@inbook {7841,
	title = {Morphological disparity: a primer},
	booktitle = {Fossils, phylogeny, and form: an analytical approach},
	series = {Topics in Geobiology},
	volume = {19},
	year = {2001},
	pages = {55-144},
	publisher = {Kluwer Academic / Plenum Publishers},
	organization = {Kluwer Academic / Plenum Publishers},
	address = {New York},
	keywords = {evolution, morphology, paleontology, phylogenetics},
	author = {Wills, Matthew A.},
	editor = {Adrian, Jonathan M. and Edgecomb, Gregory D. and Lieberman, Bruce S.}
}
@article {7770,
	title = {Exhaustion of morphologic character states among fossil taxa},
	journal = {Evolution},
	volume = {54},
	number = {2},
	year = {2000},
	pages = {365-386},
	keywords = {constraints, evolution, paleontology, phylogenetics, phylogeny},
	author = {Wagner, Peter J.}
}
@article {7550,
	title = {Is convergence surprising? An examination of the frequency of convergence in simulated datasets},
	journal = {Journal of Theoretical Biology},
	volume = {252},
	year = {2008},
	note = {PDF},
	pages = {1-14},
	keywords = {convergence, evolution, homoplasy, phylogenetics, simulation},
	author = {Stayton, C. Tristan}
}
@article {7500,
	title = {Polyphyly of the mail-cheeked fishes (Teleostei : Scorpaeniformes): evidence from mitochondrial and nuclear sequence data},
	journal = {Molecular Phylogenetics and Evolution},
	volume = {32},
	number = {2},
	year = {2004},
	note = {PDFTimes Cited: 8ReviewEnglishCited References Count: 118838ry},
	month = {AUG},
	pages = {627-646},
	abstract = {Mitochondrial and nuclear DNA sequence data for 105 acanthomorph taxa are analyzed to address questions of scorpaeniform monophyly and relationships. The combination of 3425 aligned base pairs from the mitochondrial small subunit rDNA (12S), large subunit rDNA (16S), and tRNA-Val and the nuclear large subunit rDNA (28S), histone H3, and TMO-4c4 loci are analyzed. Representatives of all scorpaeniform suborders and 32 of 36 scorpaeniform families are included with most suborders represented by multiple species. In addition to 69 scorpaeniform taxa, 36 outgroup taxa, including representatives of most families previously conjectured to be related to the Scorpaeniformes, are analyzed due to serious concerns of scorpaeniform monophyly. The traditionally recognized scorpaeniform fishes are recovered as polyphyletic, The 13 representatives of the Atheriniformes, Blennioidei, Gasterosteoidei, Grammatidae, Notothenioidei, Percidae, Trichodontidae, and Zoarcoidei included in the analysis are all nested within the least inclusive clade that includes all traditionally recognized scorpaeniforms. The scorpaenoid lineage is widely polyphyletic, and its intrarelationships differed significantly from previous hypotheses. The cottoid lineage is paraphyletic with only the presence of the Trichodontidae, as the sister-taxon of the Cottoidei, disrupting the traditional subordinal hypothesis of relationships. (C) 2004 Elsevier Inc. All rights reserved.},
	keywords = {direct optimization, evolution, mtDNA, nuDNA, phylogenetics, poy, taxonomy},
	url = {<u><Go to ISI>://000222732000016</u>},
	author = {Smith, W. L. and Wheeler, W. C.}
}
@book {7481,
	title = {Systematics and the fossil record: documenting evolutionary patterns},
	year = {1994},
	pages = {223},
	publisher = {Blackwell Science},
	organization = {Blackwell Science},
	keywords = {evolution, paleontology, phylogenetics, stratigraphy},
	author = {Smith, Andrew B.}
}
@article {7485,
	title = {The influence of taxonomic method on the perception of patterns of evolution},
	year = {Submitted},
	note = {xerox},
	pages = {127-216},
	keywords = {evolution, extinction, phylogenetics},
	author = {Smith, Andrew B. and Patterson, Colin}
}
@inbook {7440,
	title = {Self-organizing mechanisms in morphogenesis and evolution},
	booktitle = {Constructional morphology and evolution},
	year = {1991},
	pages = {251-271},
	publisher = {Springer-Verlag},
	organization = {Springer-Verlag},
	address = {Berlin and Heidelberg},
	keywords = {bakevelliidae, bivalvia, constructional morphology, echinodermata, ecology, evolution, malleidae, mollusca, morphogenesis, phylogenetics, pteriidae, pterioidea, shell morphology, symbiosis},
	author = {Seilacher, Adolf},
	editor = {Schmidt-Kittler, N. and Vogel, K.}
}
@article {7242,
	title = {Phylogenetic interrelationships among families of bivalve molluscs},
	journal = {Malacologia},
	volume = {9},
	number = {1},
	year = {1969},
	note = {Fig. 1-2PDF},
	pages = {163-171},
	keywords = {bivalvia, evolution, mollusca, phylogenetics, phylogeny},
	author = {Purchon, R. D. and Brown, D.}
}
@article {7219,
	title = {Is convergence more than an analogy? Homoplasy and its implications for macroevolutionary predictability},
	journal = {Biology and Philosophy},
	volume = {22},
	year = {2007},
	note = {PDF},
	pages = {565-578},
	keywords = {constraints, convergence, evolution, homoplasy, macroevolution, parallelism, philosophy, phylogenetics},
	author = {Powell, Russell}
}
@article {7158,
	title = {K problemeaksiomaticheskogo obosnovaniya evolyutsionnoj kladistiki},
	journal = {Zhurnal Obschej Biologii},
	volume = {59},
	number = {6},
	year = {1998},
	note = {xeroxI. Ja. Pavlinov, On the problem of axiomatic foundation of evolutionary cladistics [abstract in English, p.605]},
	pages = {586-605},
	keywords = {cladistics, evolution, phylogenetics},
	author = {Pavlinov, I. Ya.}
}
@article {7136,
	title = {Inferring evolutionary processes from phylogenies},
	journal = {Zoologica Scripta},
	volume = {26},
	year = {1997},
	note = {PDF},
	pages = {331{\textendash}348},
	keywords = {comparative method, diversification rates, evolution, maximum likelihood, phylogenetics},
	author = {Pagel, Mark}
}
@article {7138,
	title = {Inferring the historical patterns of biological evolution},
	journal = {Nature},
	volume = {401},
	year = {1999},
	note = {xerox},
	pages = {877-884},
	keywords = {comparative method, evolution, molecular characters, phylogenetics},
	author = {Pagel, Mark}
}
@book {7027,
	title = {Molecular evolution and phylogenetics},
	year = {2000},
	note = {DO NOT HAVE},
	pages = {333},
	publisher = {Oxford University Press},
	organization = {Oxford University Press},
	address = {Oxford},
	keywords = {evolution, molecular characters, phylogenetics},
	author = {Nei, M. and Kumar, Sadhir}
}
@article {6804,
	title = {Phylogenetic comparative methods and the geography of speciation},
	journal = {Trends in Ecology and Evolution},
	volume = {18},
	number = {5},
	year = {2003},
	note = {PDF},
	pages = {220-227},
	keywords = {allopatry, biogeography, evolution, phylogenetics, speciation, sympatry},
	author = {Losos, Jonathan B. and Glor, Richard E.}
}
@article {6805,
	title = {Adaptation and diversification on islands},
	journal = {Nature},
	volume = {457},
	year = {2009},
	note = {PDF},
	pages = {830-836},
	keywords = {biogeography, diversification, evolution, islands, phylogenetics, radiation, speciation},
	author = {Losos, Jonathan B. and Ricklefs, Robert E.}
}
@inbook {6658,
	title = {The neutral theory as a basis for understanding the mechanism of evolution and variation at the molecular level},
	booktitle = {Molecular evolution, protein polymorphism and the neutral theory},
	year = {1982},
	pages = {3-56},
	publisher = {Springer},
	organization = {Springer},
	address = {Berlin},
	keywords = {evolution, molecular evolution, molecules, phylogenetics},
	author = {Kimura, M.},
	editor = {Kimura, M.}
}
@article {6581,
	title = {How phylogenetic inference can shape our view of heterochrony: examples from thecideide brachiopods},
	journal = {Paleobiology},
	volume = {27},
	number = {2},
	year = {2001},
	note = {PDF},
	pages = {205{\textendash}225},
	keywords = {evolution, heterochrony, paleontology, phylogenetics, phylogeny},
	author = {Jaecks, Glenn S. and Carlson, Sandra J.}
}
@article {6587,
	title = {Development, evolution, and corroboration},
	journal = {The Anatomical Record (New Anat.)},
	volume = {257},
	year = {1999},
	note = {xerox},
	pages = {6-14},
	keywords = {development, evodevo, evolution, ontogeny, phylogenetics},
	author = {Janies, Daniel and DeSalle, Rob}
}
@book {6395,
	title = {Fundamentals of molecular evolution},
	year = {2000},
	note = {DO NOT HAVE},
	pages = {xiv+481},
	publisher = {Sinauer},
	organization = {Sinauer},
	edition = {2},
	address = {Sunderland, Mass},
	keywords = {evolution, molecular characters, phylogenetics},
	author = {Graur, Dan and Li, Wen-Hsiung}
}
@article {6396,
	title = {Reading the entrails of chickens: molecular timescales of evolution and the illusion of precision},
	journal = {Trends in Genetics},
	volume = {20},
	number = {2},
	year = {2004},
	month = {February},
	pages = {80-86},
	keywords = {evolution, molecular clock, phylogenetics},
	author = {Graur, Dan and Martin, William}
}
@article {6393,
	title = {The role of fossils in phylogeny reconstruction: why is it so difficult to integrate paleobiological and neontological evolutionary biology?},
	journal = {Biology and Philosophy},
	volume = {19},
	year = {2004},
	note = {PDF},
	pages = {687-720},
	keywords = {cladistics, evolution, fossil record, neontology, paleontology, philosophy, phylogenetics, stratigraphy},
	author = {Grantham, Todd A.}
}
@book {6227,
	title = {Phylogenetic patterns and the evolutionary process: method and theory in comparative biology},
	year = {1980},
	pages = {349},
	publisher = {Columbia University Press},
	organization = {Columbia University Press},
	address = {New York},
	keywords = {evolution, evolutionary theory, fossils, paleontology, phylogenetics, phylogeny, speciation, species concepts},
	isbn = {0-231-03802-X},
	author = {Eldredge, Niles and Cracraft, Joel}
}
@article {6218,
	title = {Reconstruction of evolutionary trees},
	journal = {Systematics Association Publication},
	volume = {6},
	year = {1964},
	note = {PDF},
	pages = {67-76},
	keywords = {evolution, ML, phylogenetics, taxonomy},
	author = {Edwards, A. W. F. and Cavalli-Sforza, L. L.}
}
@book {6078,
	title = {Phylogenetic analysis and paleontology. Proceedings of a symposium entitled "Phylogenetic Models," convened at the North American Paleontological Convention 2, Lawrence, Kansas, August 8, 1977},
	year = {1979},
	pages = {233},
	publisher = {Columbia University Press},
	organization = {Columbia University Press},
	address = {New York},
	keywords = {evolution, paleontology, phylogenetics, phylogeny, stratigraphy, stratophenetics},
	author = {Cracraft, Joel and Eldredge, Niles}
}
@article {5743,
	title = {Role of constraint and selection in the morphologic evolution of <i>Caryocorbula</i> (Mollusca: Corbulidae) from the Caribbean Neogene},
	journal = {Palaeontologia Electronica},
	volume = {8},
	number = {2},
	year = {2005},
	note = {PDF},
	pages = {32A:1-18},
	keywords = {bivalvia, constraints, evolution, mollusca, morphometrics, ontogeny, phylogenetics},
	author = {Anderson, Laurie C. and Roopnarine, Peter D.}
}
@article {5697,
	title = {Direct optimization, affine gap costs, and node stability},
	journal = {Molecular Phylogenetics and Evolution},
	volume = {36},
	number = {3},
	year = {2005},
	note = {PDFTimes Cited: 0ArticleEnglishCited References Count: 57960lh},
	month = {SEP},
	pages = {641-653},
	abstract = {The outcome of a phylogenetic analysis based on DNA sequence data is highly dependent on the homology-assignment step and may vary with alignment parameter costs. Robustness to changes in parameter costs is therefore a desired quality of a data set because the final conclusions will be less dependent on selecting a precise optimal cost set. Here, node stability is explored in relationship to separate versus combined analysis in three different data sets, all including several data partitions. Robustness to changes in cost sets is measured as number of successive changes that can be made in a given cost set before a specific clade is lost. The changes are in all cases base change cost, gap penalties, and adding/removing/changing affine gap costs. When combining data partitions, the number of clades that appear in the entire parameter space is not remarkably increased, in some cases this number even decreased. However, when combining data partitions the trees from cost sets including affine gap costs were always more similar than the trees were from cost sets without affine gap costs. This was not the case when the data partitions were analyzed independently. When data sets were combined similar to 80\% of the clades found under cost sets including affine gap costs resisted at least one change to the cost set. (c) 2005 Elsevier Inc. All rights reserved.},
	keywords = {direct optimization, dna, evolution, gap, morphology, phylogenetics, poy, sensitivity, stability},
	url = {<u><Go to ISI>://000231591500017</u>},
	author = {Aagesen, Lone}
}
