PROBLEMS DUE TO MISSING DATA IN PHYLOGENETIC ANALYSES INCLUDING FOSSILS: A CRITICAL REVIEW

By M. Kearney, James M. Clark. 2003

175 citations recorded by the source corpus.

Subfields: Molecular Biology, Paleontology

View Paper: https://www.semanticscholar.org/paper/435f412a121a3217aa5ccc54d72eacd4e5bd7bdc

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Molecular Biology

1. J. Conrad
2. D. Norman
3. Martin Sander
4. R. Butler
5. Jonathan Coddington
6. José Luis Carballido
7. Rosie N. Barnes
8. M. Kearney

In Paleontology

1. Paul Upchurch
2. R. Butler
3. José Luis Carballido
4. P. Mannion
5. D. Ksepka
6. O. Mateus
7. D. Norman
8. Martin Sander

Citations in the corpus

• Phylogeny of extant nephilid orb‐weaving spiders (Araneae, Nephilidae): testing morphological and ethological homologies (2008, background): “Missing data usually decrease resolution and increase the number of primary trees (Kearney, 2002; Kearney and Clark, 2003); this is true in the behavioral matrix but not in the complete matrix, where the abundance of morphological characters structures the tree, yet is, in places, still indecisive.”
• Postcranial axial skeleton of Europasaurus holgeri (Dinosauria, Sauropoda) from the Upper Jurassic of Germany: implications for sauropod ontogeny and phylogenetic relationships of basal Macronaria (2014, background): “As was noted by Kearney & Clark (2003), the exclusion of unstable taxa from a phylogenetic analysis will certainly result in a more ‘robust’ tree (with higher support values).”
• Osteology of the Late Jurassic Portuguese sauropod dinosaur Lusotitan atalaiensis (Macronaria) and the evolutionary history of basal titanosauriforms (2013, background): “…completeness is problematic as they might preserve important data and unique character combinations that could have a significant impact on our results (see also discussion on incorporation of incomplete specimens in Kearney & Clark, 2003; Carrano, Benson & Sampson, 2012; and Wiens & Tiu, 2012).”
• The phylogeny of the ornithischian dinosaurs (2008, background): “…length of zero were collapsed during searches (the ‘-amb’ option); this setting recovers only ‘strictly supported’ trees (Nixon & Carpenter 1996; Kearney & Clark 2003), but can result in trees that are not of minimum length and cannot be considered as most parsimonious trees (MPTs);…”
• SYSTEMATICS OF THE AMPHISBAENIA (LEPIDOSAURIA:SQUAMATA) BASED ON MORPHOLOGICAL EVIDENCE FROM RECENT AND FOSSIL FORMS (2003, background): “…and Nixon, 1989a, b; Grande and Bemis, 1998; Huelsenbeck, 1991; O’Leary, 2000; Wiens, 1998), while others have maintained the importance of including fossil taxa in phylogenetic analyses despite their less complete nature (e.g., Gauthier et al., 1988b; Kearney, 2002a; Kearney and Clark, 2003).”
• The higher-level phylogeny of Archosauria (Tetrapoda: Diapsida) (2010, background): “…are several taxa (e.g. Dromomeron, Eucoelophysis, Lewisuchus, Sacisaurus) that are highly incomplete, but are nonetheless included because they may preserve phylogenetically-useful information (Kearney & Clark 2003) and do not fulfill Wilkinson’s (1995) criteria for safe taxonomic reduction.”
• Phylogeny And Systematics Of Squamata (Reptilia) Based On Morphology (2008, background): “…still offer important data for reconstructing character polarities (Kearney and Clark, 2003; Wiens, 2003), although incompletely known taxa whose character scoring completely overlap with another taxon in the matrix, may be safely removed from an analysis (Wilkinson, 1995; Kearney and Clark, 2003).”