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Reflections on Systematics and Phylogenetic Reconstruction

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Abstract

I attempt to raise questions regarding elements of systematics—primarily in the realm of phylogenetic reconstruction—in order to provoke discussion on the current state of affairs in this discipline, and also evolutionary biology in general: e.g., conceptions of homology and homoplasy, hypothesis testing, the nature of and objections to Hennigian “phylogenetic systematics”, and the schism between (neo)Darwinian descendants of the “modern evolutionary synthesis” and their supposed antagonists, cladists and punctuationalists.

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References

  • Ast G (2005) The alternative genome. Sci Am 292(April):59–65

    Google Scholar 

  • Bateson W (1894) Materials for the study of variation, treated with especial regard to discontinuity in the origin of species. Macmillan, New York

    Google Scholar 

  • Cain AJ, Harisson GA (1960) Phyletic weighting. Proc Zool Soc Lond 131:1–31

    Google Scholar 

  • Charlesworth B, Lande R, Slatkin M (1982) A neo-Darwinian commentary on macroevolution. Evol Int J Org Evol 36:474–498. doi:10.2307/2408095

    Google Scholar 

  • Duboule D, Dollé P (1989) The structural and functional organization of the murine HOX gene family resembles that of Drosophila homeotic genes. EMBO 8:1497–1505

    Google Scholar 

  • Eldredge N, Gould SJ (1972) Punctuated equilibria: an alternative to phyletic gradualism. In: Schopf TJM (ed) Models in paleobiology. Freeman, Cooper & Co., San Francisco

    Google Scholar 

  • Fisher RA (1930) The genetical theory of natural selection. Oxford University Press, Oxford

    Google Scholar 

  • Gerhart J, Kirschner M (1997) Cells, embryos, and evolution: toward a cellular and developmental understanding of phenotypic variation and evolutionary adaptability. Blackwell, Malden

    Google Scholar 

  • Gould SJ, Eldredge N (1977) Punctuated equilibria: the tempo and mode of evolution reconsidered. Paleobiology 3:115–151

    Google Scholar 

  • Gould SJ, Vrba ES (1982) Exaptation—a missing term in science of form. Paleobiology 8:581–598

    Google Scholar 

  • Haldane JBS (1932) The causes of evolution. Harper & Brothers, New York

    Google Scholar 

  • Hennig W (1950) Grundzüge einer Theorie der Phylogenetischen Systematik. Deutscher Zentralverlag, Berlin

    Google Scholar 

  • Hennig W (1966) Phylogenetic systematics. University of Chicago Press, Chicago

    Google Scholar 

  • Huxley TH (1863) Evidence as to man’s place in nature. D. Appleton, New York

    Google Scholar 

  • Krings M, Stone A, Schmitz RW, Krainitzki H, Stoneking M, Pääbo S (1997) Neandertal DNA sequences and the origin of modern humans. Cell 90:19–30. doi:10.1016/S0092-8674(00)80310-4

    Article  Google Scholar 

  • Kuhn TS (1996) Structure of scientific revolutions, 3rd edn. University of Chicago Press, Chicago

    Google Scholar 

  • Maresca B, Schwartz JH (2006) Sudden origins: a general mechanism of evolution based on stress protein concentration and rapid environmental change. Anat Rec B New Anat 2898:38–46. doi:10.1002/ar.b.20089

    Google Scholar 

  • Mayr E (1942) Systematics and the origin of species. Columbia University Press, New York

    Google Scholar 

  • Mayr E (1965a) From molecules to organic diversity. Fed Proc 23:1231–1235

    Google Scholar 

  • Mayr E (1965b) Numerical phenetics and taxonomic theory. Syst Zool 14:73–97. doi:10.2307/2411730

    Article  Google Scholar 

  • Mayr E (1968) The role of systematics in biology. Science 159:595–599. doi:10.1126/science.159.3815.595

    Article  Google Scholar 

  • Mayr E (1969) Principles of systematic zoology. McGraw-Hill, New York

    Google Scholar 

  • Mivart SG (1871) On the genesis of species. John Murray, London

    Google Scholar 

  • Noonan JP, Coop G, Kudaravalli S, Smith D, Krause J, Alessi J, Chen F, Platt D, Pääbo S, Pritchard JK, Rubin EM (2006) Sequencing and analysis of Neanderthal genomic DNA. Science 314:1113–1118. doi:10.1126/science.1131412

    Article  Google Scholar 

  • Patterson C, Rosen DE (1977) Review of icthyodectiform and other mesozoic teleost fishes and the theory and practice of classifying fossils. Bull Am Mus Nat Hist 158:81–172

    Google Scholar 

  • Popper KR (1968) The logic of scientific discovery. Harper Torchbooks, New York

    Google Scholar 

  • Raff RA (1996) The shape of life: genes, development, and the evolution of animal form. The University of Chicago Press, Chicago

    Google Scholar 

  • Rensch B (1947) Neuere Probleme der Abstammungslehre. Die transspezifische Evolution. Ferdinand Enke Verlag, Stuttgart

    Google Scholar 

  • Schedlock AM, Okada N (2000) SINE insertions: powerful tools for molecular systematics. Bioessays 22:148–160. doi:10.1002/(SICI)1521-1878(200002)22:2<148::AID-BIES6>3.0.CO;2-Z

    Article  Google Scholar 

  • Schmitz J, Roos C, Zischler H (2005) Primate phylogeny: molecular evidence from retroposons. Comp Genomics Mol Evol 108:26–37

    Google Scholar 

  • Schwartz JH (1999) Sudden origins: fossils, genes, and the emergence of species. Wiley, New York

    Google Scholar 

  • Schwartz JH (2008) Cladistics. In: Regal B (ed) Icons of evolution. Greenwood Press, Westport CT, pp 517–544

    Google Scholar 

  • Schwartz JH (2009a) Organismal biology, molecular systematics, and phylogenetic reconstruction. In: Masters J, Gamba M, Génin F (eds) Leaping ahead: advances in prosimian biology. Springer, New York (in press)

  • Schwartz JH (2009b) Organismal innovation. In: O’Brien MJ, Shennan SJ (eds) In: Innovations in cultural systems: contributions from evolutionary anthropology MIT Press, Cambridge (in press)

  • Schwartz JH, Maresca B (2006) Do molecular clocks run at all? a critique of molecular systematics. Biol Theory 1:1–15. doi:10.1162/biot.2006.1.4.357

    Article  Google Scholar 

  • Shubin N, Tabin C, Carroll S (1997) Fossils, genes and the evolution of animal limbs. Nature 388:639–648. doi:10.1038/41710

    Article  Google Scholar 

  • Shubin N, Tabin C, Carroll SB (2009) Deep homology and the origins of evolutionary novelty. Nature 457:818–823. doi:10.1038/nature07891

    Article  Google Scholar 

  • Simpson GG (1944) Tempo and mode in evolution. Columbia University Press, New York

    Google Scholar 

  • Simpson GG (1945) The principles of classification and a classification of the mammals. Bull Am Mus Nat Hist 85:1–350

    Google Scholar 

  • Simpson GG (1949) Essay-review of recent works on evolutionary theory by Rensch, Zimmermann, and Schindewolf. Evolution 3:178–184. doi:10.2307/2405553

    Article  Google Scholar 

  • Simpson GG (1952) Review of O. Schindewolf, Grundfragen der Paleontologie and Der Zeitfaktor in Geologie und Palaontologie. Q Rev Biol 27:388–389. doi:10.1086/399136

    Article  Google Scholar 

  • Simpson GG (1961) Principles of animal taxonomy. Columbia University Press, New York

    Google Scholar 

  • Sordino P, van der Hoeven F, Duboule D (1995) Hox gene expression in teleost fins and the origin of vertebrate digits. Nature 375:678–681. doi:10.1038/375678a0

    Article  Google Scholar 

  • Stern CD, Charité J, Deschamps J, Duboule D, Durston AJ, Kmita M, Nicolas J-F, Palmeirem I, Smith JC, Wolpert L (2006) Head-tail patterning of the vertebrate embryo: one, two or many unresolved problems? Int J Dev Biol 50:3–15. doi:10.1387/ijdb.052095cs

    Article  Google Scholar 

  • Thompson DAW (1917) On growth and form. Cambridge University Press, Cambridge

    Google Scholar 

  • Waddington CH (1940) Organisers and genes. Cambridge University Press, Cambridge

    Google Scholar 

  • Wright S (1931) Evolution in Mendelian populations. Genetics 16:97–159

    Google Scholar 

Download references

Acknowledgments

I thank Francisco Vergara-Silva and Rasmus Winther for giving me the opportunity to attempt this overview, and to them and the contributors to this issue for the provocations and challenges their papers provided.

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Correspondence to Jeffrey H. Schwartz.

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Schwartz, J.H. Reflections on Systematics and Phylogenetic Reconstruction. Acta Biotheor 57, 295–305 (2009). https://doi.org/10.1007/s10441-009-9078-9

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