Three genetic lineages of the japanese skink plestiodon japonicus (scincidae, squamata) and the genetic composition of their contact zones

Journal of Zoological Systematics and Evolutionary Research

Volumn 47, Issue 2, 2009, Pages 181-188

  Okamoto, T ^a   Hikida, T ^a  

^a KYOTO UNIVERSITY   (Japan)

Author keywords

Cryptic species; Genetic lineages; Internal transcribed spacer 1; Introgression; MtDNA; Parapatry; Species delimitation

Indexed keywords

ANCESTRY; CRYPSIS; DIVERGENCE; GENE FLOW; GENETIC DIFFERENTIATION; GENETIC MARKER; GENETIC STRUCTURE; GEOGRAPHICAL VARIATION; HYBRIDIZATION; INTROGRESSION; LIZARD; MITOCHONDRIAL DNA; MORPHOLOGY; PARAPATRY; REPRODUCTIVE ISOLATION;

SCINCIDAE; SQUAMATA;

EID: 68849090461     PISSN: 09475745     EISSN: 14390469     Source Type: Journal    
DOI: 10.1111/j.1439-0469.2008.00513.x     Document Type: Article

References (40)

1. Akaike H (1974) A new look at the statistical model identification. IEEE Trans Automat Contr 19 : 716 723.
2. Avise JC (2000) Phylogeography: The History and Formation of Species. Harvard University Press, Cambridge, MA/London.
3. Brandley MC, Schmitz A, Reeder TW (2005) Partitioned Bayesian analyses, partition choice, and the phylogenetic relationships of scincid lizards. Syst Biol 54 : 373 390.
4. Burbrink FT, Lawson R, Slowinski JB (2000) Mitochondrial DNA phylogeography of the polytypic North American rat snake (Elaphe obsoleta): a critique of the subspecies concept. Evolution 54 : 2107 2118.
5. Cannone JJ, Subramanian S, Schnare MN, Collett JR, D'Souza LM, Du Y, Feng B, Lin N, Madabusi LV, Müller KM, Pande N, Shang Z, Yu N, Gutell RR (2002) The Comparative RNA Web (CRW) site: an online database of comparative sequence and structure information for ribosomal, intron, and other RNAs. BMC Bioinformatics 3 : 2.
6. Cooper WE Jr., Vitt LJ (1986) Interspecific odour discriminations among syntopic congeners in scincid lizards (genus Eumeces). Behavior 97 : 1 9.
7. Cooper WE Jr., Vitt LJ (1987) Ethological isolation, sexual behavior and pheromones in the Fasciatus species group of the lizard genus Eumeces. Ethology 75 : 328 336.
8. DeBry RW (1999) Maximum likelihood analysis of gene-based and structure-based process partitions, using mammalian mitochondrial genomes. Syst Biol 48 : 286 299.
9. 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.
10. Excoffier L, Laval G, Schneider S (2005) Arlequin ver. 3.0: an integrated software package for population genetics data analysis. Evol Bioinformatics 1 : 47 50.
11. Felsenstein J (1981) Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17 : 368 376.
12. Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39 : 783 791.
13. Girman DJ, Vilà C, Geffen E, Creel S, Mills MGL, McNutt JW, Ginsberg J, Kat PW, Mamiya KH, Wayne RK (2001) Patterns of population subdivision, gene flow and genetic variability in the African wild dog (Lycaon pictus). Mol Ecol 10 : 1703 1723.
14. Grant WS, Bowen BW (1998) Shallow population histories in deep evolutionary lineages of marine fishes: insights from sardines and anchovies and lessons for conservation. J Hered 89 : 415 426.
15. Harris DJ, Crandall KA (2000) Intergenomic variation within ITS1 and ITS2 of freshwater crayfishes (Decapoda: Cambaridae): implications for phylogenetic and microsatellite studies. Mol Biol Evol 17 : 284 291.
16. Hikida T (1993) Phylogenetic relationships of the skinks of the genus Eumeces (Scincidae: Reptilia) from East Asia. Jpn J Herpetol 15 : 1 21.
17. Hikida T (1996) Scincidae. In : Sengoku S, Hikida T, Matsui M, Nakaya K (eds The Encyclopedia of Animals in Japan 5, Amphibians, Reptiles, Chondrichthyes (in Japanese). Heibonsha, Tokyo, pp 80 82.
18. Honda M, Ota H, Kobayashi M, Nabhitabhata J, Yong H-S, Hikida T (1999) Phylogenetic relationships of the flying lizards genus Draco (Reptilia, Agamidae). Zool Sci 16 : 535 549.
19. Jobb G (2004) treefinder: a powerful graphical analysis environment for molecular phylogenetics. BMC Evol Biol 4 : 18.
20. Jobb G (2005) treefinder version of October 2005. Available at: http://www.treefinder.de/.
21. Kato J, Ota H, Hikida T (1994) Biochemical systematics of the latiscutatus species-group of the genus Eumeces (Scincidae: Reptilia) from East Asian islands. Biochem Syst Ecol 22 : 491 500.
22. Morando M, Avila LJ, Sites JW Jr. (2003) Sampling strategies for delimiting species: genes, individuals, and populations in the Liolaemus elongatus-kriegi complex (Squamata: Liolaemidae) in Andean-Patagonian South America. Syst Biol 52 : 159 185.
23. Motokawa J, Hikida T (2003) Genetic variation and differentiation in the Japanese five-lined skink, Eumeces latiscutatus (Reptile: Squamata). Zool Sci 20 : 97 106.
24. Okamoto T, Motokawa J, Toda M, Hikida T (2006) Parapatric distribution of the lizards Plestiodon (formerly Eumeces) latiscutatus and P. japonicus (Reptilia: Scincidae) around the Izu Peninsula, central Japan, and its biogeographic implications. Zool Sci 23 : 419 425.
25. Palumbi SR (1996) Nucleic acids II: the polymerase chain reaction. In : Hillis DM, Moritz C, Mable BK (eds Molecular Systematics, 2nd edn. Sinauer Associates, Sunderland, MA, pp 205 247.
26. Posada D, Crandall KA (1998) MODELTEST: testing the model of DNA substitution. Bioinformatics 14 : 817 818.
27. Puorto G, Da Gaça Salomão M, Theakston RDG, Thorpe RS, Warrell DA, Wüster W (2001) Combining mitochondrial DNA sequences and morphological data to infer species boundaries: phylogeography of lanceheaded pitvipers in the Brazilian Atlantic forest, and the status of Bothrops paradoi (Squamata: Serpentes: Viperidae). J Evol Biol 14 : 527 538.
28. Richmond JQ (2006) Evolutionary basis of parallelism in North American scincid lizards. Evol Dev 8 : 477 490.
29. Richmond JQ, Jockusch EL (2007) Body size evolution simultaneously creates and collapses species boundaries in a clade of scincid lizards. Proc R Soc B 274 : 1701 1708.
30. Richmond JQ, Reeder TW (2002) Evidence for parallel ecological speciation in scincid lizards of the Eumeces skiltonianus species group (Squamata: Scincidae). Evolution 56 : 1498 1513.
31. Ritland CE, Ritland K, Straus NA (1993) Variation in the ribosomal internal transcribed spacers (ITS1 and ITS2) among eight taxa of the Mimulus guttatus species complex. Mol Biol Evol 10 : 1273 1288.
32. Smith HM (2005) Plestildon: a replacement name for most members of the genus Eumeces in North America. J Kansas Herpetol 14 : 15 16.
33. Stejneger L (1907) Herpetology of Japan and adjacent territory. Bull US Natl Mus 58 : 1 577.
34. Swofford DL (2002) paup*. Phylogenetic Analysis Using Parsimony (*and Other Methods) Version 4. [Computer software and manual]. Sinauer Associates, Sunderland, MA.
35. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG (1997) The ClustalX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25 : 4876 4882.
36. Wada H, Makabe KW, Nakauchi M, Satoh N (1992) Phylogenetic relationships between solitary and colonial ascidians, as inferred from the sequence of the central region of their respective 18S rDNA. Biol Bull 183 : 448 455.
37. Wiens JJ (1998) Does adding characters with missing data increase or decrease phylogenetic accuracy? Syst Biol 47 : 625 640.
38. Wilgenbusch J, de Queiroz K (2000) Phylogenetic relationships among the Phynosomatid sand lizards inferred from mitochondrial DNA sequences generated by heterogeneous evolutionary process. Syst Biol 49 : 592 612.
39. Wörheide G, Nichols SA, Goldberg J (2004) Intragenomic variation of the rDNA internal transcribed spacers in sponges (Phylum Porifera): implications for phylogenetic studies. Mol Phylogenet Evol 33 : 816 830.
40. Yang Z (1996) Maximum-likelihood models for combined analyses of multiple sequence data. J Mol Evol 42 : 587 596.