Cladistics (English Wikipedia)

Analysis of information sources in references of the Wikipedia article "Cladistics" in English language version.

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17doi.org

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amnh.org

Many sources give a verbal definition of 'paraphyletic' that does not require the missing groups to be monophyletic. However, when diagrams are presented representing paraphyletic groups, these invariably show the missing groups as monophyletic. See e.g.Wiley et al. 1991, p. 4 Wiley, E.O.; Siegel-Causey, D.; Brooks, D.R. & Funk, V.A. (1991), "Chapter 1 Introduction, terms and concepts", The Compleat Cladist: A Primer of Phylogenetic Procedures (PDF), The University of Kansas Museum of Natural History, ISBN 978-0-89338-035-9, archived from the original (PDF) on 3 December 2010, retrieved 13 December 2010

archive.org

Oppenheimer 2006, pp. 290–300, 340–56 Oppenheimer, Stephen (2006), The Origins of the British, London: Robinson, ISBN 978-0-7867-1890-0

arxiv.org

Fraix-Burnet et al. 2006 Fraix-Burnet, D.; Choler, P.; Douzery, E.J.P.; Verhamme, A. (2006), "Astrocladistics: A Phylogenetic Analysis of Galaxy Evolution II. Formation and Diversification of Galaxies", Journal of Classification, 23 (1): 57–78, arXiv:astro-ph/0602580, Bibcode:2006JClas..23...57F, doi:10.1007/s00357-006-0004-4, S2CID 2537194

berkeley.edu

ucmp.berkeley.edu

"Introduction to Cladistics". Ucmp.berkeley.edu. Retrieved 6 January 2014.
"The Need for Cladistics". www.ucmp.berkeley.edu. Retrieved 12 August 2018.
"Introduction to Cladistics". ucmp.berkeley.edu. Retrieved 8 May 2022.

bioon.com

Brinkman & Leipe 2001, p. 323 Brinkman, Fiona S.L. & Leipe, Detlef D. (2001), "Phylogenetic analysis" (PDF), in Baxevanis, Andreas D. & Ouellette, B.F. Francis (eds.), Bioinformatics: a practical guide to the analysis of genes and proteins (2nd ed.), pp. 323–358, archived from the original (PDF) on 20 October 2013, retrieved 19 October 2013

bnf.fr

gallica.bnf.fr

Cuénot 1940 Cuénot, Lucien (1940), "Remarques sur un essai d'arbre généalogique du règne animal", Comptes Rendus de l'Académie des Sciences de Paris, 210: 23–27. Available free online at Gallica (No direct URL). This is the paper credited by Hennig 1979 for the first use of the term 'clade'.

books.google.com

Laurin, Michel (3 August 2023). The Advent of PhyloCode: The Continuing Evolution of Biological Nomenclature. CRC Press. ISBN 978-1-000-91257-9.
Adrain, Edgecombe & Lieberman 2002, pp. 56–57 Adrain, Jonathan M.; Edgecombe, Gregory D. & Lieberman, Bruce S. (2002), Fossils, Phylogeny, and Form: An Analytical Approach, New York: Kluwer Academic, ISBN 978-0-306-46721-9, retrieved 15 August 2012
Ross, Robert M.; Allmon, Warren D. (18 December 1990). Causes of Evolution: A Paleontological Perspective. University of Chicago Press. p. 133. ISBN 978-0-226-72824-7.

canterburytalesproject.org

"Canterbury Tales Project". Archived from the original on 7 July 2009. Retrieved 4 July 2009.

doi.org

Cain & Harrison 1960 Cain, A. J.; Harrison, G. A. (1960), "Phyletic weighting", Proceedings of the Zoological Society of London, 35: 1–31, doi:10.1111/j.1469-7998.1960.tb05828.x
Dupuis 1984 Dupuis, Claude (1984), "Willi Hennig's impact on taxonomic thought", Annual Review of Ecology and Systematics, 15: 1–24, doi:10.1146/annurev.ecolsys.15.1.1, ISSN 0066-4162.
Weygoldt 1998 Weygoldt, P. (February 1998), "Evolution and systematics of the Chelicerata", Experimental and Applied Acarology, 22 (2): 63–79, doi:10.1023/A:1006037525704, S2CID 35595726
Rindal, Eirik; Brower, Andrew V. Z. (2011), "Do model-based phylogenetic analyses perform better than parsimony? A test with empirical data", Cladistics, 27 (3): 331–334, doi:10.1111/j.1096-0031.2010.00342.x, PMID 34875779, S2CID 84907350
Lyson, Tyler; Gilbert, Scott F. (March–April 2009), "Turtles all the way down: loggerheads at the root of the chelonian tree" (PDF), Evolution & Development, 11 (2): 133–135, CiteSeerX 10.1.1.695.4249, doi:10.1111/j.1525-142X.2009.00325.x, PMID 19245543, S2CID 3121166, archived (PDF) from the original on 9 October 2022
Patterson 1988 Patterson, Colin (1988), "Homology in classical and molecular biology", Molecular Biology and Evolution, 5 (6): 603–625, doi:10.1093/oxfordjournals.molbev.a040523, PMID 3065587
de Pinna 1991 de Pinna, M.G.G (1991), "Concepts and tests of homology in the cladistic paradigm" (PDF), Cladistics, 7 (4): 367–394, CiteSeerX 10.1.1.487.2259, doi:10.1111/j.1096-0031.1991.tb00045.x, S2CID 3551391, archived from the original (PDF) on 22 July 2011, retrieved 24 October 2017
Laurin & Anderson 2004 Laurin, M. & Anderson, J. (2004), "Meaning of the Name Tetrapoda in the Scientific Literature: An Exchange" (PDF), Systematic Biology, 53 (1): 68–80, doi:10.1080/10635150490264716, PMID 14965901, archived (PDF) from the original on 9 October 2022^{[dead link‍]}
Podani, János (1 August 2010). "Monophyly and paraphyly: A discourse without end?". Taxon. 59 (4): 1011–1015. doi:10.1002/tax.594002.
Krell, Frank-T; Cranston, Peter S. (2004). "Which side of the tree is more basal?: Editorial". Systematic Entomology. 29 (3): 279–281. Bibcode:2004SysEn..29..279K. doi:10.1111/j.0307-6970.2004.00262.x. S2CID 82371239.
Harrison, Richard G.; Larson, Erica L. (1 January 2014). "Hybridization, Introgression, and the Nature of Species Boundaries". Journal of Heredity. 105 (S1): 795–809. doi:10.1093/jhered/esu033. ISSN 0022-1503. PMID 25149255.
Hörandl, Elvira; Stuessy, Tod F. (2010). "Paraphyletic groups as natural units of biological classification". Taxon. 59 (6): 1641–1653. doi:10.1002/tax.596001. ISSN 0040-0262. JSTOR 41059863.
Mehta, Rohan S.; Rosenberg, Noah A. (1 October 2019). "The probability of reciprocal monophyly of gene lineages in three and four species". Theoretical Population Biology. 129: 133–147. Bibcode:2019TPBio.129..133M. doi:10.1016/j.tpb.2018.04.004. PMC 6215533. PMID 29729946.
Emamalipour, Melissa; Seidi, Khaled; Zununi Vahed, Sepideh; Jahanban-Esfahlan, Ali; Jaymand, Mehdi; Majdi, Hasan; Amoozgar, Zohreh; Chitkushev, L. T.; Javaheri, Tahereh; Jahanban-Esfahlan, Rana; Zare, Peyman (2020). "Horizontal Gene Transfer: From Evolutionary Flexibility to Disease Progression". Frontiers in Cell and Developmental Biology. 8: 229. doi:10.3389/fcell.2020.00229. ISSN 2296-634X. PMC 7248198. PMID 32509768.
Dubois, Alain (1 August 2007). "Naming taxa from cladograms: some confusions, misleading statements, and necessary clarifications". Cladistics. 23 (4): 390–402. doi:10.1111/j.1096-0031.2007.00151.x. ISSN 0748-3007. PMID 34905840. S2CID 59437223.
Maas 2010–2011 Maas, Philipp (2010–2011), Jürgen, Hanneder; Maas, Philipp (eds.), "Computer Aided Stemmatics – The Case of Fifty-Two Text Versions of Carakasasaṃhitā Vimānasthāna 8.67-157", Wiener Zeitschrift für die Kunde Südasiens, 52–53: 63–120, doi:10.1553/wzks2009-2010s63
Fraix-Burnet et al. 2006 Fraix-Burnet, D.; Choler, P.; Douzery, E.J.P.; Verhamme, A. (2006), "Astrocladistics: A Phylogenetic Analysis of Galaxy Evolution II. Formation and Diversification of Galaxies", Journal of Classification, 23 (1): 57–78, arXiv:astro-ph/0602580, Bibcode:2006JClas..23...57F, doi:10.1007/s00357-006-0004-4, S2CID 2537194

eje.cz

Nils Møller Anderson, 2001 The impact of W. Hennig’s “phylogenetic systematics” on contemporary entomology Eur. J.Entomol. 98: 133-150 online

etymonline.com

Harper, Douglas. "clade". Online Etymology Dictionary.

fsu.edu

bio.fsu.edu

James & Pourtless IV 2009, p. 25: "Synapomorphies are invoked to defend the hypothesis; the hypothesis is invoked to defend the synapomorphies." James, Frances C. & Pourtless IV, John A. (2009), Cladistics and the Origin of Birds: A Review and Two New Analyses (PDF), Ornithological Monographs, No. 66, American Ornithologists' Union, ISBN 978-0-943610-85-6, archived (PDF) from the original on 9 October 2022, retrieved 14 December 2010

ghostarchive.org

Lyson, Tyler; Gilbert, Scott F. (March–April 2009), "Turtles all the way down: loggerheads at the root of the chelonian tree" (PDF), Evolution & Development, 11 (2): 133–135, CiteSeerX 10.1.1.695.4249, doi:10.1111/j.1525-142X.2009.00325.x, PMID 19245543, S2CID 3121166, archived (PDF) from the original on 9 October 2022
Laurin & Anderson 2004 Laurin, M. & Anderson, J. (2004), "Meaning of the Name Tetrapoda in the Scientific Literature: An Exchange" (PDF), Systematic Biology, 53 (1): 68–80, doi:10.1080/10635150490264716, PMID 14965901, archived (PDF) from the original on 9 October 2022^{[dead link‍]}
James & Pourtless IV 2009, p. 25: "Synapomorphies are invoked to defend the hypothesis; the hypothesis is invoked to defend the synapomorphies." James, Frances C. & Pourtless IV, John A. (2009), Cladistics and the Origin of Birds: A Review and Two New Analyses (PDF), Ornithological Monographs, No. 66, American Ornithologists' Union, ISBN 978-0-943610-85-6, archived (PDF) from the original on 9 October 2022, retrieved 14 December 2010

harvard.edu

ui.adsabs.harvard.edu

Krell, Frank-T; Cranston, Peter S. (2004). "Which side of the tree is more basal?: Editorial". Systematic Entomology. 29 (3): 279–281. Bibcode:2004SysEn..29..279K. doi:10.1111/j.0307-6970.2004.00262.x. S2CID 82371239.
Mehta, Rohan S.; Rosenberg, Noah A. (1 October 2019). "The probability of reciprocal monophyly of gene lineages in three and four species". Theoretical Population Biology. 129: 133–147. Bibcode:2019TPBio.129..133M. doi:10.1016/j.tpb.2018.04.004. PMC 6215533. PMID 29729946.
Fraix-Burnet et al. 2006 Fraix-Burnet, D.; Choler, P.; Douzery, E.J.P.; Verhamme, A. (2006), "Astrocladistics: A Phylogenetic Analysis of Galaxy Evolution II. Formation and Diversification of Galaxies", Journal of Classification, 23 (1): 57–78, arXiv:astro-ph/0602580, Bibcode:2006JClas..23...57F, doi:10.1007/s00357-006-0004-4, S2CID 2537194

jstor.org

Hörandl, Elvira; Stuessy, Tod F. (2010). "Paraphyletic groups as natural units of biological classification". Taxon. 59 (6): 1641–1653. doi:10.1002/tax.596001. ISSN 0040-0262. JSTOR 41059863.

miketaylor.org.uk

Taylor 2003 Taylor, Mike (2003), What do terms like monophyletic, paraphyletic and polyphyletic mean?, retrieved 13 December 2010

mrfdigs.com

Lyson, Tyler; Gilbert, Scott F. (March–April 2009), "Turtles all the way down: loggerheads at the root of the chelonian tree" (PDF), Evolution & Development, 11 (2): 133–135, CiteSeerX 10.1.1.695.4249, doi:10.1111/j.1525-142X.2009.00325.x, PMID 19245543, S2CID 3121166, archived (PDF) from the original on 9 October 2022

nih.gov

pubmed.ncbi.nlm.nih.gov

Rindal, Eirik; Brower, Andrew V. Z. (2011), "Do model-based phylogenetic analyses perform better than parsimony? A test with empirical data", Cladistics, 27 (3): 331–334, doi:10.1111/j.1096-0031.2010.00342.x, PMID 34875779, S2CID 84907350
Lyson, Tyler; Gilbert, Scott F. (March–April 2009), "Turtles all the way down: loggerheads at the root of the chelonian tree" (PDF), Evolution & Development, 11 (2): 133–135, CiteSeerX 10.1.1.695.4249, doi:10.1111/j.1525-142X.2009.00325.x, PMID 19245543, S2CID 3121166, archived (PDF) from the original on 9 October 2022
Patterson 1988 Patterson, Colin (1988), "Homology in classical and molecular biology", Molecular Biology and Evolution, 5 (6): 603–625, doi:10.1093/oxfordjournals.molbev.a040523, PMID 3065587
Laurin & Anderson 2004 Laurin, M. & Anderson, J. (2004), "Meaning of the Name Tetrapoda in the Scientific Literature: An Exchange" (PDF), Systematic Biology, 53 (1): 68–80, doi:10.1080/10635150490264716, PMID 14965901, archived (PDF) from the original on 9 October 2022^{[dead link‍]}
Harrison, Richard G.; Larson, Erica L. (1 January 2014). "Hybridization, Introgression, and the Nature of Species Boundaries". Journal of Heredity. 105 (S1): 795–809. doi:10.1093/jhered/esu033. ISSN 0022-1503. PMID 25149255.
Mehta, Rohan S.; Rosenberg, Noah A. (1 October 2019). "The probability of reciprocal monophyly of gene lineages in three and four species". Theoretical Population Biology. 129: 133–147. Bibcode:2019TPBio.129..133M. doi:10.1016/j.tpb.2018.04.004. PMC 6215533. PMID 29729946.
Emamalipour, Melissa; Seidi, Khaled; Zununi Vahed, Sepideh; Jahanban-Esfahlan, Ali; Jaymand, Mehdi; Majdi, Hasan; Amoozgar, Zohreh; Chitkushev, L. T.; Javaheri, Tahereh; Jahanban-Esfahlan, Rana; Zare, Peyman (2020). "Horizontal Gene Transfer: From Evolutionary Flexibility to Disease Progression". Frontiers in Cell and Developmental Biology. 8: 229. doi:10.3389/fcell.2020.00229. ISSN 2296-634X. PMC 7248198. PMID 32509768.
Dubois, Alain (1 August 2007). "Naming taxa from cladograms: some confusions, misleading statements, and necessary clarifications". Cladistics. 23 (4): 390–402. doi:10.1111/j.1096-0031.2007.00151.x. ISSN 0748-3007. PMID 34905840. S2CID 59437223.

ncbi.nlm.nih.gov

Mehta, Rohan S.; Rosenberg, Noah A. (1 October 2019). "The probability of reciprocal monophyly of gene lineages in three and four species". Theoretical Population Biology. 129: 133–147. Bibcode:2019TPBio.129..133M. doi:10.1016/j.tpb.2018.04.004. PMC 6215533. PMID 29729946.
Emamalipour, Melissa; Seidi, Khaled; Zununi Vahed, Sepideh; Jahanban-Esfahlan, Ali; Jaymand, Mehdi; Majdi, Hasan; Amoozgar, Zohreh; Chitkushev, L. T.; Javaheri, Tahereh; Jahanban-Esfahlan, Rana; Zare, Peyman (2020). "Horizontal Gene Transfer: From Evolutionary Flexibility to Disease Progression". Frontiers in Cell and Developmental Biology. 8: 229. doi:10.3389/fcell.2020.00229. ISSN 2296-634X. PMC 7248198. PMID 32509768.

oxfordjournals.org

sysbio.oxfordjournals.org

Laurin & Anderson 2004 Laurin, M. & Anderson, J. (2004), "Meaning of the Name Tetrapoda in the Scientific Literature: An Exchange" (PDF), Systematic Biology, 53 (1): 68–80, doi:10.1080/10635150490264716, PMID 14965901, archived (PDF) from the original on 9 October 2022^{[dead link‍]}

psu.edu

citeseerx.ist.psu.edu

Lyson, Tyler; Gilbert, Scott F. (March–April 2009), "Turtles all the way down: loggerheads at the root of the chelonian tree" (PDF), Evolution & Development, 11 (2): 133–135, CiteSeerX 10.1.1.695.4249, doi:10.1111/j.1525-142X.2009.00325.x, PMID 19245543, S2CID 3121166, archived (PDF) from the original on 9 October 2022
de Pinna 1991 de Pinna, M.G.G (1991), "Concepts and tests of homology in the cladistic paradigm" (PDF), Cladistics, 7 (4): 367–394, CiteSeerX 10.1.1.487.2259, doi:10.1111/j.1096-0031.1991.tb00045.x, S2CID 3551391, archived from the original (PDF) on 22 July 2011, retrieved 24 October 2017

rjohara.net

Robinson & O'Hara 1996 Robinson, Peter M.W. & O'Hara, Robert J. (1996), "Cladistic analysis of an Old Norse manuscript tradition", Research in Humanities Computing, 4: 115–137, retrieved 13 December 2010

semanticscholar.org

api.semanticscholar.org

Weygoldt 1998 Weygoldt, P. (February 1998), "Evolution and systematics of the Chelicerata", Experimental and Applied Acarology, 22 (2): 63–79, doi:10.1023/A:1006037525704, S2CID 35595726
Rindal, Eirik; Brower, Andrew V. Z. (2011), "Do model-based phylogenetic analyses perform better than parsimony? A test with empirical data", Cladistics, 27 (3): 331–334, doi:10.1111/j.1096-0031.2010.00342.x, PMID 34875779, S2CID 84907350
Lyson, Tyler; Gilbert, Scott F. (March–April 2009), "Turtles all the way down: loggerheads at the root of the chelonian tree" (PDF), Evolution & Development, 11 (2): 133–135, CiteSeerX 10.1.1.695.4249, doi:10.1111/j.1525-142X.2009.00325.x, PMID 19245543, S2CID 3121166, archived (PDF) from the original on 9 October 2022
de Pinna 1991 de Pinna, M.G.G (1991), "Concepts and tests of homology in the cladistic paradigm" (PDF), Cladistics, 7 (4): 367–394, CiteSeerX 10.1.1.487.2259, doi:10.1111/j.1096-0031.1991.tb00045.x, S2CID 3551391, archived from the original (PDF) on 22 July 2011, retrieved 24 October 2017
Krell, Frank-T; Cranston, Peter S. (2004). "Which side of the tree is more basal?: Editorial". Systematic Entomology. 29 (3): 279–281. Bibcode:2004SysEn..29..279K. doi:10.1111/j.0307-6970.2004.00262.x. S2CID 82371239.
Dubois, Alain (1 August 2007). "Naming taxa from cladograms: some confusions, misleading statements, and necessary clarifications". Cladistics. 23 (4): 390–402. doi:10.1111/j.1096-0031.2007.00151.x. ISSN 0748-3007. PMID 34905840. S2CID 59437223.
Fraix-Burnet et al. 2006 Fraix-Burnet, D.; Choler, P.; Douzery, E.J.P.; Verhamme, A. (2006), "Astrocladistics: A Phylogenetic Analysis of Galaxy Evolution II. Formation and Diversification of Galaxies", Journal of Classification, 23 (1): 57–78, arXiv:astro-ph/0602580, Bibcode:2006JClas..23...57F, doi:10.1007/s00357-006-0004-4, S2CID 2537194

usp.br

ib.usp.br

de Pinna 1991 de Pinna, M.G.G (1991), "Concepts and tests of homology in the cladistic paradigm" (PDF), Cladistics, 7 (4): 367–394, CiteSeerX 10.1.1.487.2259, doi:10.1111/j.1096-0031.1991.tb00045.x, S2CID 3551391, archived from the original (PDF) on 22 July 2011, retrieved 24 October 2017

web.archive.org

Brinkman & Leipe 2001, p. 323 Brinkman, Fiona S.L. & Leipe, Detlef D. (2001), "Phylogenetic analysis" (PDF), in Baxevanis, Andreas D. & Ouellette, B.F. Francis (eds.), Bioinformatics: a practical guide to the analysis of genes and proteins (2nd ed.), pp. 323–358, archived from the original (PDF) on 20 October 2013, retrieved 19 October 2013
de Pinna 1991 de Pinna, M.G.G (1991), "Concepts and tests of homology in the cladistic paradigm" (PDF), Cladistics, 7 (4): 367–394, CiteSeerX 10.1.1.487.2259, doi:10.1111/j.1096-0031.1991.tb00045.x, S2CID 3551391, archived from the original (PDF) on 22 July 2011, retrieved 24 October 2017
Many sources give a verbal definition of 'paraphyletic' that does not require the missing groups to be monophyletic. However, when diagrams are presented representing paraphyletic groups, these invariably show the missing groups as monophyletic. See e.g.Wiley et al. 1991, p. 4 Wiley, E.O.; Siegel-Causey, D.; Brooks, D.R. & Funk, V.A. (1991), "Chapter 1 Introduction, terms and concepts", The Compleat Cladist: A Primer of Phylogenetic Procedures (PDF), The University of Kansas Museum of Natural History, ISBN 978-0-89338-035-9, archived from the original (PDF) on 3 December 2010, retrieved 13 December 2010
"Canterbury Tales Project". Archived from the original on 7 July 2009. Retrieved 4 July 2009.

wiley.com

onlinelibrary.wiley.com

Dubois, Alain (1 August 2007). "Naming taxa from cladograms: some confusions, misleading statements, and necessary clarifications". Cladistics. 23 (4): 390–402. doi:10.1111/j.1096-0031.2007.00151.x. ISSN 0748-3007. PMID 34905840. S2CID 59437223.

worldcat.org

search.worldcat.org

Hickman, Cleveland P. Jr. (2014). Integrated principles of zoology (Sixteenth ed.). New York: McGraw-Hill Education. ISBN 978-0-07-352421-4. OCLC 846846729.
Dupuis 1984 Dupuis, Claude (1984), "Willi Hennig's impact on taxonomic thought", Annual Review of Ecology and Systematics, 15: 1–24, doi:10.1146/annurev.ecolsys.15.1.1, ISSN 0066-4162.
Harrison, Richard G.; Larson, Erica L. (1 January 2014). "Hybridization, Introgression, and the Nature of Species Boundaries". Journal of Heredity. 105 (S1): 795–809. doi:10.1093/jhered/esu033. ISSN 0022-1503. PMID 25149255.
Hörandl, Elvira; Stuessy, Tod F. (2010). "Paraphyletic groups as natural units of biological classification". Taxon. 59 (6): 1641–1653. doi:10.1002/tax.596001. ISSN 0040-0262. JSTOR 41059863.
Emamalipour, Melissa; Seidi, Khaled; Zununi Vahed, Sepideh; Jahanban-Esfahlan, Ali; Jaymand, Mehdi; Majdi, Hasan; Amoozgar, Zohreh; Chitkushev, L. T.; Javaheri, Tahereh; Jahanban-Esfahlan, Rana; Zare, Peyman (2020). "Horizontal Gene Transfer: From Evolutionary Flexibility to Disease Progression". Frontiers in Cell and Developmental Biology. 8: 229. doi:10.3389/fcell.2020.00229. ISSN 2296-634X. PMC 7248198. PMID 32509768.
Dubois, Alain (1 August 2007). "Naming taxa from cladograms: some confusions, misleading statements, and necessary clarifications". Cladistics. 23 (4): 390–402. doi:10.1111/j.1096-0031.2007.00151.x. ISSN 0748-3007. PMID 34905840. S2CID 59437223.

worldcat.org

Hickman, Cleveland P. Jr. (2014). Integrated principles of zoology (Sixteenth ed.). New York: McGraw-Hill Education. ISBN 978-0-07-352421-4. OCLC 846846729.