genera (Brassicaceae). Molecular Biology and Evolution, 17, 1483 1498.
25. Kohn MH, Murphy WJ, Ostrander EA, Wayne RK (2006) Genomics and conservation genetics. Trends in Ecology & Evolution, 21, 629 637.
26. Lesica P (1993) Report on the conservation status of Arabis fecunda, a candidate threatened species. Montana Natural Heritage Program, Helena, MT.
27. Lewis PO (1991) Allozyme variation in the rate Gulf Coast endemic Polygonella macrophylla Small (Polygonaceae). Plant Species Biology, 6, 1 10.
28. Lynch M, Crease TJ (1990) The analysis of population survey data on DNA sequence variation. Molecular Biology and Evolution, 7, 377 394.
29. McKay JK, Bishop JG, Lin JZ et al 2001) Local adaptation across a climatic gradient despite small effective population size in the rare sapphire rockcress. Proceedings of the Royal Society of London. Series B, Biological Sciences, 268, 1715 1721.
30. Notter DR (1999) The importance of genetic diversity in livestock populations of the future. Journal of Animal Science, 77, 61 69.
31. Nybom H (2004) Comparison of different nuclear DNA markers for estimating intraspecific genetic diversity in plants. Molecular Ecology, 13, 1143 1155.
32. Parker KM, Sheffer RJ, Hedrick PW (1999) Molecular variation and evolutionarily significant units in the endangered Gila topminnow. Conservation Biology, 13, 108 116.
33. Peakall ROD, Smouse PE (2006) genalex 6: genetic analysis in Excel. Population genetic software for teaching and research. Molecular Ecology Notes, 6, 288 295.
34. Piry S, Luikart G, Cornuet J-M (1999) bottleneck: a computer program for detecting recent reductions in effective population size from allele frequency data. Journal of Heredity, 90, 502 503.
35. Pritchard JK, Stephens M, Donnelly P (2000) Inference of population structure using multilocus genotype data. Genetics, 155, 945 959.
36. Ranker TA (1994) Evolution of high genetic variability in the rare Hawaiian fern Adenophorus periens and implications for conservation management. Biological Conservation, 70, 19 24.
37. Reist-Marti SB, Simianer H, Gibson J, Hanotte O, Rege JEO (2003) Weitzman's approach and conservation of breed diversity: an application to African cattle breeds. Conservation Biology, 17, 1299 1311.
38. Rieseberg LH (1997) Hybrid origins of plant species. Annual Review of Ecology and Systematics, 28, 359 389.
39. Rollins RC (1993) The Cruciferae of Continental North America. Stanford University Press, Stanford, California.
40. Rousset F (1997) Genetic differentiation and estimation of gene flow from F-statistics under isolation by distance. Genetics, 145, 1219 1228.
41. Rozas J, Sanchez-DelBarrio JC, Messeguer X, Rozas R (2003) dnasp, DNA polymorphism analyses by the coalescent and other methods. Bioinformatics, 19, 2496 2497.
42. Schmid KJ, Ramos-Onsins S, Ringys-Beckstein H, Weisshaar B, Mitchell-Olds T (2005) A multilocus sequence survey in Arabidopsis thaliana reveals a genome-wide departure from a neutral model of DNA sequence polymorphism. Genetics, 169, 1601 1615.
43. Schranz ME, Dobes C, Koch MA, Mitchell-Olds T (2005) Sexual reproduction, hybridization, apomixis, and polyploidization in the genus Boechera (Brassicaceae). American Journal of Botany, 92, 1797 1810.
44. Slatkin M (1995) A measure of population subdivision based on microsatellite allele frequencies. Genetics, 139, 457 462.
45. Song BH, Clauss MJ, Pepper A, Mitchell-Olds T (2006) Geographic patterns of microsatellite variation in Boechera stricta, a close relative of Arabidopsis. Molecular Ecology, 15, 357 369.
46. Stebbins GL (1942) The genetic approach to problems of rare and endemic species. Madroño, 6, 241 258.
47. Stebbins GL (1980) Rarity of plant species: a synthetic viewpoint. Rhodora, 82, 77 86.
48. Thompson JD, Higgins DG, Gibson TJ (1994) clustalw: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Research, 22, 4673 4680.
49. van Tienderen PH, de Haan AA, van der Linden CG, Vosman B (2002) Biodiversity assessment using markers for ecologically important traits. Trends in Ecology & Evolution, 17, 577 582.
50. Toro MA, Caballero A (2005) Characterization and conservation of genetic diversity in subdivided populations. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences, 360, 1367 1378.
51. USDI-FWS (1993) 50 CFR Part 17. Endangered and threatened wildlife and plants; review of plant taxa for listing as endangered or threatened species; notice of review. Federal Register, 58, 51144 51190.
52. Vogelmann JE, Gastony GJ (1987) Electrophoretic enzyme analysis of North American and Eastern Asian populations of Agastache sect. Agastache (Labiatae). American Journal of Botany, 74, 385 393.
53. Watterson GA (1975) On the number of segregating sites in genetical models without recombination. Theoretical Population Biology, 7, 256 276.
54. Weir B, Cockerham C (1984) Estimating F-statistics for the analysis of population structure. Evolution, 38, 1358 1370.
55. Yeh F, Boyle T (1997) Population genetic analysis of co-dominant and dominant markers and quantitative traits. Belgian Journal of Botany, 129, 157.
56. Young AG, Brown AHD (1996) Comparative population genetic structure of the rare woodland shrub Daviesia suaveolens and its common congener D. Mimosoides. Conservation Biology, 10, 1220 1228.