메뉴 건너뛰기




Volumn 2, Issue 3, 2012, Pages 493-500

Incorrect handling of calibration information in divergence time inference: An example from Volcanic Islands

Author keywords

Bayesian relaxed molecular clock; Biogeography; Hawaii

Indexed keywords


EID: 84874532743     PISSN: None     EISSN: 20457758     Source Type: Journal    
DOI: 10.1002/ece3.94     Document Type: Article
Times cited : (11)

References (40)
  • 1
    • 84874999546 scopus 로고    scopus 로고
    • Scoring hotspots: the plume and plate paradigms
    • Anderson, D. L. 2005. Scoring hotspots: the plume and plate paradigms. Geol. Soc. Am. 388, 31-54.
    • (2005) Geol. Soc. Am. , vol.388 , pp. 31-54
    • Anderson, D.L.1
  • 2
    • 33748894007 scopus 로고    scopus 로고
    • Species diversification patterns in the Polynesian jumping spider genus Havaika Proszynski, 2001 (Araneae Salticidae)
    • Arnedo, M. A., and R. G. Gillespie. 2006. Species diversification patterns in the Polynesian jumping spider genus Havaika Proszynski, 2001 (Araneae, Salticidae). Mol. Phylogenet. Evol. 41, 472-495.
    • (2006) Mol. Phylogenet. Evol. , vol.41 , pp. 472-495
    • Arnedo, M.A.1    Gillespie, R.G.2
  • 3
    • 25144471555 scopus 로고    scopus 로고
    • Phylogeny and age of diversification of the planitibia species group of the Hawaiian Drosophila
    • Bonacum, J., P. M. O'Grady, M. Kambysellis, and R. DeSalle. 2005. Phylogeny and age of diversification of the planitibia species group of the Hawaiian Drosophila. Mol. Phylogenet. Evol. 37, 73-82.
    • (2005) Mol. Phylogenet. Evol. , vol.37 , pp. 73-82
    • Bonacum, J.1    O'Grady, P.M.2    Kambysellis, M.3    DeSalle, R.4
  • 4
    • 0037373563 scopus 로고    scopus 로고
    • The modern molecular clock
    • Bromham, L., and D. Penny. 2003. The modern molecular clock. Nat. Rev. Genet. 4, 216-224.
    • (2003) Nat. Rev. Genet. , vol.4 , pp. 216-224
    • Bromham, L.1    Penny, D.2
  • 5
    • 0002202674 scopus 로고
    • W. L.Wagner and V. A. Funk, eds. Hawaiian biogeography, evolution on a hot spot archipelago. Smithsonian Institution Press,Washington, DC
    • Carson, H. L., and D. A. Clague. 1995. Geology and biogeography of the Hawaiian Islands. 14-29 in W. L.Wagner and V. A. Funk, eds. Hawaiian biogeography, evolution on a hot spot archipelago. Smithsonian Institution Press,Washington, DC.
    • (1995) Geology and biogeography of the Hawaiian Islands , pp. 14-29
    • Carson, H.L.1    Clague, D.A.2
  • 6
    • 33645221085 scopus 로고    scopus 로고
    • Dispersal is fundamental to biogeography and the evolution of biodiversity on oceanic islands
    • Cowie, R. H., and B. S. Holland 2006. Dispersal is fundamental to biogeography and the evolution of biodiversity on oceanic islands. J. Biogeogr. 33, 193-198.
    • (2006) J. Biogeogr. , vol.33 , pp. 193-198
    • Cowie, R.H.1    Holland, B.S.2
  • 8
    • 0041903765 scopus 로고    scopus 로고
    • Toward an integrative historical biogeography
    • Donoghue, M. J., and B. R. Moore 2003. Toward an integrative historical biogeography. Integr. Comp. Biol. 43, 261-270.
    • (2003) Integr. Comp. Biol. , vol.43 , pp. 261-270
    • Donoghue, M.J.1    Moore, B.R.2
  • 9
    • 79959462209 scopus 로고    scopus 로고
    • Approximate likelihood calculation on a phylogeny for Bayesian estimation of divergence times
    • dos Reis, M., and Z. Yang. 2011. Approximate likelihood calculation on a phylogeny for Bayesian estimation of divergence times. Mol. Biol. Evol. 28, 2161-2172.
    • (2011) Mol. Biol. Evol. , vol.28 , pp. 2161-2172
    • dos Reis, M.1    Yang, Z.2
  • 10
    • 38649110663 scopus 로고    scopus 로고
    • BEAST: Bayesian evolutionary analysis by sampling trees
    • Drummond, A. J., and A. Rambaut. 2007. BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol. Biol. 7, 214.
    • (2007) BMC Evol. Biol. , vol.7 , pp. 214
    • Drummond, A.J.1    Rambaut, A.2
  • 11
  • 12
    • 0032055555 scopus 로고    scopus 로고
    • Evolution on a volcanic conveyor belt: using phylogeographic reconstructions and K-Ar-based ages of the Hawaiian Islands to estimate molecular evolutionary rates
    • Fleischer, R. C., C. E. McIntosh, and C. L. Tarr. 1998. Evolution on a volcanic conveyor belt: using phylogeographic reconstructions and K-Ar-based ages of the Hawaiian Islands to estimate molecular evolutionary rates.Mol. Ecol. 7, 533-545.
    • (1998) Mol. Ecol. , vol.7 , pp. 533-545
    • Fleischer, R.C.1    McIntosh, C.E.2    Tarr, C.L.3
  • 13
    • 0030807655 scopus 로고    scopus 로고
    • BIONJ: an improved version of the NJ algorithm based on a simple model of sequence data
    • Gascuel, O. 1997. BIONJ: an improved version of the NJ algorithm based on a simple model of sequence data. Mol. Biol. Evol. 14, 685-695.
    • (1997) Mol. Biol. Evol. , vol.14 , pp. 685-695
    • Gascuel, O.1
  • 15
    • 74549125386 scopus 로고    scopus 로고
    • SeaView version 4 a multiplatform graphical user interface for sequence alignment and phylogenetic tree building
    • Gouy, M., S. Guindon, and O. Gascuel. 2010. SeaView version 4: a multiplatform graphical user interface for sequence alignment and phylogenetic tree building. Mol. Biol. Evol. 27, 221-224.
    • (2010) Mol. Biol. Evol. , vol.27 , pp. 221-224
    • Gouy, M.1    Guindon, S.2    Gascuel, O.3
  • 16
    • 77950806408 scopus 로고    scopus 로고
    • New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3 0
    • Guindon, S., J.-F. Dufayard, V. Lefort, M. Anisimova,W. Hordijk, and O. Gascuel. 2010. New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. Syst. Biol. 59, 307-321.
    • (2010) Syst. Biol. , vol.59 , pp. 307-321
    • Guindon, S.1    Dufayard, J.-F.2    Lefort, V.3    Anisimova, M.4    Hordijk, W.5    Gascuel, O.6
  • 17
    • 79951565662 scopus 로고    scopus 로고
    • Old taxa on young islands: a critique of the use of island age to date island-endemic clades and calibrate phylogenies
    • Heads, M. 2011. Old taxa on young islands: a critique of the use of island age to date island-endemic clades and calibrate phylogenies. Syst. Biol. 60, 204-218.
    • (2011) Syst. Biol. , vol.60 , pp. 204-218
    • Heads, M.1
  • 18
    • 70350103638 scopus 로고    scopus 로고
    • Accounting for calibration uncertainty in phylogenetic estimation of evolutionary divergence times
    • Ho, S. Y.W., and M. J. Phillips. 2009. Accounting for calibration uncertainty in phylogenetic estimation of evolutionary divergence times. Syst. Biol. 58, 367-380.
    • (2009) Syst. Biol. , vol.58 , pp. 367-380
    • Ho, S.Y.W.1    Phillips, M.J.2
  • 19
    • 34250176919 scopus 로고    scopus 로고
    • A geographic mosaic of passive dispersal: population structure in the endemic Hawaiian amber snail Succinea caduca (Mighels 1845)
    • Holland, B. S., and R. H. Cowie. 2007. A geographic mosaic of passive dispersal: population structure in the endemic Hawaiian amber snail Succinea caduca (Mighels, 1845). Mol. Ecol. 16, 2422-2435.
    • (2007) Mol. Ecol. , vol.16 , pp. 2422-2435
    • Holland, B.S.1    Cowie, R.H.2
  • 20
    • 0036405029 scopus 로고    scopus 로고
    • Orsonwelles, a new genus of giant linyphiid spiders (Araneae) from the Hawaiian Islands
    • Hormiga, G. 2002. Orsonwelles, a new genus of giant linyphiid spiders (Araneae) from the Hawaiian Islands. Inver. Syst. 16, 369-448.
    • (2002) Inver. Syst. , vol.16 , pp. 369-448
    • Hormiga, G.1
  • 21
    • 0037292560 scopus 로고    scopus 로고
    • Speciation on a conveyor belt: sequential colonization of the Hawaiian Islands by Orsonwelles spiders (Araneae Linyphiidae)
    • Hormiga, G.,M. Arnedo, and R. G. Gillespie. 2003. Speciation on a conveyor belt: sequential colonization of the Hawaiian Islands by Orsonwelles spiders (Araneae, Linyphiidae). Syst. Biol. 52, 70-88.
    • (2003) Syst. Biol. , vol.52 , pp. 70-88
    • Hormiga, G.1    Arnedo, M.2    Gillespie, R.G.3
  • 22
    • 0037291474 scopus 로고    scopus 로고
    • Molecular systematics and adaptive radiation of Hawaii's endemic damselfly genus Megalagrion (Odonata: Coenagrionidae)
    • Jordan, S., C. Simon, and D. Polhemus. 2003. Molecular systematics and adaptive radiation of Hawaii's endemic damselfly genus Megalagrion (Odonata: Coenagrionidae). Syst. Biol. 52, 89-109.
    • (2003) Syst. Biol. , vol.52 , pp. 89-109
    • Jordan, S.1    Simon, C.2    Polhemus, D.3
  • 23
    • 0001927585 scopus 로고
    • On information and sufficiency
    • Kullback, S., and R. A. Leibler. 1951. On information and sufficiency. Ann. Math. Stat. 22, 142-143.
    • (1951) Ann. Math. Stat. , vol.22 , pp. 142-143
    • Kullback, S.1    Leibler, R.A.2
  • 24
    • 67649217482 scopus 로고    scopus 로고
    • Uniting alignments and trees
    • Loeytynoja, A., and N. Goldman. 2009. Uniting alignments and trees. Science 324, 1528-1529.
    • (2009) Science , vol.324 , pp. 1528-1529
    • Loeytynoja, A.1    Goldman, N.2
  • 25
    • 51849144255 scopus 로고    scopus 로고
    • The age and origin of the Pacific islands: a geological overview
    • Neall, V. E., and S. A. Trewick. 2008. The age and origin of the Pacific islands: a geological overview. Philos. Transac. R. Soc. B Biol. Sci. 363, 3293-3308.
    • (2008) Philos. Transac. R. Soc. B Biol. Sci. , vol.363 , pp. 3293-3308
    • Neall, V.E.1    Trewick, S.A.2
  • 27
    • 75749091259 scopus 로고    scopus 로고
    • Speculations on Cretaceous tectonic history of the northwest Pacific and a tectonic origin for the Hawaii hotspot
    • Norton, I. O. 2007. Speculations on Cretaceous tectonic history of the northwest Pacific and a tectonic origin for the Hawaii hotspot. Geol. Soc. Am. 430, 451-470.
    • (2007) Geol. Soc. Am. , vol.430 , pp. 451-470
    • Norton, I.O.1
  • 28
    • 0037556430 scopus 로고    scopus 로고
    • J. Shimura, K. L.Wilson, and D. Gordon, eds. To the interoperable "Catalog of Life" with partners Species 2000 Asia Oceanea. Research Report from the National Institute for Environmental Studies Tsukuba, Japan
    • Piel,W. H., M. J. Donoghue, and M. J. Sanderson. 2002. TreeBASE: a database of phylogenetic knowledge. 41-47 in J. Shimura, K. L.Wilson, and D. Gordon, eds. To the interoperable "Catalog of Life" with partners Species 2000 Asia Oceanea. Research Report from the National Institute for Environmental Studies Tsukuba, Japan.
    • (2002) TreeBASE: a database of phylogenetic knowledge , pp. 41-47
    • Piel, W.H.1    Donoghue, M.J.2    Sanderson, M.J.3
  • 29
    • 84959737292 scopus 로고
    • Method of analysis for historical biogeography
    • Platnick, N. I., and G. Nelson. 1978. Method of analysis for historical biogeography. Syst. Zool. 27, 1-16.
    • (1978) Syst. Zool. , vol.27 , pp. 1-16
    • Platnick, N.I.1    Nelson, G.2
  • 30
    • 0037038990 scopus 로고    scopus 로고
    • How old is the Hawaiian biota? Geology and phylogeny suggest recent divergence
    • Price, J. P., and D. A. Clague. 2002. How old is the Hawaiian biota? Geology and phylogeny suggest recent divergence. Proc. R. Soc. Lond. Ser. B Biol. Sci. 269, 2429-2435.
    • (2002) Proc. R. Soc. Lond. Ser. B Biol. Sci. , vol.269 , pp. 2429-2435
    • Price, J.P.1    Clague, D.A.2
  • 31
    • 84889686918 scopus 로고    scopus 로고
    • Tracer v1.5. Available at
    • Rambaut, A., and A. J. Drummond. 2007. Tracer v1.5. Available at http://beast.bio.ed.ac.uk/Tracer.
    • (2007)
    • Rambaut, A.1    Drummond, A.J.2
  • 32
    • 34548556039 scopus 로고    scopus 로고
    • Inferring speciation times under an episodic molecular clock
    • Rannala, B., and Z. H. Yang. 2007. Inferring speciation times under an episodic molecular clock. Syst. Biol. 56, 453- 466.
    • (2007) Syst. Biol. , vol.56 , pp. 453-466
    • Rannala, B.1    Yang, Z.H.2
  • 33
    • 33747594798 scopus 로고
    • Vicariant patterns and historical explanation in biogeography
    • Rosen, D. E. 1978. Vicariant patterns and historical explanation in biogeography. Syst. Zool. 27, 159-188.
    • (1978) Syst. Zool. , vol.27 , pp. 159-188
    • Rosen, D.E.1
  • 34
    • 0028910659 scopus 로고
    • Molecular phylogeny and divergence times of Drosophilid species
    • Russo, C. A. M., N. Takezaki, and M. Nei. 1995. Molecular phylogeny and divergence times of Drosophilid species. Mol. Biol. Evol. 12, 391-404.
    • (1995) Mol. Biol. Evol. , vol.12 , pp. 391-404
    • Russo, C.A.M.1    Takezaki, N.2    Nei, M.3
  • 35
    • 72049084297 scopus 로고    scopus 로고
    • Divergence between paleomagnetic and hotspot-model-predicted polar wander for the Pacific plate with implications for hotspot fixity
    • Sager,W.W. 2007. Divergence between paleomagnetic and hotspot-model-predicted polar wander for the Pacific plate with implications for hotspot fixity. Geol. Soc. Am. 430, 335-357.
    • (2007) Geol. Soc. Am. , vol.430 , pp. 335-357
    • Sager, W.W.1
  • 36
    • 0036803223 scopus 로고    scopus 로고
    • Divergence time and evolutionary rate estimation with multilocus data
    • Thorne, J. L., and H. Kishino. 2002. Divergence time and evolutionary rate estimation with multilocus data. Syst. Biol. 51, 689-702.
    • (2002) Syst. Biol. , vol.51 , pp. 689-702
    • Thorne, J.L.1    Kishino, H.2
  • 37
    • 84889672192 scopus 로고    scopus 로고
    • W. L. Wagner, D. R. Herbst, and S. H. Sohmer, eds. Manual of the flowering plants of Hawaii. Bishop Museum Press, Honolulu, HI
    • Wagner,W. L. 1999. Introduction. 1-16 in W. L. Wagner, D. R. Herbst, and S. H. Sohmer, eds. Manual of the flowering plants of Hawaii. Bishop Museum Press, Honolulu, HI.
    • (1999) Introduction , pp. 1-16
    • Wagner, W.L.1
  • 38
    • 44349140636 scopus 로고    scopus 로고
    • R-Coffee: a method for multiple alignment of non-coding RNA
    • Wilm, A., D. G. Higgins, and C. Notredame. 2008. R-Coffee: a method for multiple alignment of non-coding RNA. Nucleic Acids Res. 36:e52.
    • (2008) Nucleic Acids Res , vol.36
    • Wilm, A.1    Higgins, D.G.2    Notredame, C.3
  • 40
    • 34547803197 scopus 로고    scopus 로고
    • PAML 4 phylogenetic analysis by maximum likelihood
    • Yang, Z. 2007. PAML 4: phylogenetic analysis by maximum likelihood. Mol. Biol. Evol. 24, 1586-1591.
    • (2007) Mol. Biol. Evol. , vol.24 , pp. 1586-1591
    • Yang, Z.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.