Testing the Incongruence of Phylogenetic Trees

Reference List by Tricia Abe

BIOL 606, February, 1999

Anderberg, A. and A. Tehler. 1990. Consensus trees, a necessity in taxonomic practice. Cladistics 6: 399-402. (consensus trees presented as conservative estimates of phylogenies).

Barrett, M., M.J. Donoghue and E. Sober. 1991. Against consensus. Syst. Zool. 40(4): 486-493. (consensus trees can be incompatible with trees from combined data sets)

Bull, J.J., J.P. Huelsenbeck, C.W. Cunningham, S.L. Swofford and P.J. Waddell. 1993. Partitioning and combining data in phylogenetic analysis. Syst. Biol. 42(3):384-397. (estimates effects of combining "good" and "bad" characters, argues for statistical tests of heterogeneity before combining data sets)

De Queiroz, A., M.J. Donoghue and J. Kim. 1995. Separate versus combined analysis of phylogenetic evidence. Annu. Rev. Ecol. Syst. 26: 657-681. (reviews arguments in favour of both views)

Graham, S.W., J.R. Kohn, B.R. Morton, J.E. Eckenwalder and S.C.H. Barrett. 1998. Phylogenetic congruence and discordance among one morphological and three molecular data sets from Pontederiaceae. Syst. Biol. 47(4):545-567. (incongruence due to low phylogenetic signal and noisy data)

Hillis, D.M. 1987. Molecular versus morphological approaches to systematics. Annu Rev. Ecol. Syst. 18: 23-42.

Kluge, A.G. 1998. Total evidence or taxonomic congruence: cladistics or consensus classification. Cladistics 14: 151-158. (argues against arbitrary data partitions used in consensus classification)

Miyamoto, M.M. and W.M. Fitch. 1995. Testing species phylogenies and phylogenetic methods with congruence. Syst. Biol. 44(1): 64-76. (justifies partitioning data if they meet requirements for independence)

Olmstead, R.G. and J.A. Sweere. 1994. Combining data in phylogenetic systematics: an empirical approach using three molecular data sets in the Solanaceae. Syst. Biol. 43(4): 467-481. (combining data enhances weak phylogenetic signals)

Patterson, C., D.M. Williams and C.J. Humphries. 1993. Congruence between molecular and morphological phylogenies. Annu. Rev. Ecol. Syst. 24: 153-188. (reviews congruence between molecular and morphological phylogenies for many taxa)