Abstract
Physaria bellii (Brassicaceae) is a rare, outcrossing perennial endemic to shale and sandstone outcrops along the Front Range of northern Colorado, USA. This species is locally abundant, but ranked G2/S2—imperiled because of threats to its habitat and a small number of populations—according to NatureServe’s standardized ranking system. Leaf tissue from ten populations was analyzed with ISSR (Inter-Simple Sequence Repeat) markers to discern the amount of genetic diversity and degree of population subdivision in P. bellii. Genetic diversity was moderate (0.22) and a moderately high degree of population structure was found (F ST calculated using two algorithms ranged from 0.17 to 0.24). An AMOVA partitioned most of the variation among individuals within populations (76%), and the remainder among populations (24%). Results from a Principal Coordinates analysis were consistent with the geographic distribution of populations. A Mantel test of the correlation between genetic and geographic distances was highly significant (P < 0.001). The pattern of variation thus appears to be distributed along a gradient, and efforts to conserve this species should involve preserving enough populations so that gene flow between populations is not interrupted.
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References
Bassam BJ, Caetano-Anollés G (1993) Silver staining of DNA in polyacrylamide gels. Appl Biochem Biotechnol 42:181–188
Carpenter A (1997) Ecological studies of the rare plant Physaria bellii (Bell’s Twinpod) on City of Boulder Open Space Lands. Unpublished report, Boulder (Colorado, USA) Open Space and Mountain Parks Department
Charlesworth D (2003) Effects of inbreeding on the genetic diversity of populations. Philos Trans R Soc Lond B Biol Sci 358:1051–1070
Colorado Natural Heritage Program. Natural Heritage Methodology. http://www.cnhp.colostate.edu/heritage.html
de Lange PJ, Norton DA (2004) The ecology and conservation of Kunzea sinclairii (Myrtaceae), a naturally rare plant of rhyolitic rock outcrops. Biol Conserv 117:49–59
Donahue RL, Miller RW, Shickluna JC (1983) Soils: an introduction to soils and plant growth. 5th edn. Prentice-Hall, Upper Saddle River, New Jersey
Doyle GA, Neid SL, Rondeau RJ (2004) Survey of Critical Biological Resources, Larimer County, Colorado. Unpublished report, Colorado Natural Heritage Program
Excoffier L, Laval G, Schneider S (2005) Arlequin ver. 3.0: An integrated software package for population genetics data analysis. http://anthro.unige.ch/arlequin. Cited 10 Oct 2005
Fleishman E, Launer AE, Switky KR et al (2001) Rules and exceptions in conservation genetics: genetic assessment of the endangered plant Cordylanthus palmatus and its implications for management planning. Biol Conserv 98:45–53
Frankham R, Ballou JD, Briscoe DA (2002) Population fragmentation. In: An Introduction to Conservation Genetics, pp 309–335. Cambridge University Press, Cambridge
Gaston KJ (1994) Abundances and range sizes: measuring rarity. In:Gaston KJ, (ed.) Rarity. Population and Community Biology Series 13. Chapman Hall, New York, pp 22–56
Gupta M, Chyi YS, Romeroseverson J et al (1994) Amplification of DNA markers from evolutionarily diverse genomes using single primers of simple-sequence repeats. Theor Appl Genet 89:998–1006
Hardy OJ (2003) Estimation of pairwise relatedness between individuals and characterization of isolation-by-distance processes using dominant genetic markers. Mol Ecol 12:1577–1588
Hartl DL, Clark AG (1997) Organization of genetic variation. In: Principles of Population Genetics, pp 74–107. Sinauer Associates, Sunderland, Massachusetts
Hensen I, Oberprieler C (2005) Effects of population size on genetic diversity and seed production in the rare Dictamnus albus (Rutaceae) in central Germany. Conserv Genet 6:63–73
Holsinger KE, Lewis PO, Dey DK (2002) A Bayesian approach to inferring population structure from dominant markers. Mol Ecol 11:1157–1164
Holsinger KE, Lewis PO (2003) HICKORY: a package for analysis of population genetic data V1.0. http://www.eeb.uconn.edu. Cited 15 Oct 2005
Huenneke LF (1991) Ecological implications of genetic variation in plant populations. In: Falk DA, Holsinger KE (eds) Genetics and conservation of rare plants, Oxford University Press, New York, pp 31–44
Jacquemyn H, Honnay O, Galbusera P et al (2004) Genetic structure of the forest herb Primula elatior in a changing landscape. Mol Ecol 13:211–219
Juan A, Crespo MB, Cowan RS et al (2004) Patterns of variability and gene flow in Medicago citrina, an endangered endemic of islands in the western Mediterranean, as revealed by amplified fragment length polymorphism (AFLP). Mol Ecol 13:2679–2690
Kunin WE, Gaston KJ (1997) Concluding comments. In: Kunin WE, Gaston KJ (eds) The biology of rarity. Chapman & Hall, London, pp 262–272
Llorens TM, Ayre DJ, Whelan RJ (2004) Evidence for ancient genetic subdivision among recently fragmented populations of the endangered shrub Grevillea caleyi (Proteaceae). Heredity 92:519–526
Lynch M, Milligan BG (1994) Analysis of population genetic structure with RAPD markers. Mol Ecol 3:91–99
Mace GM, Kershaw M (1997) Extinction risk and rarity on an ecological timescale. In: Kunin WE, Gaston KJ (eds) The biology of rarity: the causes and consequences of rare-common differences. Chapman & Hall, London, pp 131–149
Mantel N (1967) The detection of disease clustering and a generalized regression approach. Cancer Res 27:209–220
Mateu-Andres I, Segarra-Moragues JG (2000) Population subdivision and genetic diversity in two narrow endemics of Antirrhinum L. Mol Ecol 9:2081–2087
Mattner J, Zawko G, Rossetto M et al (2002) Conservation genetics and implications for restoration after mining of the Western Australian serpentine endemic Hemiginea exilis. Biol Conserv 107:37–45
Miller MP (2000) Tools For Population Genetic Analyses. A Windows program for the analysis of allozyme and molecular population genetic data. http:// www.marksgeneticsoftware.net. Cited 8 Oct 2005
Miyashita NT, Kawabe A, Innan H (1999) DNA variation in the wild plant Arabidopsis thaliana revealed by amplified fragment length polymorphism analysis. Genetics 152:1723–1731
Morse LE (1986) The network of state natural heritage inventory programs – information management for environmental review and conservation planning. Am J Bot 73:776
Mulligan GA (1966) Two new species of Physaria (Cruciferae) in Colorado. Can J Bot 44:1661–1665
Nei M (1978) Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics 89:583–590
Owuor ED, Beharav A, Fahima T et al (2003) Microscale ecological stress causes RAPD molecular selection in wild barley, Neve Yaar microsite, Israel. Genet Resour Crop Evol 50:213–223
Peakall R, Smouse PE (2001) GenAlEx V5: Genetic Analysis in Excel. http://www.anu.edu.au/BoZo/GenAlEx. Cited 12 Oct 2005
Pepper AE, Norwood LE (2001) Evolution of Caulanthus amplexicaulis var. barbarae (Brassicaceae), a rare serpentine endemic plant: a molecular phylogenetic perspective. Am J Bot 88:1479–1489
Rabinowitz D (1981) Seven forms of rarity. In: Synge H (ed) The biological aspects of rare plant conservation. John Wiley & Sons, New York, pp 205–217
Rosenzweig ML, Lomolino MV (1997) Rarity and community ecology: who gets the tiny bits of the broken stick. In: Kunin WE, Gaston KJ (eds) The biology of rarity: the causes and consequences of rare-common differences. Chapman & Hall, London, pp 63–90
Sales E, Nebauer SG, Mus M et al (2001) Population genetic study in the Balearic endemic plant species Digitalis minor (Scrophulariaceae) using RAPD markers. Am J Bot 88:1750–1759
SAS (2003) SAS/STAT software: changes and enhancements through release 9.1. SAS Institute, Cary, North Carolina, USA
Segarra-Moragues JG, Palop-Esteban M, Gonzalez-Candelas F et al (2005) On the verge of extinction: genetics of the critically endangered Iberian plant species, Borderea chouardii (Dioscoreaceae) and implications for conservation management. Mol Ecol 14:969–982
Spackman S, Jennings B, Coles J et al (1997) Colorado Rare Plant Field Guide. Prepared for the Bureau of Land Management, USDA Forest Service, and U.S. Fish and Wildlife Service by the Colorado Natural Heritage Program
Spiegelhalter DJ, Best NG, Carlin BP et al (2002) Bayesian measures of model complexity and fit. J R Statist Soc B 64:583–640
Supples C (2001) Differences in canopy cover, density, and reproductive activity, with respect to aspect, of Physaria bellii populations within Fort Collins Natural Areas. Unpublished BS Honors Thesis, Colorado State University
Tero N, Aspi J, Siikamaki P et al (2003). Genetic structure and gene flow in a metapopulation of an endangered plant species, Silene tatarica. Mol Ecol 12:2073–2085
Vos P, Hogers R, Bleeker M et al (1995) AFLP – A new technique for DNA-fingerprinting. Nucleic Acids Res 23:4407–4414
Welsh J, McClelland M (1990) Fingerprinting genomes using PCR with arbitrary primers. Nucleic Acids Res 18:7213–7218
Williams JGK, Kubelik AR, Livak KJ et al (1990) DNA polymorphism amplified by arbitrary primers are useful as genetic markers. Nucleic Acids Res 18:6531–6535
Wolfe AD, Xiang Q, Kephart SR (1998) Assessing hybridization in natural populations of Penstemon (Scrophulariaceae) using hypervariable intersimple sequence repeat (ISSR) bands. Mol Ecol 7:1107–1125
Xiao LQ, Ge XJ, Gong X et al (2004) ISSR variation in the endemic and endangered plant Cycas guizhouensis (Cycadaceae). Ann Bot 94:133–138
Zietkiewicz E, Rafalski A, Labuda D (1994) Genome fingerprinting by simple sequence repeat (SSR) – anchored polymerase chain-reaction amplification. Genomics 20:176–183
Acknowledgements
This work was supported by grants to LK from the City of Boulder Open Space and Mountain Parks (OSMP) Small Grants Program and the Colorado Native Plant Society’s Steinkamp Fund, and start up funds to SEC. Lynn Riedel from OSMP, the staff of the Colorado Natural Heritage Program, Meegan Fleniken from the Larimer County Parks and Open Lands department, Claire DeLeo of the Boulder County Open Space Department and the City of Fort Collins Natural Areas department are gratefully acknowledged for providing location information and/or permits to work with Physaria bellii.
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Kothera, L., Richards, C.M. & Carney, S.E. Genetic diversity and structure in the rare Colorado endemic plant Physaria bellii Mulligan (Brassicaceae). Conserv Genet 8, 1043–1050 (2007). https://doi.org/10.1007/s10592-006-9252-4
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DOI: https://doi.org/10.1007/s10592-006-9252-4