Population genetic structure and landscape connectivity of the Eastern Yellowbelly Racer (Coluber constrictor flaviventris) in the contiguous tallgrass prairie of northeastern Kansas, USA

Landscape Ecology

Volumn 26, Issue 2, 2011, Pages 281-294

  Klug, Page E ^a,b   Wisely, Samantha M ^a   With, Kimberly A ^a  

^a KANSAS STATE UNIVERSITY   (United States)

^b UNIVERSITY OF NOTRE DAME   (United States)

Author keywords

Autocorrelation; Conservation; Dispersal; Fragmentation; Gene flow; Grassland; Isolation by distance; Landscape genetics; Microsatellites; Snake

Indexed keywords

AUTOCORRELATION; BAYESIAN ANALYSIS; CONNECTIVITY; GENE FLOW; GENETIC MARKER; GENETIC STRUCTURE; HABITAT CONSERVATION; HABITAT FRAGMENTATION; HABITAT LOSS; HETEROZYGOSITY; LANDSCAPE STRUCTURE; PRAIRIE; SNAKE;

FLINT HILLS; KANSAS; OKLAHOMA [UNITED STATES]; UNITED STATES;

COLUBER; COLUBER CONSTRICTOR FLAVIVENTRIS;

EID: 78751649164     PISSN: 09212973     EISSN: 15729761     Source Type: Journal    
DOI: 10.1007/s10980-010-9554-2     Document Type: Article

References (65)

1. Balkenhol N, Gugerli F, Cushman SA, Waits LP, Coulon A, Arntzen JW, Holderegger R, Wagner HH, Participants of the Landscape Genetics Research Agenda Workshop 2007 (2009) Identifying future research needs in landscape genetics: where to from here? Landscape Ecol 24: 455-463.
2. Banks SC, Lindenmayer DB, Ward SJ, Taylor AC (2005) The effects of habitat fragmentation via forestry plantation establishment on spatial genotypic structure in the small marsupial carnivore, Antechinus agilis. Mol Ecol 14: 1667-1680.
3. Briggs JM, Knapp AK, Brock BL (2005) An ecosystem in transition: causes and consequences of the conversion of mesic grassland to shrubland. Bioscience 55: 243-254.
4. Busby WH, Parmelee JR (1996) Historical changes in a herpetofaunal assemblage in the Flint Hills of Kansas. Am Midl Nat 135: 81-91.
5. Cagle NL (2008) Snake species distributions and temperate grasslands: a case study from the American tallgrass prairie. Biol Conserv 141: 744-755.
6. Castellano S, Balletto E (2002) Is the partial Mantel test inadequate? Evolution 56: 1871-1873.
7. Cavitt JF (2000) Fire and a tallgrass prairie reptile community: effects on relative abundance and seasonal activity. J Herpetol 34: 12-20.
8. Clark RW, Brown WS, Stechert R, Zamudio KR (2008) Integrating individual behaviour and landscape genetics: the population structure of timber rattlesnake hibernacula. Mol Ecol 17: 719-730.
9. Conant R, Collins JT (1998) A field guide to reptiles & amphibians of eastern and central North America. Houghton Mifflin, New York.
10. Cushman SA, Landguth EL (2010) Spurious correlations and inference in landscape genetics. Mol Ecol 19: 3592-3602.
11. Cushman SA, McKelvey KS, Hayden J, Schwartz MK (2006) Gene flow in complex landscapes: testing multiple hypotheses with causal modeling. Am Nat 168: 486-499.
12. Dixon P (2003) Vegan, a package of R functions for community ecology. J Veg Sci 14: 927-930.
13. Double MC, Peakall R, Beck NR, Cockburn A (2005) Dispersal, philopatry, and infidelity: dissecting local genetic structure in superb fairy-wrens (Malurus cyaneus). Evolution 59: 625-635.
14. Egbert SL, Peterson DL, Stewart AM, Lauver CL, Blodgett CF, Price KP, Martinko EA (2001) The Kansas GAP land cover map: final report. Kansas Biological Survey Report 98.
15. Epperson BK, Li T (1996) Measurement of genetic structure within populations using Moran's spatial autocorrelation statistics. Proc Natl Acad Sci 93: 10528-10532.
16. Evanno G, Regnaut S, Goudet J (2005) Detecting the number of clusters of individuals using the software Structure: a simulation study. Mol Ecol 14: 2611-2620.
17. Fitch HS (1963) Natural history of the racer Coluber constrictor. Univ Kansas Publ Mus Nat Hist 15: 351-468.
18. Fitch HS (1999) Coluber constrictor. In: A Kansas snake community: composition and changes over 50 years. Krieger Publishing Company, Malabar, FL, pp 29-39.
19. Gauffre B, Estoup A, Bretagnolle V, Cosson JF (2008) Spatial genetic structure of a small rodent in a heterogeneous landscape. Mol Ecol 17: 4619-4629.
20. Gibbs HL, Prior KA, Weatherhead PJ, Johnson G (1997) Genetic structure of populations of the threatened eastern massasauga rattlesnake, Sistrurus c. catenatus: evidence from microsatellite DNA markers. Mol Ecol 6: 1123-1132.
21. Greenwood PJ, Harvey PH (1982) The natal and breeding dispersal of birds. Annu Rev Ecol Syst 13: 1-21.
22. Holderegger R, Wagner HH (2006) A brief guide to landscape genetics. Landscape Ecol 21: 793-796.
23. Keogh JS, Webb JK, Shine R (2007) Spatial genetic analysis and long-term mark-recapture data demonstrate male-biased dispersal in a snake. Biol Lett 3: 33-35.
24. King AW, With KA (2002) Dispersal success on spatially structured landscapes: when do spatial pattern and dispersal behavior really matter? Ecol Model 147: 23-39.
25. Klug PE, Jackrel SL, With KA (2010) Linking snake habitat use to nest predation risk in grassland birds: the danger of shrub cover. Oecologia 162: 803-813.
26. Knapp AK, Seastedt TR (1998) Grasslands, Konza Prairie, and long-term ecological research. In: Knapp AK, Briggs JM, Hartnett DC, Collins SL (eds) Grassland dynamics: long-term ecological research in the tallgrass prairie. Oxford University Press, New York, pp 3-15.
27. Koenig WD, van Vuren D, Hooge PN (1996) Detectability, philopatry, and the distribution of dispersal distances in vertebrates. Trends Ecol Evol 11: 514-517.
28. Landguth EL, Cushman SA, Schwartz MK, McKelvey KS, Murphy M, Luikart G (2010) Quantifying the lag time to detect barriers in landscape genetics. Mol Ecol 19: 4179-4191.
29. Lougheed SC, Gibbs HL, Prior KA, Weatherhead PJ (1999) Hierarchical patterns of genetic population structure in black rat snakes (Elaphe obsoleta obsoleta) as revealed by microsatellite DNA analysis. Evolution 53: 1995-2001.
30. Luikart G, Sherwin WB, Steele BM, Allendorf FW (1998) Usefulness of molecular markers for detecting population bottlenecks via monitoring genetic change. Mol Ecol 7: 963-974.
31. Manel S, Schwartz MK, Luikart G, Taberlet P (2003) Landscape genetics: combining landscape ecology and population genetics. Trends Ecol Evol 18: 189-197.
32. Manier MK, Arnold SJ (2005) Population genetic analysis identifies source-sink dynamics for two sympatric garter snake species (Thamnophis elegans and Thamnophis sirtalis). Mol Ecol 14: 3965-3976.
33. Mantel N (1967) The detection of disease clustering and a generalized regression approach. Cancer Res 27: 209-220.
34. McRae BH, Beier P (2007) Circuit theory predicts gene flow in plant and animal populations. Proc Natl Acad Sci 104: 19885-19890.
35. McRae BH, Shah V (2009) Circuitscape user's guide. online. The University of California, Santa Barbara. Available at: http://www. circuitscape. org.
36. Molecular Ecology Resources Primer Development Consortium (2009) Permanent Genetic Resources added to Molecular Ecology Resources Database 1 May 2009-31 July 2009. Mol Ecol Resour 9: 1460-1559.
37. Oksanen J (2005) The VEGAN: Community Ecology Package. Version 1. 6-7. Available at http://www. cran. r-project. org/.
38. Parker WS, Plummer MV (2001) Population ecology. In: Seigel RA, Collins JT, Novak SS (eds) Snakes: ecology and evolutionary biology. The Blackburn Press, Caldwell, NJ, pp 253-301.
39. Peakall R, Smouse PE (2006) Genalex 6: genetic analysis in Excel. Population genetic software for teaching and research. Mol Ecol Notes 6: 288-295.
40. Peakall R, Ruibal M, Lindenmayer DB (2003) Spatial autocorrelation analysis offers new insights into gene flow in the Australian bush rat, Rattus fuscipes. Evolution 57: 1182-1195.
41. Piry S, Luikart G, Cornuet JM (1999) Computer note. Bottleneck: a computer program for detecting recent reductions in the effective size using allele frequency data. J Hered 90: 499-503.
42. Pritchard JK, Stephens M, Donnelly P (2000) Inference of population structure using multilocus genotype data. Genetics 155: 945-959.
43. Pritchard JK, Wen X, Falush D (2009) Documentation for structure software: version 2. 3. Universtiy of Chicago, Chicago, pp 1-37.
44. Prosser MR, Gibbs HL, Weatherhead PJ (1999) Microgeographic population genetic structure in the northern water snake, Nerodia sipedon sipedon detected using microsatellite DNA loci. Mol Ecol 8: 329-333.
45. R Development Core Team (2005) R: a language and environment for statistical computing. Foundation for Statistical Computing, Vienna, Austria.
46. Raufaste N, Rousset F (2001) Are partial Mantel tests adequate? Evolution 55: 1703-1705.
47. Raymond M, Rousset F (1995) Genepop (version 1. 2): population genetics software for exact test and ecumenicism. J Hered 86: 248-249.
48. Rousset F (2000) Genetic differentiation between individuals. J Evolution Biol 13: 58-62.
49. Rousset F (2002) Partial Mantel tests: reply to Castellano and Balletto. Evolution 56: 1874-1875.
50. Schlötterer C (2000) Evolutionary dynamics of microsatellite DNA. Chromosoma 109: 365-371.
51. Schwartz MK, McKelvey KS (2009) Why sampling scheme matters: the effect of sampling scheme on landscape genetic results. Conserv Genet 10: 441-452.
52. Short Bull RA, Cushman SA, Mace R, Chilton T, Kendall K, Landguth EL, Schwartz MK, McKelvey K, Allendorf FW, Luikart G (in press) Why replication is important in landscape genetics: American black bear in the Rocky Mountains. Mol Ecol.
53. Smouse PE, Peakall R (1999) Spatial autocorrelation analysis of individual multiallele and multilocus genetic structure. Heredity 82: 561-573.
54. Smouse PE, Long JC, Sokal RR (1986) Multiple regression and correlaiton extensions of the Mantel test of matrix correspondence. Syst Zool 35: 627-632.
55. Sokal RR, Oden NL (1978) Spatial autocorrelation in biology I. Methodology. Biol J Linn Soc 10: 199-228.
56. Sokal RR, Wartenberg DE (1983) A test of spatial autocorrelation analysis using an isolation-by-distance model. Genetics 105: 219-237.
57. van Oosterhout C, Hutchinson WF, Wills DPM, Shipley P (2004) Microchecker: software for identifying and correcting genotyping errors in microsatellite data. Mol Ecol Notes 4: 535-538.
58. Waisanen PJ, Bliss NB (2002) Changes in population and agricultural land in conterminous United States counties, 1790-1997. Global Biogeochem Cycles 16: 1137-1156.
59. Wilgers DJ, Horne EA (2006) Effects of different burn regimes on tallgrass prairie herpetofaunal species diversity and community composition in the Flint Hills, Kansas. J Herpetol 40: 73-84.
60. Wilgers DJ, Horne EA (2007) Spatial variation in predation attempts on artificial snakes in a fire-disturbed tallgrass prairie. Southwest Nat 52: 263-270.
61. With KA, King AW (1999) Dispersal success on fractal landscapes: a consequence of lacunarity thresholds. Landscape Ecol 14: 73-82.
62. With KA, Gardner RH, Turner MG (1997) Landscape connectivity and population distributions in heterogeneous landscapes. Oikos 78: 151-169.
63. With KA, King AW, Jensen WE (2008) Remaining large grasslands may not be sufficient to prevent grassland bird declines. Biol Conserv 141: 3152-3167.
64. Wright S (1943) Isolation by distance. Genetics 28: 114-138.
65. Zellmer AJ, Knowles LL (2009) Disentangling the effects of historic vs. contemporary landscape structure on population genetic divergence. Mol Ecol 18: 3593-3602.