Biogeography of the livebearing fish Poecilia gillii in Costa Rica: Are phylogeographical breaks congruent with fish community boundaries?

Molecular Ecology

Volumn 18, Issue 19, 2009, Pages 4088-4101

  Lee, Jared B ^a   Johnson, Jerald B ^a  

^a BRIGHAM YOUNG UNIVERSITY   (United States)

Author keywords

Community assembly; Phylogeography; Poeciliidae; Vicariance

Indexed keywords

MITOCHONDRIAL DNA; RIBOSOME DNA;

ANIMAL; ARTICLE; COSTA RICA; CYPRINODONTIFORMES; DNA SEQUENCE; GENE FLOW; GENETICS; GEOGRAPHY; HAPLOTYPE; MOLECULAR EVOLUTION; PHYLOGENY; POPULATION DENSITY; POPULATION GENETICS;

ANIMALS; COSTA RICA; DNA, MITOCHONDRIAL; DNA, RIBOSOMAL; EVOLUTION, MOLECULAR; GENE FLOW; GENETICS, POPULATION; GEOGRAPHY; HAPLOTYPES; PHYLOGENY; POECILIA; POPULATION DENSITY; SEQUENCE ANALYSIS, DNA;

CYPRINODONTIFORMES; POECILIA GILLI; POECILIIDAE;

EID: 70349319859     PISSN: 09621083     EISSN: 1365294X     Source Type: Journal    
DOI: 10.1111/j.1365-294X.2009.04339.x     Document Type: Article

References (54)

1. Abell R, Thieme ML, Revenga C et al. (2008) Freshwater ecoregions of the world: a new map of biogeographic untis for freshwater biodiversity conservation. BioScience, 58, 403 414.
2. Avise JC (1992) Molecular population structure and the biogeographic history of a regional fauna: a case history with lessons for conservation biology. Oikos, 63, 62 76.
3. Avise JC (1994) Molecular Markers, Natural History, and Evolution. Chapman and Hall, New York.
4. Avise JC (2000) Phylogeography: The History and Formation of Species. Harvard University Press, Cambridge, MA.
5. Avise JC, Arnold J, Ball RM et al. (1987) Intraspecific phylogeography: the mitochondrial DNA bridge between population genetics and systematics. Annual Review of Ecology and Systematics, 18, 489 522.
6. 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.
7. 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 Sciences, USA, 98, 4563 4568.
8. Burton RS (1998) Intraspecific phylogeography across the Point Conception biogeographic boundary. Evolution, 52, 734 745.
9. Bussing WA (1998) Freshwater Fishes of Costa Rica, 2nd edn. Editorial de la Universidad de Costa Rica, San Jose, Costa Rica.
10. Caley MJ, Schluter D (1997) The relationship between local and regional diversity. Ecology, 78, 70 80.
11. Chapman LJ (1992) Variation in the structure of Poecilia gillii populations. Copeia, 1992, 908 914.
12. Chapman LJ, Kramer DL, Chapman CA (1991) Population dynamics of the fish Poecilia gillii (Poeciliidae) in pools of an intermittent tropical stream. Journal of Animal Ecology, 60, 441 453.
13. Chow S, Hazama K (1998) Universal PCR primers for S7 ribosomal protein gene introns in fish. Molecular Ecology, 7, 1255 1256.
14. Clement M, Posada D, Crandall KA (2000) tcs: a computer program to estimate gene genealogies. Molecular Ecology, 9, 1657 1659.
15. Coates AG, Obando JA (1996) The geologic evolution of the Central America Isthmus. In : Evolution and Environment in Tropical America (eds Jackson JBC, Budd AF, Coates AG pp. 21 56. Chicago University Press, Chicago, IL.
16. Connell JH (1972) Community interactions on marine intertidal shores. Annual Review of Ecology and Systematics, 3, 169 192.
17. Connor EF, Simberloff D (1979) The assembly of species communities: chance or competition? Ecology, 60, 1132 1140.
18. Cornell HV, Lawton JH (1992) Species interactions, local and regional processes, and limits to the richness of ecological communities: a theoretical perspective. Journal of Animal Ecology, 61, 1 12.
19. Crandall KA (1994) Intraspecific cladogram estimation: accuracy at higher levels of divergence. Systematic Biology, 43, 222 235.
20. Diamond JM (1975) Assembly of species communities. In : Ecology and Evolution of Communities (ed. Cody ML, Diamond JM pp. 342 444. Harvard University Press, Cambridge.
21. Dowling TE, Naylor GJP (1997) Evolutionary relationships of minnows in the genus Luxilus (Teleostei: Cyprinidae) as determined from cytochrome b sequences. Copeia, 1997, 758 765.
22. Drummond AJ, Rambaut A (2007) beast: Bayesian evolutionary analysis by sampling trees. BMC Evolutionary Biology, 7, 214.
23. Drummond AJ, Rambaut A, Shapiro B, Pybus OG (2005) Bayesian coalescent inference of past population dynamics from molecular sequences. Molecular Biology and Evolution, 22, 1185 1192.
24. Dunson WA, Travis J (1991) The role of abiotic factors in community organization. The American Naturalist, 138, 1067 1091.
25. Dupanloup I, Schneider S, Excoffier L (2002) A simulated annealing approach to define the genetic structure of populations. Molecular Ecology, 11, 2571 2581.
26. Emerson BC, Gillespie RG (2008) Phylogenetic analysis of community assembly and structure over space and time. Trends in Ecology and Evolution, 23, 619 630.
27. Excoffier L, Smouse PE, Quattro JM (1992) Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genetics, 131, 479 491.
28. Excoffier L, Laval G, Schneider S (2005) arlequin ver. 3.0: an integrated software package for population genetics data analysis. Evolutionary Bioinformatics Online, 1, 47 50.
29. Gillespie R (2004) Community assembly through adaptive radiation in Hawaiian spiders. Science, 303, 356 359.
30. Graham SW, Reeves PA, Burns ACE, Olmstead RG (2000) Microstructural changes in noncoding chloroplast DNA: interpretation, evolution, and utility of indels and inversions in basal angiosperm phylogenetic inference. International Journal of Plant Science, 161, S83 S96.
31. Hubert N, Renno JF (2006) Historical biogeography of South American freshwater fishes. Journal of Biogeography, 33, 1414 1436.
32. Humphries CJ, Parenti LR (1999) Cladistic Biogeography: Interpreting Patterns of Plant and Animal Distributions. Oxford University Press, New York.
33. Jones CP, Johnson JB (2009) Phylogeography of the livebearer Xenophallus umbratilis (Teleostei: Poeciliidae): glacial cycles and sea level change predict diversification of a freshwater tropical fish. Molecular Ecology, 18, 1640 1653.
34. Kelchner SA (2000) The evolution of non-coding chloroplast DNA and its application in plant systematics. Annals of the Missouri Botanical Gardens, 87, 482 498.
35. Kuhner MK (2006) lamarc 2.0: maximum likelihood and Bayesian estimation of population parameters. Bioinformatics, 22, 768 770.
36. Maddison DR, Maddison WP (2003) MacClade 4: Analysis of phylogeny and character evolution, version 4.06. Sinauer Associates, Sunderland, MA.
37. Morrone JJ, Crisci JV (1995) Historical biogeography: introduction to methods. Annual Review of Ecology and Systematics, 26, 373 401.
38. Nelson G, Platnick NI (1981) Systematics and Biogeography: Cladistics and Vicariance. Columbia University Press, New York.
39. Posada D, Crandall KA (1998) modeltest: testing the model of DNA substitution. Bioinformatics, 14, 817 818.
40. Rambaut A, Drummond AJ (2007) Tracer v1.4. Available from http://beast.bio.ed.ac.uk/Tracer.
41. Reyjol Y, Hugueny B, Pont D et al. (2007) Patterns in species richness and endemism of European freshwater fish. Global Ecology and Biogeography, 16, 65 75.
42. Ricklefs RE (1987) Community diversity: relative roles of local and regional processes. Science, 235, 167 171.
43. Ronquist F (1997) Dispersal-vicariance analysis: a new approach to the quantification of historical biogeography. Systematic Biology, 46, 195 203.
44. Smith SA, Bermingham E (2005) The biogeography of lower Mesoamerican freshwater fishes. Journal of Biogeography, 32, 1835 1854.
45. Swofford DL (1999) paup*: Phylogenetic Analysis Using Parsimony (*and Other Methods), Version 4.0b2. Sinauer Associates, Sunderland, MA, USA.
46. Templeton AR, Crandall KA, Sing CF (1992) A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping and DNA sequence data. III. Cladogram estimation. Genetics, 132, 619 633.
47. Tilman D (1988) Plant Strategies and the Dynamics and Structure of Plant Communities. Princeton University Press, Princeton, NJ.
48. Toft CA (1985) Resource partitioning in amphibians and reptiles. Copeia, 1985, 1 21.
49. Unmack PJ (2001) Biogeography of Australian freshwater fishes. Journal of Biogeography, 28, 1053 1089.
50. Vamosi SM, Heard SB, Vamosi JC, Webb CO (2009) Emerging patterns in the comparative analysis of phylogenetic community structure. Molecular Ecology, 18, 572 592.
51. Webb CO, Ackerly DD, McPeek MA, Donoghue MJ (2002) Phylogenies and community ecology. Annual Review of Ecology & Systematics, 33, 475 505.
52. Webb CO, Losos JB, Agrawal AA (2006) Integrating phylogenies into community ecology. Ecology, 87, S1 S2.
53. Yap SY (2002) On the distributional patterns of Southeast-East Asia freshwater fish and their history. Journal of Biogeography, 29, 1187 1199.
54. Zwickl DJ (2006) Genetic algorithm approaches for the phylogenetic analysis of large biological sequence datasets under the maximum likelihood criterion. PhD Dissertation, The University of Texas, Austin, TX.