Population structure and dispersal in a patchy landscape: Nuclear and mitochondrial markers reveal area effects in the spider Theridion californicum (Araneae: Theridiidae)

Biological Journal of the Linnean Society

Volumn 104, Issue 3, 2011, Pages 600-620

  Croucher, Peter J P ^a   Oxford, Geoff S ^b   Gillespie, Rosemary G ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b UNIVERSITY OF YORK   (United Kingdom)

Author keywords

Balancing selection; Colour polymorphism; Dispersal; Disturbance; Gene flow; Land use change; Range expansion

Indexed keywords

ANTHROPOGENIC EFFECT; BIODIVERSITY; BIOMARKER; COLOR MORPH; DEMOGRAPHIC TREND; DISPERSAL; ENVIRONMENTAL DISTURBANCE; GENE FLOW; GENETIC STRUCTURE; GENETIC VARIATION; HABITAT FRAGMENTATION; LAND USE CHANGE; PATCH DYNAMICS; POLYMORPHISM; POPULATION STRUCTURE; RANGE EXPANSION; REFUGIUM; SPIDER;

CALIFORNIA; PACIFIC COAST [NORTH AMERICA]; SAN FRANCISCO BAY; UNITED STATES;

ARANEAE; ARANEAE THERIDIIDAE; THERIDION;

EID: 80054699025     PISSN: 00244066     EISSN: 10958312     Source Type: Journal    
DOI: 10.1111/j.1095-8312.2011.01734.x     Document Type: Article

References (67)

1. Bandelt H-J, Forster P, Röhl A. 1999. Median-joining networks for inferring intraspecific phylogenies. Molecular Biology and Evolution 16: 37-48.
2. Banks N. 1904. Some Arachnida from California. Proceedings of the California Academy of Sciences 3: 331-376.
3. Baptista LF. 1976. Song dialects and demes in sedentary populations of white-crowned sparrow Zonotrichia leucophrys nuttali. University of California Publications in Zoology 105: 1-52.
4. Beerli P. 2006. Comparison of Bayesian and maximum-likelihood inference of population genetic parameters. Bioinformatics 22: 341-345.
5. Beerli P, Felsenstein J. 1999. Maximum-likelihood estimation of migration rates and effective population numbers in two populations using a coalescent approach. Genetics 152: 763-773.
6. Beerli P, Felsenstein J. 2001. Maximum-likelihood estimation of a migration matrix and effective population sizes in n subpopulations by using a coalescent approach. Proceedings of the National Academy of Science of the USA 98: 4563-4568.
7. Bell JR, Bohan DA, Shaw EM, Weyman GS. 2005. Ballooning dispersal using silk: world fauna, phylogenies, genetics and models. Bulletin of Entomological Research 95: 69-114.
8. Bloor P, Kemp SJ, Brown RP. 2008. Recent volcanism and mitochondrial DNA structuring in the lizard Gallotia atlantica from the island of Lanzarote. Molecular Ecology 17: 854-866.
9. Bonnet E, Van de Peer Y. 2002. Zt: a software tool for simple and partial Mantel tests. Journal of Statistical Software 710: 1-12.
10. Bonte D, Vandenbroecke N, Lens L, Maelfait J-P. 2003. Low propensity for aerial dispersal in specialist spiders from fragmented landscapes. Proceedings of the Royal Society of London. Series B 270: 1601-1607.
11. Cain AJ, Currey JD. 1963a. Area effects in Cepaea. Philosophical Transactions of the Royal Society London B 246: 1-81.
12. Cain AJ, Currey JD. 1963b. The causes of area effects. Heredity 18: 467-471.
13. Cameron RAD, Williamson P, Morgan-Huws DI. 1977. The habitats of the land snail Cepaea nemoralis L. on downland and their ecogenetic significance. Biological Journal of the Linnean Society 9: 231-241.
14. Cameron RAD, Carter MA, Palles-Clark MA. 1980. Cepaea on Salisbury Plain: patterns of variation, landscape history and habitat stability. Biological Journal of the Linnean Society 14: 335-358.
15. Chatzimanolis S, Caterino MS. 2009. Phylogeography and conservation genetics of Californian coastal terrestrial communities: a comparative study using three beetles. Insect Conservation and Diversity 14: 222-232.
16. Chiucchi JE, Gibbs HL. 2010. Similarity of contemporary and historical gene flow among highly fragmented populations of an endangered rattlesnake. Molecular Ecology 19: 5345-5358.
17. Cowie RH, Jones JS. 1998. Gene frequency changes in Cepaea snails on the Marlbrough Downs over 25 years. Biological Journal of the Linnean Society 65: 233-255.
18. Criscuolo A, Berry V, Douzery EJP, Gascuel O. 2006. SDM; a fast distance-based approach for super-tree building in phylogenomics. Systematic Biology 55: 740-755.
19. Croucher PJP, Oxford GS, Lam A, Gillespie RG. 2011. Stabilizing selection maintains exuberant colour polymorphism in the spider Theridion californicum Araneae, Theridiidae. Molecular Ecology 20: 206-218.
20. Davis EB, Koo MS, Conroy C, Patton JL, Moritz C. 2008. The California Hotspots Project: identifying regions of rapid diversification of mammals. Molecular Ecology 17: 120-138.
21. Davison A, Clarke B. 2010. History or current selection? A molecular analysis of 'area effects' in the land snail Cepaea nemoralis. Proceedings of the Royal Society London B 267: 1399-1405.
22. Dodd RS, Kashani N. 2003. Molecular differentiation and diversity among the California red oaks Fagaceae; Quercus section Lobatae. Theoretical and Applied Genetics 107: 884-892.
23. Dupanloup I, Schneider S, Excoffier L. 2002. A simulated annealing approach to define the genetic structure of populations. Molecular Ecology 11: 2571-2581.
24. Edwards S. 2002. A botanical exploration of the Tilden Park area of San Pablo Ridge, Contra Costa County, CA. The Four Seasons 114: 3-52.
25. Ewers RM, Didham RK. 2006. Confounding factors in the detection of species responses to habitat fragmentation. Biological Reviews 81: 117-142.
26. Excoffier L. 2004. Patterns of DNA sequence diversity and genetic structure after a range expansion: lessons from the infinite-island model. Molecular Ecology 13: 853-864.
27. Excoffier L, Lischer HEL. 2010. ARLEQUIN suite ver.3.5. A new series of programs to perform population genetics analyses under Linux and Windows. Molecular Ecology Resources 10: 564-576.
28. Excoffier L, Smouse PE. 1994. Using allele frequencies and geographic subdivision to reconstruct gene trees within a species: molecular variance parsimony. Genetics 136: 343-359.
29. Excoffier L, Smouse PE, Quattro JM. 1992. Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial restriction data. Genetics 131: 479-491.
30. Eytan RI, Hellberg ME. 2010. Nuclear and mitochondrial sequence data reveal and conceal different demographic histories and population genetic processes in Caribbean reef fishes. Evolution 64: 3380-3397.
31. Foll M, Beaumont MA, Gaggiotti O. 2008. An approximate Bayesian computation approach to overcome biases that arise when using amplified fragment length polymorphism markers to study population structure. Genetics 179: 927-939.
32. Folmer O, Black M, Hoeh W, Lutz R, Vrijenhoek R. 1994. DNA primers for amplification of mitochondrial cytochromec oxidase subunitI from diverse metazoan invertebrates. Molecular Marine Biology and Biotechnology 3: 294-299.
33. Goodacre SL. 2001. Genetic variation in a Pacific Island land snail: population history versus current drift and selection. Proceedings of the Royal Society London B 268: 121-126.
34. Goodhart CB. 1963. 'Area effects' and non-adaptive variation between populations of Cepaea Mollusca. Heredity 18: 459-465.
35. Gould SJ, Woodruff DS. 1990. History as a cause of area effects: an illustration from Cerion on Great Inagua, Bahamas. Biological Journal of the Linnean Society 40: 67-98.
36. Hardy OJ. 2003. Estimation of pairwise relatedness between individuals and characterization of isolation by distance processes using dominant markers. Molecular Ecology 12: 1577-1588.
37. Hardy OJ, Vekemans X. 2002. SPAGeDi: a versatile computer program to analyse spatial genetic structure at the individual or population levels. Molecular Ecology Notes 2: 618-620.
38. Jones TL. 1992. Settlement trends along the California coast. In: Jones TL, ed. Essays on the prehistory of maritime California. Davis, CA: Center for Archaeological Research, University of California, 1-37.
39. Keeley JE. 2005. Fire history of the San Francisco East Bay region and implication for landscape patterns. International Journal of Wildland Fire 14: 285-296.
40. Kuhner MK. 2008. Coalescent genealogy samplers: windows into population history. Trends in Ecology & Evolution 24: 86-93.
41. Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, McWilliam H, Valentin F, Wallace IM, Wilm A, Lopez R, Thompson JD, Gibson TJ, Higgins DG. 2007. CLUSTALW and CLUSTALX version2.0. Bioinformatics 23: 2947-2948.
42. Levi HW. 1957. The spider genera Enoplognatha, Theridion and Paidisca in America north of Mexico. Bulletin of the American Museum of Natural History 112: 1-123.
43. Maddison WP, Maddison DR. 2009. MESQUITE: a modular system for evolutionary analysis. 2.72 edn.
44. Mantel NA, Valand RS. 1970. A technique of non-parametric multivariate analysis. Biometrics 26: 547-558.
45. Martínez-Solano I, Jockusch EL, Wake DB. 2007. Extreme population subdivision throughout a continuous range: phylogeography of Batrachoseps attenuatus (Caudata: Plethodontodae) in western North America. Molecular Ecology 16: 4335-4355.
46. Mayer C, Schiegg K, Pasinelli G. 2009. Patchy population structure in a short-distance migrant: evidence from genetic and demographic data. Molecular Ecology 18: 2353-2364.
47. McBride JR, Heady HF. 1968. Invasion of grassland by Baccharis pilularis DC. Journal of Range Management 21: 106-108.
48. Nei M. 1987. Molecular evolutionary genetics. New York, NY: Columbia University Press.
49. Ochman H, Jones JS, Selander RK. 1983. Molecular area effects in Cepaea. Proceedings of the National Academy of Sciences USA 80: 4189-4193.
50. Oxford GS. 2005. Genetic drift within a protected polymorphism enigmatic variation in colour-morph frequencies in the candy-stripe spider Enoplognatha ovata. Evolution 59: 2170-2184.
51. Oxford GS. 2009. An exuberant, undescribed colour polymorphism in Theridion californicum (Araneae, Theridiidae): implications for a theridiid pattern ground plan and the convergent evolution of visible morphs. Biological Journal of the Linnean Society 96: 23-34.
52. Oxford GS, Shaw MW. 1986. Long-term variation in colour-morph frequencies in the spider Enoplognatha ovata Clerck (Araneae: Theridiidae): natural selection, migration and intermittent drift. Biological Journal of the Linnean Society 27: 225-249.
53. R Development Core Team. 2008. R: a language and environment for statistical computing. Vienna: R Foundation for Statistical Computing.
54. Ramirez MG, Haakonsen KE. 1999. Gene flow among patches on a fragmented landscape in the spider Argiope trifasciata (Araneae: Araneidae). Heredity 83: 580-585.
55. Ray N, Currat M, Excoffier L. 2003. Intra-deme molecular diversity in spatially expanding populations. Molecular Biology and Evolution 20: 76-86.
56. Rogers AR, Harpending H. 1992. Population growth makes waves in the distribution of pairwise genetic differences. Molecular Biology and Evolution 9: 552-569.
57. Russell WH, McBride JR. 2003. Landscape scale vegetation-type conversion and fire hazard in the San Francisco bay area open spaces. Landscape and Urban Planning 64: 201-208.
58. Schneider S, Excoffier L. 1999. Estimation of demographic parameters from the distribution of pairwise differences when the mutation rates vary among sites: application to human mitochondrial DNA. Genetics 152: 1079-1089.
59. Shannon CE, Weaver W. 1949. The mathematical theory of communication. Urbana: University of Illinois Press.
60. Slatkin M, Hudson RR. 1991. Pairwise comparisons of mitochondrial DNA sequences in stable and exponentially growing populations. Genetics 129: 555-562.
61. Sokal RR. 1983. Analyzing character variation in geographic space. In: Felsenstein J, ed. Numerical taxonomy. Berlin; Heidelberg: Springer-Verlag, 384-403.
62. Sokal RR, Oden NL. 1978. Spatial autocorrelation in biology. 1. Methodology. Biological Journal of the Linnaean Society 10: 199-228.
63. Tajima F. 1989. Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123: 585-595.
64. Vandergast AG, Bohonak AJ, Weissman DB, Fisher RN. 2007. Understanding the genetic effects of recent habitat fragmentation in the context of evolutionary history: phylogeography and landscape genetics of a southern California endemic Jerusalem cricket (Orthoptera: Stenopelmatidae: Stenopelmatus). Molecular Ecology 16: 977-992.
65. Whitlock MC, McCauley DE. 1999. Indirect measures of gene flow and migration; FST≠1/4Nm+1. Heredity 82: 117-125.
66. Wright S. 1931. Evolution in Mendelian populations. Genetics 16: 97-159.
67. Yeh FC, Boyle TJB. 1997. Popgene. 1.1edn. Edmonton: Department of Renewable Resources, University of Alberta.