Taxon sampling, bioinformatics, and phylogenomics

Systematic Biology

Volumn 52, Issue 1, 2003, Pages 119-124

  Rosenberg, Michael S ^a   Kumar, Sudhir ^a  

^a ARIZONA STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 0037291976     PISSN: 10635157     EISSN: None     Source Type: Journal    
DOI: 10.1080/10635150390132894     Document Type: Review

References (14)

1. EIZRIK, E., W. J. MURPHY, AND S. J. O'BRIEN. 2001. Molecular dating and biogeography of the early placental mammal radiation. J. Hered. 92:212-219.
2. HASEGAWA, M., H. KISHINO, AND T. YANO. 1985. Dating of the human-ape splitting by a molecular clock of mitochondrial DNA. J. Mol. Evol. 22:160-174.
3. HILLIS, D. M. 1998. Taxonomic sampling, phylogenetic accuracy, and investigator bias. Syst. Biol. 47:3-8.
4. KUMAR, S. 1996. A stepwise algorithm for finding minimum evolution trees. Mol. Biol. Evol. 13:584-593.
5. MURPHY, W. J., E. EIZIRIK, W. E. JOHNSON, Y. P. ZHANG, O. A. RYDER, AND S. J. O'BRIEN. 2001. Molecular phylogenetics and the origins of placental mammals. Nature 409:614-618.
6. NEI, M., S. KUMAR, AND K. TAKAHASHI. 1998. The optimization principle in phylogenetic analysis tends to give incorrect topologies when the number of nucleotides or amino acids used is small. Proc. Natl. Acad. Sci. USA 95:12390-12397.
7. PENNY, D., AND M. D. HENDY. 1985. The use of tree comparison metrics. Syst. Zool. 34:75-82.
8. POLLOCK, D. D., D. J. ZWICKL, J. A. MCGUIRE, AND D. M. HILLIS. 2002. Increased taxon sampling is advantageous for phylogenetic inference. Syst. Biol. 51:664-671.
9. ROBINSON, D. F., AND L. R. FOULDS. 1981. Comparison of phylogenetic trees. Math. Biosci. 53:131-147.
10. ROSENBERG, M. S., AND S. KUMAR. 2001. Incomplete taxon sampling is not a problem for phylogenetic inference. Proc. Natl. Acad. Sci. USA 98:10751-10756.
11. SWOFFORD, D. L. 1998. PAUP*: Phylogenetic analysis using parsimony (*and other methods), version 4. Sinauer, Sunderland, Massachusetts.
12. TAKAHASHI, K., AND M. NEI. 2000. Efficiencies of fast algorthims of phylogenetic inference under the criteria of maximum parsimony, minimum evolution, and maximum likelihood when a large number of sequences are used. Mol. Biol. Evol. 17:1251-1258.
13. TAMURA, K., AND M. NEI. 1993. Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol. Biol. Evol. 10:512-526.
14. ZWICKL, D. J., AND D. M. HILLIS. 2002. Increased taxon sampling greatly reduces phylogenetic error. Syst. Biol. 51:588-598.