TY - CHAP AU - Donkin, R. A. PY - 1998 DA - 1998// BT - Beyond price. Pearls and pearl-fishing: origins to the Age of Discoveries PB - American Philosophical Society CY - Philadelphia ID - Donkin1998 ER - TY - CHAP AU - Landman, N. H. AU - Mikkelsen, P. M. AU - Bieler, R. AU - Bronson, B. PY - 2001 DA - 2001// BT - Pearls: a natural history PB - Harry N. Abrams, Inc CY - New York ID - Landman2001 ER - TY - CHAP AU - Strack, E. PY - 2006 DA - 2006// BT - Pearls PB - Co CY - Stuttgart ID - Strack2006 ER - TY - CHAP AU - Southgate, P. C. AU - Lucas, J. S. PY - 2008 DA - 2008// BT - The pearl oyster PB - Elsevier CY - Amsterdam, Boston, Heidelberg, London, New York, Oxford, Paris, San Diego, San Francisco, Singapore, Sydney, Tokyo ID - Southgate2008 ER - TY - JOUR AU - Burch, B. L. PY - 1995 DA - 1995// TI - Pearly shells - part 5: transport by man of commercial pearl shells and their hitch-hikers JO - Hawaiian Shell News VL - 43 ID - Burch1995 ER - TY - JOUR AU - Borrero, F. J. AU - Díaz, J. M. PY - 1998 DA - 1998// TI - Introduction of the Indo-Pacific pteriid bivalve Electroma sp. to the tropical western Atlantic JO - Bull Mar Sci VL - 62 ID - Borrero1998 ER - TY - CHAP AU - O'Connor, W. A. AU - Gifford, S. P. ED - Southgate, P. C. ED - Lucas, J. S. PY - 2008 DA - 2008// TI - Environmental impacts of pearl farming BT - The pearl oyster PB - Elsevier CY - Amsterdam, Boston, Heidelberg, London, New York, Oxford, Paris, San Diego, San Francisco, Singapore, Sydney, Tokyo ID - O'Connor2008 ER - TY - CHAP AU - Wada, K. T. AU - Jerry, D. R. ED - Southgate, P. C. ED - Lucas, J. S. PY - 2008 DA - 2008// TI - Population genetics and stock improvement BT - The pearl oyster PB - Elsevier CY - Amsterdam, Boston, Heidelberg, London, New York, Oxford, Paris, San Diego, San Francisco, Singapore, Sydney, Tokyo ID - Wada2008 ER - TY - JOUR AU - Westbroek, P. AU - Marin, F. PY - 1998 DA - 1998// TI - A marriage of bone and nacre JO - Nature VL - 392 ID - Westbroek1998 ER - TY - JOUR AU - Milet, C. AU - Berland, S. AU - Lamghari, M. AU - Mouries, L. AU - Jolly, C. AU - Borzeix, S. AU - Doumenc, D. AU - Lopez, É. PY - 2004 DA - 2004// TI - Conservation of signal molecules involved in biomineralisation control in calcifying matrices of bone and shell JO - C R Palevol VL - 3 ID - Milet2004 ER - TY - JOUR AU - Gray, J. E. PY - 1847 DA - 1847// TI - List of the genera of Recent Mollusca, their synonyma and types JO - Proc Zool Soc London VL - 15 ID - Gray1847 ER - TY - CHAP AU - Newell, N. D. ED - Cox, L. R. ED - Newell, N. D. ED - Boyd, D. W. ED - Branson, C. C. ED - Casey, R. ED - Chavan, A. ED - Coogan, A. H. ED - Dechaseaux, C. ED - Fleming, C. A. ED - Haas, F. PY - 1969 DA - 1969// TI - Superfamily Pteriacea Gray, 1847 (1820) BT - Treatise on Invertebrate Paleontology Part N Mollusca 6: Bivalvia PB - Geological Society of America and University of Kansas CY - Lawrence, Kansas ID - Newell1969 ER - TY - CHAP AU - Boss, K. J. ED - Parker, S. P. PY - 1982 DA - 1982// TI - Mollusca BT - Synopsis and classification of living organisms PB - McGraw-Hill CY - New York ID - Boss1982 ER - TY - CHAP AU - Butler, A. J. ED - Beesley, P. L. ED - Ross, G. J. B. ED - Wells, A. PY - 1998 DA - 1998// TI - Order Pterioida BT - Mollusca: the southern synthesis Fauna of Australia PB - CSIRO Publishing CY - Melbourne ID - Butler1998 ER - TY - JOUR AU - Tëmkin, I. PY - 2006 DA - 2006// TI - Morphological perspective on classification and evolution of Recent Pterioidea (Mollusca: Bivalvia) JO - Zool J Linn Soc VL - 148 ID - Tëmkin2006 ER - TY - JOUR AU - Jackson, R. T. PY - 1890 DA - 1890// TI - Phylogeny of the Pelecypoda: the Aviculidae and their allies JO - Mem Boston Soc Nat Hist VL - 4 ID - Jackson1890 ER - TY - JOUR AU - Matsumoto, M. PY - 2003 DA - 2003// TI - Phylogenetic analysis of the subclass Pteriomorphia (Bivalvia) from mtDNA COI sequences JO - Mol Phylogenet Evol VL - 27 ID - Matsumoto2003 ER - TY - CHAP AU - Steiner, G. AU - Hammer, S. ED - Harper, E. M. ED - Taylor, J. D. ED - Crame, J. A. PY - 2000 DA - 2000// TI - Molecular phylogeny of the Bivalvia inferred from 18S rDNA sequences with particular reference to the Pteriomorphia BT - The evolutionary biology of the Bivalvia PB - Geological Society CY - London ID - Steiner2000 ER - TY - CHAP AU - Giribet, G. AU - Distel, D. L. ED - Lydeard, C. ED - Lindberg, D. R. PY - 2003 DA - 2003// TI - Bivalve phylogeny and molecular data BT - Molecular systematics and phylogeography of mollusks PB - Smithsonian Books CY - Washington and London ID - Giribet2003 ER - TY - JOUR AU - Pojeta, J. PY - 1978 DA - 1978// TI - The origin and early taxonomic diversification of pelecypods JO - Philos Trans R Soc, B VL - 284 ID - Pojeta1978 ER - TY - JOUR AU - Waller, T. R. PY - 1978 DA - 1978// TI - Morphology, morphoclines and a new classification of the Pteriomorphia (Mollusca: Bivalvia) JO - Philos Trans R Soc, B VL - 284 ID - Waller1978 ER - TY - CHAP AU - Waller, T. R. ED - Johnston, P. A. ED - Haggart, J. W. PY - 1998 DA - 1998// TI - Origin of the molluscan class Bivalvia and a phylogeny of major groups BT - Bivalves: an eon of evolution - paleobiological studies honoring Norman D Newell PB - University of Calgary Press CY - Calgary ID - Waller1998 ER - TY - CHAP AU - Cope, J. C. W. ED - Taylor, J. D. PY - 1996 DA - 1996// TI - The early evolution of the Bivalvia BT - Origin and evolutionary radiation of the Mollusca. Centenary Symposium of the Malacological Society of London PB - Oxford University Press CY - Oxford, New York ID - Cope1996 ER - TY - JOUR AU - Giribet, G. AU - Wheeler, W. C. PY - 2002 DA - 2002// TI - On bivalve phylogeny: a high-level analysis of the Bivalvia (Mollusca) based on combined morphology and DNA sequence data JO - Invertebr Biol VL - 121 ID - Giribet2002 ER - TY - JOUR AU - Adamkewicz, S. L. AU - Harasewych, M. G. AU - Blake, J. AU - Saudek, D. AU - Bult, C. J. PY - 1997 DA - 1997// TI - A molecular phylogeny of the bivalve mollusks JO - Mol Biol Evol VL - 14 ID - Adamkewicz1997 ER - TY - CHAP AU - Campbell, D. C. ED - Harper, E. M. ED - Taylor, J. D. ED - Crame, J. A. PY - 2000 DA - 2000// TI - Molecular evidence on the evolution of the Bivalvia BT - The evolutionary biology of the Bivalvia PB - The Geological Society CY - London ID - Campbell2000 ER - TY - CHAP AU - Matsumoto, M. PY - 2001 DA - 2001// TI - Molecular phylogenetic analysis of pteriomorph bivalves BT - Unpublished Ph.D. dissertation PB - Kanagawa University CY - Yokohama, Japan ID - Matsumoto2001 ER - TY - JOUR AU - Márquez-Aliaga, A. AU - Jiménez-Jiménez, A. P. AU - Checa, A. G. AU - Hagdorn, H. PY - 2005 DA - 2005// TI - Early oysters and their supposed Permian ancestors JO - Palaeogeogr, Palaeoclimatol, Palaeoecol VL - 229 ID - Márquez-Aliaga2005 ER - TY - JOUR AU - Hautmann, M. PY - 2006 DA - 2006// TI - Shell morphology and phylogenetic origin of oysters JO - Palaeogeogr, Palaeoclimatol, Palaeoecol VL - 240 ID - Hautmann2006 ER - TY - JOUR AU - Malchus, N. PY - 2008 DA - 2008// TI - Problems concerning early oyster evolution: a reply to Márquez-Aliaga and Hautmann JO - Palaeogeogr, Palaeoclimatol, Palaeoecol VL - 258 ID - Malchus2008 ER - TY - JOUR AU - Kirkendale, L. AU - Lee, T. AU - Baker, P. AU - Ó Foighil, D. PY - 2004 DA - 2004// TI - Oysters of the Conch Republic (Florida Keys): a molecular phylogenetic study of Parahyotissa mcgintyi, Teskeyostrea weberi and Ostrea equestris JO - Malacologia VL - 46 ID - Kirkendale2004 ER - TY - CHAP AU - Wada, K. T. AU - Tëmkin, I. ED - Southgate, P. C. ED - Lucas, J. S. PY - 2008 DA - 2008// TI - Taxonomy and phylogeny BT - The pearl oyster PB - Elsevier CY - Amsterdam, Boston, Heidelberg, London, New York, Oxford, Paris, San Diego, San Francisco, Singapore, Sydney, Tokyo ID - Wada2008 ER - TY - JOUR AU - Hillis, D. M. AU - Dixon, M. T. PY - 1991 DA - 1991// TI - Ribosomal DNA: molecular evolution and phylogenetic inference JO - Q Rev Biol VL - 66 ID - Hillis1991 ER - TY - JOUR AU - Altschul, S. F. AU - Gish, W. AU - Miller, W. AU - Myers, E. W. AU - Lipman, D. J. PY - 1990 DA - 1990// TI - Basic local alignment search tool JO - J Mol Biol VL - 215 ID - Altschul1990 ER - TY - JOUR AU - Altschul, S. F. AU - Madden, T. L. AU - Schäffer, A. A. AU - Zhang, J. AU - Zhang, Z. AU - Miller, W. AU - Lipman, D. J. PY - 1997 DA - 1997// TI - Gapped BLAST and PSI-BLAST: a new generation of protein database search programs JO - Nucleic Acids Res VL - 25 ID - Altschul1997 ER - TY - JOUR AU - Wheeler, W. PY - 2001 DA - 2001// TI - Homology and the optimization of DNA sequence data JO - Cladistics VL - 17 ID - Wheeler2001 ER - TY - CHAP AU - Wheeler, W. C. ED - Wagner, G. P. PY - 2001 DA - 2001// TI - Homology and DNA sequence data BT - The character concept in evolutionary biology PB - Academic Press CY - San Diego ID - Wheeler2001 ER - TY - CHAP AU - Varón, A. AU - Vinh, L. S. AU - Bomash, I. AU - Wheeler, W. C. PY - 2008 DA - 2008// BT - POY 4.1 PB - American Museum of Natural History CY - New York ID - Varón2008 ER - TY - JOUR AU - Morrison, D. A. PY - 2006 DA - 2006// TI - Multiple sequence alignment for phylogenetic purposes JO - Aust Syst Bot VL - 19 ID - Morrison2006 ER - TY - CHAP AU - Wheeler, W. C. AU - Aagesen, L. AU - Arango, C. P. AU - Faivovich, J. AU - Grant, T. AU - D'Haese, C. AU - Janies, D. AU - Smith, W. L. AU - Varón, A. AU - Giribet, G. PY - 2006 DA - 2006// BT - Dynamic homology and phylogenetic systematics: a unified approach using POY PB - American Museum of Natural History CY - New York ID - Wheeler2006 ER - TY - JOUR AU - Wheeler, W. C. PY - 2003 DA - 2003// TI - Implied alignment: a synapomorphy-based multiple-sequence alignment method and its use in cladogram search JO - Cladistics VL - 19 ID - Wheeler2003 ER - TY - JOUR AU - Giribet, G. PY - 2005 DA - 2005// TI - Generating implied alignments under direct optimization using POY JO - Cladistics VL - 21 ID - Giribet2005 ER - TY - JOUR AU - Larkin, M. A. AU - Blackshields, G. AU - Brown, N. P. AU - Chenna, R. AU - McGettigan, P. A. AU - McWilliam, H. AU - Valentin, F. AU - Wallace, I. M. AU - Wilm, A. AU - Lopez, R. PY - 2007 DA - 2007// TI - Clustal W and Clustal X version 2.0 JO - Bioinformatics VL - 23 ID - Larkin2007 ER - TY - JOUR AU - Winnepenninckx, B. AU - Backeljau, T. AU - De Wachter, R. PY - 1994 DA - 1994// TI - Small ribosomal subunit RNA and the phylogeny of Mollusca JO - Nautilus VL - 108 ID - Winnepenninckx1994 ER - TY - JOUR AU - Lydeard, C. AU - Holznagel, W. E. AU - Schnare, M. N. AU - Gutell, R. R. PY - 2000 DA - 2000// TI - Phylogenetic analysis of molluscan mitochondrial LSU rDNA sequences and secondary structures JO - Mol Phylogenet Evol VL - 15 ID - Lydeard2000 ER - TY - JOUR AU - Michot, B. AU - Hassouna, N. AU - Bachellerie, J. P. PY - 1984 DA - 1984// TI - Secondary structure of mouse 28S rRNA and general model for the folding of the large rRNA in eukaryotes JO - Nucleic Acids Res VL - 12 ID - Michot1984 ER - TY - JOUR AU - Michot, B. AU - Bachellerie, J. P. PY - 1987 DA - 1987// TI - Comparisons of large subunit rRNAs reveal some eukaryote-specific elements of secondary structure JO - Biochimie VL - 69 ID - Michot1987 ER - TY - JOUR AU - Gutell, R. R. AU - Fox, G. E. PY - 1988 DA - 1988// TI - A compilation of large subunit RNA sequences presented in a structural format JO - Nucleic Acids Res VL - 16 ID - Gutell1988 ER - TY - JOUR AU - Wuyts, J. AU - De Rijk, P. AU - Van de Peer, Y. AU - Winkelmans, T. AU - De Wachter, R. PY - 2001 DA - 2001// TI - The European large subunit ribosomal RNA database JO - Nucleic Acids Res VL - 29 ID - Wuyts2001 ER - TY - JOUR AU - Wuyts, J. AU - Van de Peer, Y. AU - Winkelmans, T. AU - De Wachter, R. PY - 2002 DA - 2002// TI - The European database on small subunit ribosomal RNA JO - Nucleic Acids Res VL - 30 ID - Wuyts2002 ER - TY - JOUR AU - Wells, D. AU - Brown, D. PY - 1991 DA - 1991// TI - Histone and histone gene compilation and alignment update JO - Nucleic Acids Res VL - 19 ID - Wells1991 ER - TY - JOUR AU - Xia, X. AU - Xie, Z. AU - Salemi, M. AU - Chen, L. AU - Wang, Y. PY - 2003 DA - 2003// TI - An index of substitution saturation and its application JO - Mol Phylogenet Evol VL - 26 ID - Xia2003 ER - TY - JOUR AU - Xia, X. AU - Xie, Z. PY - 2001 DA - 2001// TI - DAMBE: software package for data analysis in Mol Biol Evol JO - J Hered VL - 92 ID - Xia2001 ER - TY - CHAP AU - Maddison, D. R. AU - Maddison, W. P. PY - 2005 DA - 2005// BT - MacClade. Version 4.07 PB - Sinauer Associates CY - Sunderland, MA ID - Maddison2005 ER - TY - CHAP AU - Swofford, D. L. PY - 2002 DA - 2002// BT - PAUP*. Phylogenetic Analysis Using Parsimony (*and Other Methods). Version 4.0d105 PB - Sinauer CY - Sunderland, MA ID - Swofford2002 ER - TY - JOUR AU - Yang, Z. PY - 1993 DA - 1993// TI - Maximum-likelihood estimation of phylogeny from DNA sequences when substitution rates differ over sites JO - Mol Biol Evol VL - 10 ID - Yang1993 ER - TY - JOUR AU - Yang, Z. PY - 1994 DA - 1994// TI - Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: approximate methods JO - J Mol Evol VL - 39 ID - Yang1994 ER - TY - JOUR AU - Rzhetsky, A. AU - Nei, M. PY - 1992 DA - 1992// TI - A simple method for estimating and testing minimum-evolution trees JO - Mol Biol Evol VL - 9 ID - Rzhetsky1992 ER - TY - JOUR AU - Rzhetsky, A. AU - Nei, M. PY - 1992 DA - 1992// TI - Statistical properties of the ordinary least-squares, generalized least-squares, and minimum evolution methods of phylogenetic inference JO - J Mol Evol VL - 35 ID - Rzhetsky1992 ER - TY - JOUR AU - Lanave, C. AU - Preparata, G. AU - Saccone, C. AU - Serio, G. PY - 1984 DA - 1984// TI - A new method for calculating evolutionary substitution rates JO - J Mol Evol VL - 20 ID - Lanave1984 ER - TY - JOUR AU - Tavaré, S. PY - 1986 DA - 1986// TI - Some probabilistic and statistical problems in the analysis of DNA sequences JO - Lect Math Life Sci VL - 17 ID - Tavaré1986 ER - TY - JOUR AU - Rodriguez, F. AU - Oliver, J. F. AU - Marin, A. AU - Medina, J. R. PY - 1990 DA - 1990// TI - The general stochastic model of nucleotide substitutions JO - J Theor Biol VL - 142 ID - Rodriguez1990 ER - TY - JOUR AU - Akaike, H. PY - 1974 DA - 1974// TI - A new look at the statistical model identification JO - IEEE Trans Autom Control VL - 19 ID - Akaike1974 ER - TY - JOUR AU - Mickevich, M. F. AU - Farris, J. S. PY - 1981 DA - 1981// TI - The implications of congruence in Menidia JO - Syst Zool VL - 30 ID - Mickevich1981 ER - TY - JOUR AU - Farris, J. S. AU - Källersjö, M. AU - Kluge, A. G. AU - Bult, C. PY - 1995 DA - 1995// TI - Constructing a significance test for congruence JO - Syst Biol VL - 44 ID - Farris1995 ER - TY - JOUR AU - Farris, J. S. AU - Källersjö, M. AU - Kluge, A. G. AU - Bult, C. PY - 1995 DA - 1995// TI - Testing significance of incongruence JO - Cladistics VL - 10 ID - Farris1995 ER - TY - JOUR AU - Barker, F. K. AU - Lutzoni, F. M. PY - 2002 DA - 2002// TI - The utility of the incongruence length difference test JO - Syst Biol VL - 51 ID - Barker2002 ER - TY - JOUR AU - Darlu, P. AU - Lecointre, G. PY - 2002 DA - 2002// TI - When does the incongruence length difference test fail? JO - Mol Biol Evol VL - 19 ID - Darlu2002 ER - TY - CHAP AU - Swofford, D. L. AU - Olsen, G. J. ED - Hillis, D. M. ED - Moritz, C. PY - 1990 DA - 1990// TI - Phylogeny reconstruction BT - Molecular systematics PB - Sinauer CY - Sunderland, MA ID - Swofford1990 ER - TY - STD TI - Wheeler WC: Optimization alignment: the end of multiple sequence alignment in phylogenetics?. Cladistics. 1996, 1-9. 10.1111/j.1096-0031.1996.tb00189.x. 12 ID - ref70 ER - TY - JOUR AU - Sankoff, D. PY - 1975 DA - 1975// TI - Minimal mutation trees of sequences JO - SIAM J Appl Math VL - 28 ID - Sankoff1975 ER - TY - CHAP AU - Sankoff, D. AU - Cedergren, R. J. ED - Sankoff, D. ED - Kruskal, J. PY - 1983 DA - 1983// TI - Simultaneous comparison of three or more sequences related by a tree BT - Time warps, string edits, and macromolecules: the theory and practice of sequence comparison PB - CSLI Publications CY - Stanford, CA ID - Sankoff1983 ER - TY - JOUR AU - Hein, J. PY - 1989 DA - 1989// TI - A new method that simultaneously aligns and reconstructs ancestral sequences for any number of homologous sequences, when the phylogeny is given JO - Mol Biol Evol VL - 6 ID - Hein1989 ER - TY - JOUR AU - Hein, J. PY - 1989 DA - 1989// TI - A tree reconstruction method that is economical in the number of pairwise comparisons used JO - Mol Biol Evol VL - 6 ID - Hein1989 ER - TY - CHAP AU - Jiang, T. AU - Lawler, E. L. AU - Wang, A. PY - 1994 DA - 1994// TI - Aligning sequences via an evolutionary tree: complexity and approximation BT - Proceedings of the Twenty-Sixth Annual Symposium on Theory of Computing, STOC 94-5% 94, Montreal, Quebec, Canada: 1994 ID - Jiang1994 ER - TY - JOUR AU - Sankoff, D. AU - Rousseau, P. PY - 1975 DA - 1975// TI - Locating the vertices of a Steiner tree in arbitrary space JO - Math Program VL - 9 ID - Sankoff1975 ER - TY - JOUR AU - Schwikowski, B. AU - Vingron, M. PY - 1997 DA - 1997// TI - The deferred path heuristic for the generalized tree alignment problem JO - J Comput Biol VL - 4 ID - Schwikowski1997 ER - TY - JOUR AU - Kluge, A. G. AU - Farris, J. PY - 1969 DA - 1969// TI - Quantitative phyletics and the evolution of anurans JO - Syst Zool VL - 18 ID - Kluge1969 ER - TY - JOUR AU - Farris, J. S. PY - 1970 DA - 1970// TI - Methods for computing Wagner trees JO - Syst Zool VL - 19 ID - Farris1970 ER - TY - JOUR AU - Nixon, K. C. PY - 1999 DA - 1999// TI - The parsimony ratchet, a new method for rapid parsimony analysis JO - Cladistics VL - 15 ID - Nixon1999 ER - TY - JOUR AU - Goloboff, P. A. PY - 1999 DA - 1999// TI - Analyzing large data sets in reasonable times: solutions for composite optima JO - Cladistics VL - 15 ID - Goloboff1999 ER - TY - JOUR AU - Wheeler, W. C. PY - 2003 DA - 2003// TI - Iterative pass optimization of sequence data JO - Cladistics VL - 19 ID - Wheeler2003 ER - TY - JOUR AU - Nixon, K. C. AU - Carpenter, J. M. PY - 1993 DA - 1993// TI - On outgroups JO - Cladistics VL - 9 ID - Nixon1993 ER - TY - JOUR AU - Stamatakis, A. PY - 2006 DA - 2006// TI - RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models JO - Bioinformatics VL - 22 ID - Stamatakis2006 ER - TY - JOUR AU - Sullivan, J. AU - Abdo, Z. AU - Joyce, P. AU - Swofford, D. L. PY - 2005 DA - 2005// TI - Evaluating the performance of a successive-approximations approach to parameter optimization in maximum-likelihood phylogeny estimation JO - Mol Biol Evol VL - 22 ID - Sullivan2005 ER - TY - JOUR AU - Posada, D. AU - Crandall, K. A. PY - 1998 DA - 1998// TI - MODELTEST: testing the model of DNA substitution JO - Bioinformatics VL - 14 ID - Posada1998 ER - TY - JOUR AU - Posada, D. AU - Buckley, T. R. PY - 2004 DA - 2004// TI - Model selection and model averaging in phylogenetics: advantages of the AIC and Bayesian approaches over likelihood ratio tests JO - Syst Biol VL - 53 ID - Posada2004 ER - TY - JOUR AU - Gu, X. PY - 1995 DA - 1995// TI - Maximum likelihood estimation of the heterogeneity of substitution rate among nucleotide sites JO - Mol Biol Evol VL - 12 ID - Gu1995 ER - TY - CHAP AU - Yang, Z. PY - 2006 DA - 2006// BT - Computational molecular evolution ID - Yang2006 ER - TY - JOUR AU - Sullivan, J. AU - Holsinger, K. E. AU - Simon, C. PY - 1996 DA - 1996// TI - The effect of topology on estimates of among-site rate variation JO - J Mol Evol VL - 42 ID - Sullivan1996 ER - TY - JOUR AU - Farris, J. S. PY - 1989 DA - 1989// TI - The retention index and the rescaled consistency index JO - Cladistics VL - 5 ID - Farris1989 ER - TY - JOUR AU - Bremer, K. PY - 1988 DA - 1988// TI - The limits of amino-acid sequence data in angiosperm phylogenetic reconstruction JO - Evolution VL - 42 ID - Bremer1988 ER - TY - JOUR AU - Farris, J. S. AU - Albert, V. A. AU - Källersjö, M. AU - Lipscomb, D. AU - Kluge, A. G. PY - 1996 DA - 1996// TI - Parsimony jackknifing outperforms neighbor-joining JO - Cladistics VL - 12 ID - Farris1996 ER - TY - JOUR AU - Baker, R. H. AU - DeSalle, R. PY - 1997 DA - 1997// TI - Multiple sources of character information and the phylogeny of Hawaiian drosophilids JO - Syst Biol VL - 46 ID - Baker1997 ER - TY - CHAP AU - Sorenson, M. D. AU - Franzosa, E. A. PY - 2007 DA - 2007// BT - TreeRot, version 3 PB - Boston University CY - Boston, MA ID - Sorenson2007 ER - TY - CHAP AU - Rambaut, A. PY - 2006 DA - 2006// BT - FigTree: tree figure frawing tool version 1.1.2 PB - Institute of Evolutionary Biology, University of Edinburgh CY - Edinburgh ID - Rambaut2006 ER - TY - JOUR AU - Kishino, H. AU - Hasegawa, M. PY - 1989 DA - 1989// TI - Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in Hominoidea JO - J Mol Evol VL - 29 ID - Kishino1989 ER - TY - JOUR AU - Kishino, H. AU - Miyata, T. AU - Hasegawa, M. PY - 1990 DA - 1990// TI - Maximum likelihood inference of protein phylogeny and the origin of chloroplasts JO - J Mol Evol VL - 30 ID - Kishino1990 ER - TY - JOUR AU - Templeton, A. R. PY - 1983 DA - 1983// TI - Phylogenetic inference from restriction endonuclease cleavage site maps with particular reference to the evolution of humans and apes JO - Evolution VL - 37 ID - Templeton1983 ER - TY - CHAP AU - Templeton, A. R. ED - Weir, B. S. PY - 1983 DA - 1983// TI - Convergent evolution and nonparametric inferences from restriction data and DNA sequences BT - Statistical analysis of DNA sequence data PB - Marcel Dekker, Inc CY - New York ID - Templeton1983 ER - TY - JOUR AU - Goldman, N. AU - Anderson, J. P. AU - Rodrigo, A. G. PY - 2000 DA - 2000// TI - Likelihood-based tests of topologies in phylogenetics JO - Syst Biol VL - 49 ID - Goldman2000 ER - TY - CHAP AU - Nei, M. AU - Kumar, S. PY - 2000 DA - 2000// BT - Molecular evolution and phylogenetics PB - Oxford University Press CY - Oxford ID - Nei2000 ER - TY - JOUR AU - Wheeler, W. C. PY - 1995 DA - 1995// TI - Sequence alignment, parameter sensitivity, and the phylogenetic analysis of molecular data JO - Syst Biol VL - 44 ID - Wheeler1995 ER - TY - JOUR AU - Gotoh, O. PY - 1982 DA - 1982// TI - An improved algorithm for matching biological sequences JO - J Mol Biol VL - 162 ID - Gotoh1982 ER - TY - CHAP AU - De Laet, J. ED - Albert, V. A. PY - 2005 DA - 2005// TI - Parsimony and the problem of inapplicables in sequence data BT - Parsimony, phylogeny, and genomics ID - De Laet2005 ER - TY - JOUR AU - De Laet, J. AU - Smets, E. PY - 1998 DA - 1998// TI - On the three taxon approach to parsimony analysis JO - Cladistics VL - 14 ID - De Laet1998 ER - TY - JOUR AU - Wheeler, W. C. PY - 1999 DA - 1999// TI - Measuring topological congruence by extending character techniques JO - Cladistics VL - 15 ID - Wheeler1999 ER - TY - JOUR AU - Faith, D. P. AU - Trueman, J. W. H. PY - 2001 DA - 2001// TI - Towards an inclusive philosophy for phylogenetic inference JO - Syst Biol VL - 50 ID - Faith2001 ER - TY - JOUR AU - Takezaki, N. AU - Gojobori, T. PY - 1999 DA - 1999// TI - Correct and incorrect vertebrate phylogenies obtained by the entire mitochondrial DNA sequences JO - Mol Biol Evol VL - 16 ID - Takezaki1999 ER - TY - JOUR AU - Sullivan, D. L. PY - 1996 DA - 1996// TI - Combining data with different distributions of among-site variation JO - Syst Biol VL - 45 ID - Sullivan1996 ER - TY - JOUR AU - Cunningham, C. W. PY - 1997 DA - 1997// TI - Can three incongruence tests predict when data should be combined? JO - Mol Biol Evol VL - 14 ID - Cunningham1997 ER - TY - JOUR AU - Lockhart, P. J. AU - Steel, M. A. AU - Hendy, M. D. AU - Penny, D. PY - 1994 DA - 1994// TI - Recovering evolutionary trees under a more realistic model of sequence evolution JO - Mol Biol Evol VL - 11 ID - Lockhart1994 ER - TY - JOUR AU - Galtier, N. AU - Gouy, M. PY - 1995 DA - 1995// TI - Inferring phylogenies from DNA sequences of unequal base compositions JO - Proc Natl Acad Sci USA VL - 92 ID - Galtier1995 ER - TY - JOUR AU - Yang, Z. PY - 1998 DA - 1998// TI - On the best evolutionary rate for phylogenetic analysis JO - Syst Biol VL - 47 ID - Yang1998 ER - TY - JOUR AU - Björklund, M. PY - 1999 DA - 1999// TI - Are third positions really that bad? A test using vertebrate cytochrome b JO - Cladistics VL - 15 ID - Björklund1999 ER - TY - JOUR AU - Källersjö, M. AU - Albert, V. A. AU - Farris, J. S. PY - 1999 DA - 1999// TI - Homoplasy increases phylogenetic structure JO - Cladistics VL - 15 ID - Källersjö1999 ER - TY - JOUR AU - Wenzel, J. W. AU - Siddall, M. E. PY - 1999 DA - 1999// TI - Noise JO - Cladistics VL - 15 ID - Wenzel1999 ER - TY - JOUR AU - Philippe, H. AU - Lecointre, G. AU - Lê, H. L. V. AU - Guyader, H. L. PY - 1996 DA - 1996// TI - A critical study of homoplasy in molecular data with the use of a morphologically based cladogram, and its consequences for character weighting JO - Mol Biol Evol VL - 13 ID - Philippe1996 ER - TY - JOUR AU - Navidi, W. C. AU - Churchill, G. A. AU - Haeseler, A. v. PY - 1991 DA - 1991// TI - Methods for inferring phylogenies from nucleotide acid sequence data by using maximum likelihood and linear invariants JO - Mol Biol Evol VL - 8 ID - Navidi1991 ER - TY - JOUR AU - Yang, Z. PY - 1996 DA - 1996// TI - Phylogenetic analysis using parsimony and likelihood methods JO - J Mol Evol VL - 42 ID - Yang1996 ER - TY - JOUR AU - Kuhner, M. K. AU - Felsenstein, J. PY - 1994 DA - 1994// TI - A simulation comparison of phylogeny algorithms under equaland unequal evolutionary rates JO - Mol Biol Evol VL - 11 ID - Kuhner1994 ER - TY - JOUR AU - Felsenstein, J. PY - 1978 DA - 1978// TI - Cases in which parsimony or compatibility methods will be positively misleading JO - Syst Zool VL - 27 ID - Felsenstein1978 ER - TY - JOUR AU - Hendy, M. D. AU - Penny, D. PY - 1989 DA - 1989// TI - A framework for the quantitative study of evolutionary trees JO - Syst Zool VL - 38 ID - Hendy1989 ER - TY - JOUR AU - Hillis, D. M. PY - 1996 DA - 1996// TI - Inferring complex phylogenies JO - Nature VL - 383 ID - Hillis1996 ER - TY - JOUR AU - Anderson, F. E. AU - Swofford, D. L. PY - 2004 DA - 2004// TI - Should we be worried about long-branch attraction in real data sets? Investigations using metazoan 18S rDNA JO - Mol Phylogenet Evol VL - 33 ID - Anderson2004 ER - TY - JOUR AU - Zouros, E. AU - Ball, A. O. AU - Saavedra, C. AU - Freeman, K. R. PY - 1994 DA - 1994// TI - Mitochondrial DNA inheritance JO - Nature VL - 368 ID - Zouros1994 ER - TY - JOUR AU - Theologidis, I. AU - Fodelianakis, S. AU - Gaspar, M. B. AU - Zouros, E. PY - 2008 DA - 2008// TI - Doubly uniparental inheritance (DUI) of mitochondrial DNA in Donax trunculus (Bivalvia: Donacidae) and the problem of its sporadic detection in Bivalvia JO - Evolution VL - 62 ID - Theologidis2008 ER - TY - CHAP AU - Saucedo, P. E. AU - Southgate, P. C. ED - Southgate, P. C. ED - Lucas, J. S. PY - 2008 DA - 2008// TI - Reproduction, development and growth BT - The pearl oyster PB - Elsevier CY - Amsterdam, Boston, Heidelberg, London, New York, Oxford, Paris, San Diego, San Francisco, Singapore, Sydney, Tokyo ID - Saucedo2008 ER - TY - JOUR AU - Nixon, K. C. AU - Carpenter, J. M. PY - 1996 DA - 1996// TI - On simultaneous analysis JO - Cladistics VL - 12 ID - Nixon1996 ER - TY - JOUR AU - Gatesy, J. AU - O'Grady, P. AU - Baker, R. H. PY - 1999 DA - 1999// TI - Corroboration among data sets in simultaneous analysis: hidden support for phylogenetic relationships among higher level artiodactyl taxa JO - Cladistics VL - 15 ID - Gatesy1999 ER - TY - JOUR AU - Cummings, M. P. AU - Otto, S. P. AU - Wakeley, J. PY - 1995 DA - 1995// TI - Sampling properties of DNA sequence data in phylogenetic analysis JO - Mol Biol Evol VL - 12 ID - Cummings1995 ER - TY - JOUR AU - Bull, J. J. AU - Huelsenbeck, J. P. AU - Cunningham, C. W. AU - Swofford, D. L. AU - Waddell, P. J. PY - 1993 DA - 1993// TI - Partitioning and combining data in phylogenetic analysis JO - Syst Biol VL - 42 ID - Bull1993 ER - TY - JOUR AU - Yonge, C. M. PY - 1968 DA - 1968// TI - Form and habit in species of Malleus (including the "hammer oysters") with comparative observations on Isognomon isognomon JO - Biol Bull VL - 135 ID - Yonge1968 ER - TY - JOUR AU - Stanley, S. M. PY - 1972 DA - 1972// TI - Functional morphology and evolution of byssally attached bivalve mollusks JO - J Paleontol VL - 46 ID - Stanley1972 ER - TY - CHAP AU - Seilacher, A. ED - Bonner, J. T. PY - 1982 DA - 1982// TI - Constraint and innovation in bivalve mollusc evolution BT - Evolution and development Report of the Dahlem Workshop on Evolution and Development, Berlin 1981, Ma9 10-15 PB - Springer CY - Berlin ID - Seilacher1982 ER - TY - JOUR AU - Atkins, D. PY - 1937 DA - 1937// TI - On the ciliary mechanisms and interrelationships of lamellibranchs. Part 3. Types of lamellibranch gills and their food currents JO - Q J Microsc Sci VL - 79 ID - Atkins1937 ER - TY - JOUR AU - Palmer, T. J. PY - 1984 DA - 1984// TI - Revision of the bivalve family Pulvinitidae Stephenson, 1941 JO - Palaeontology VL - 27 ID - Palmer1984 ER - TY - JOUR AU - Newell, N. D. AU - Boyd, D. W. PY - 1978 DA - 1978// TI - A palaeontologist's view of bivalve phylogeny JO - Philos Trans R Soc, B VL - 284 ID - Newell1978 ER - TY - JOUR AU - Seilacher, A. PY - 1984 DA - 1984// TI - Constructional morphology of bivalves: evolutionary pathways in primary versus secondary soft-bottom dwellers JO - Palaeontology VL - 27 ID - Seilacher1984 ER - TY - CHAP AU - Seilacher, A. ED - Briggs, D. E. G. PY - 2005 DA - 2005// TI - Secondary soft-bottom dwellers: convergent responses to an evolutionary "mistake" BT - Evolving form and function: fossils and development; proceedings of a symposium honoring Adolf Seilacher for his contribution to paleontology, in celebration of his 80th birthday; 2005 Apr 1-2; New Haven PB - Peabody Museum of Natural History, Yale University CY - New Haven ID - Seilacher2005 ER - TY - JOUR AU - Stanley, S. M. PY - 1975 DA - 1975// TI - Adaptive themes in the evolution of the Bivalvia (Mollusca) JO - Annu Rev Earth Planet Sci VL - 3 ID - Stanley1975 ER - TY - CHAP AU - Skelton, P. W. AU - Benton, M. J. ED - Benton, M. J. PY - 1993 DA - 1993// TI - Mollusca: Rostroconchia, Scaphopoda and Bivalvia BT - The fossil record 2 PB - Hall CY - London ID - Skelton1993 ER - TY - JOUR AU - Yonge, C. M. PY - 1957 DA - 1957// TI - Mantle fusion in the Lamellibranchia JO - Pubbl Stn Zool Napoli VL - 29 ID - Yonge1957 ER - TY - CHAP AU - Cox, L. R. ED - Cox, L. R. ED - Newell, N. D. ED - Boyd, D. W. ED - Branson, C. C. ED - Casey, R. ED - Chavan, A. ED - Coogan, A. H. ED - Dechaseaux, C. ED - Fleming, C. A. ED - Haas, F. PY - 1969 DA - 1969// TI - General features of Bivalvia BT - Part N Mollusca 6: Bivalvia PB - Geological Society of America and University of Kansas CY - Lawrence, Kansas ID - Cox1969 ER - TY - STD TI - Taylor JD, Kennedy WJ, Hall A: The shell structure and mineralogy of the Bivalvia. Introduction. Nuculacea-Trigonacea. Bull Br Mus (Nat Hist), Zool. 1969, 1-125. Suppl 3 ID - ref145 ER - TY - STD TI - Morton B: Mantle and body cavities. Mollusca: the southern synthesis Fauna of Australia. Edited by: Beesley PL, Ross GJB, Wells A. 1998, Melbourne: CSIRO Publishing, 5 (Part A): 203-204. ID - ref146 ER - TY - CHAP AU - Reid, R. G. B. AU - Porteous, S. ED - Morton, B. PY - 1980 DA - 1980// TI - Aspects of the functional morphology and digestive physiology of Vulsella vulsella (Linné) and Crenatula modiolaris (Lamarck), bivalves associated with sponges BT - The malacofauna of Hong Kong and Southern China Proceedings of the First International Workshop 23 March - 8 April 1977, Hong Kong PB - Hong Kong University Press CY - Hong Kong ID - Reid1980 ER - TY - CHAP AU - Morton, B. PY - 1988 DA - 1988// BT - Partnerships in the sea: Hong Kong's marine symbioses PB - Hong Kong University Press CY - Hong Kong ID - Morton1988 ER - TY - JOUR AU - Haszprunar, G. PY - 1983 DA - 1983// TI - Comparative analysis of the abdominal sense organs of Pteriomorpha (Bivalvia) JO - J Molluscan Stud, Suppl VL - 12 ID - Haszprunar1983 ER - TY - JOUR AU - Haszprunar, G. PY - 1985 DA - 1985// TI - The fine structure of the abdominal sense organs of Pteriomorpha (Mollusca, Bivalvia) JO - J Molluscan Stud VL - 51 ID - Haszprunar1985 ER - TY - JOUR AU - Yu, D. H. AU - Chu, K. H. PY - 2006 DA - 2006// TI - Species identity and phylogenetic relationship of the pearl oysters in Pinctada Röding, 1798 based on ITS sequence analysis JO - Biochem Syst Ecol VL - 34 ID - Yu2006 ER - TY - JOUR AU - Yu, D. H. AU - Chu, K. H. PY - 2006 DA - 2006// TI - Genetic variation in wild and cultured populations of the pearl oyster Pinctada fucata from southern China JO - Aquaculture VL - 258 ID - Yu2006 ER - TY - JOUR AU - Beaurnent, A. R. AU - Khamdan, S. A. A. PY - 1994 DA - 1994// TI - Electrophoretic and morphometric characters in population differetiation of the pearl oyster, Pinctada radiata (Leach), from around Bahrain JO - J Molluscan Stud VL - 57 ID - Beaurnent1994 ER - TY - JOUR AU - Colgan, D. J. AU - Ponder, W. F. PY - 2002 DA - 2002// TI - Genetic discrimination of morphologically similar, sympatric species of pearl oysters (Mollusca: Bivalvia: Pinctada) in eastern Australia JO - Mar Freshwater Res VL - 53 ID - Colgan2002 ER - TY - JOUR AU - Atsumi, T. AU - Komaru, A. AU - Okamoto, C. PY - 2004 DA - 2004// TI - Genetic relationship among the Japanese pearl oyster Pinctada fucata martensii and foreign pearl oysters JO - Fish Genet Breed Sci VL - 33 ID - Atsumi2004 ER - TY - JOUR AU - Wada, K. PY - 1978 DA - 1978// TI - Chromosome karyotypes of three bivalves: the oysters, Isognomon alatus and Pinctada imbricata, and the bay scallop, Argopecten irradians irradians JO - Biol Bull VL - 155 ID - Wada1978 ER - TY - JOUR AU - Komaru, A. AU - Wada, K. T. PY - 1985 DA - 1985// TI - Karyotype of the Japanese pearl oyster, Pinctada fucata martensi, observed in the trochophore larvae JO - Yoshoku Kenkyusho Kenkyu Hokoku (Bull Natl Res Inst Aquacult) VL - 7 ID - Komaru1985 ER - TY - JOUR AU - Wada, K. T. AU - Komaru, A. PY - 1985 DA - 1985// TI - Karyotypes in five species of the Pteriidae (Bivalvia: Pteriomorphia) JO - Venus VL - 44 ID - Wada1985 ER - TY - JOUR AU - Masaoka, T. AU - Kobayashi, T. PY - 2002 DA - 2002// TI - Phylogenetic relationships in pearl oysters (Genus: Pinctada) based on nuclear rRNA sequences JO - DNA Polymorphism VL - 10 ID - Masaoka2002 ER - TY - JOUR AU - Masaoka, T. AU - Kobayashi, T. PY - 2003 DA - 2003// TI - Estimation of phylogenetic relationships in pearl oysters (Genus: Pinctada) based on 28SrRNA and ITS sequence JO - DNA Polymorphism VL - 11 ID - Masaoka2003 ER - TY - JOUR AU - Masaoka, T. AU - Kobayashi, T. PY - 2005 DA - 2005// TI - Estimation of phylogenetic relationships in pearl oysters (Mollusks: Bivalvia: Pinctada) used for pearl production based on rRNA genes sequence JO - DNA Polymorphism VL - 13 ID - Masaoka2005 ER - TY - JOUR AU - Giribet, G. AU - Carranza, S. AU - Baguna, J. AU - Riutort, M. AU - Ribera, C. PY - 1996 DA - 1996// TI - First molecular evidence for the existence of a Tardigrada + Arthropoda clade JO - Mol Biol Evol VL - 13 ID - Giribet1996 ER - TY - JOUR AU - Park, J. K. AU - Foighil, D. O. PY - 2000 DA - 2000// TI - Sphaeriid and corbiculid clams represent separate heterodont bivalve radiations into freshwater environments JO - Mol Phylogenet Evol VL - 14 ID - Park2000 ER - TY - CHAP AU - Kessing, B. AU - Croom, H. AU - Martin, A. AU - McIntosh, C. AU - Owen Mcmillan, W. AU - Palumbi, S. PY - 1989 DA - 1989// BT - The simple fool's guide to PCR PB - University of Hawaii CY - Honolulu, Hawaii ID - Kessing1989 ER - TY - JOUR AU - Colgan, D. J. AU - McLauchlan, A. AU - Wilson, G. D. F. AU - Livingston, S. P. AU - Edgecombe, G. D. AU - Macaranas, J. AU - Cassis, G. AU - Gray, M. R. PY - 1998 DA - 1998// TI - Histone H3 and U2 snRNA DNA sequences and arthropod molecular evolution JO - Aust J Zool VL - 46 ID - Colgan1998 ER -