Phylogenetic classification

Ford Doolittle, W. (1999). Phylogenetic classification and the universal tree. Science, 284,... 

Tatusov RL, Natale DA, Garkavtsev IV et al. The COG database new developments in phylogenetic classification of proteins from complete genomes. Nucleic Acids Res 2001 29[l] 22-28. 

Saier, M. H. Jr (2000). A functional-phylogenetic classification system for transmembrane solute transporters, Microbiol. Mol. Biol. Rev., 64, 354-411. 

Hagenbuch, B. and Meier, P.J. (2004) Organic anion transporting polypeptides ofthe OATP/SLC21 family phylogenetic classification as OATP/SLCO superfamily, new nomenclature and molecular/functional properties. 

MarguUs, L., 1996, Archaeal-eubacterial mergers in the origin of Eukarya Phylogenetic classification offife, Proc. iVotZ. Acad. 5ci. USA 93 1071-1076. 

Eomeris E, Binda C, Vanoni MA, BattagUoli E, Mattevi A (2005) Human histone demethylase LSDl reads the histone code. J Biol Chem 280 41360-41365 Erye RA (2000) Phylogenetic classification of prokaryotic and eukaryotic Sir2-like proteins. Biochem Biophys Res Commun 273 793—798... 

Frye, R.A. (2000) Phylogenetic classification of prokaryotic and eukaryotic Sir2-like proteins. Biochemical el Biophysical Research Communications, 273, 793-798. 

Doolittle WF (1998) You are what you eat a gene transfer ratchet could account for bacterial genes in eukaryotic nuclear genomes. Trends Genet 14 307-311 Doolittle WF (1999) Phylogenetic classification and the universal tree. Science 284 2124-2129 Douzery EJ, Snell EA, Bapteste E, Delsuc F, Philippe H (2004) The timing of eukaryotic evolution does a relaxed molecular clock reconcile proteins and fossils Proc Natl Acad Sci USA 101 15386-15391... 

Wu, C. Shivakumar, S. (1994). Back-propagation and counter-propagation neural networks for phylogenetic classification of ribosomal RNA sequences. Nucleic Acids Res 22,4291-9. 

Figure 4. Phylogenetic classification of Ziziphus jujuba and Gymnema sylvestre. Lineage. Since separation occurs early, at the subclass level, these two species do not appear closely related. Solid arrows indicate single pathways. Open arrows indicate multiple pathways. Reproduced with permission from Ref. 17. Copyright 1980, ILR Press, Ltd,...

Doolittle, W. F., Canadian Institute for Advanced Research, Dept, of Biochemistry and Molecular Biology, Dalhousie University, Halifax, Nova Scotia, Canada. Phylogenetic Classification and the Universal Tree. http //cas. bellarmine. edu/tietjen/Ecology/phy logenetic classification and. htm... 

Doolittle WF Phylogenetic classification and the universal tree. Science 1999 284 2124-2128. Bruns TD, Vilgalys R, Barns SM, Gonzalez D, Hibbett DS, Lane DJ, Simon L, Stickel S, Szaro TM, Weisbuig WG, Sogin ML Evolutionary relationships within the fungi Analyses of nuclear small subunit rRNA sequences. Mol Phylogenet Evol 1992 1 231-241. 

Hibbett DS, Donoghue MJ Progress toward a phylogenetic classification of the Polyporaceae through parsimony analyses of mitochondrial ribosomal DNA sequences. Can J Bot 1995 73(suppl 1) s853-s861. 

Thorne, R.R (1968) Synopsis of a putative phylogenetic classification of the flowering plants. Aliso, 6, 57-66. 

Thorne, R.R (1976) A phylogenetic classification of the Angiospermae. Evol. Biol, 9, 35-106. 

With increasing sequence data, there are now several bases on which to construct phylogenies. However, there is not yet a satisfactory phylogenetic classification that encompasses all viral families. Three-dimensional structure will continue to play a pivotal role as new viral families are explored. Such comparative studies are not just of academic importance. Beginning to understand the mechanisms of viral evolution is an important part of understanding how new viruses and their associated diseases emerge (Condit, 2001). 

Cavalier-Smith T. (2002) The phagotrophic origin of eukaryotes and phylogenetic classification of Protozoa. Int. J. Sys. Evol. Microbiol. 52, 297—354. 

Schneider, B., Seemuller, E., Smart, C.D. and Kirkpatrick, B.C. (1995). Phylogenetic classification of plant pathogenic mycoplasma-like organisms or phytoplasmas, In Molecular and Diagnostic Procedures in Mycoplasmology, Vol. I. Molecular Characterization (R.S., Tully (eds) pp. 369-380. Academic Press Inc., San Diego, California, USA. 

Seemuller, E., Schneider, B., Maureer, R., Ahrens, U., Daire, X., Kison, H., Lorenz, K.H., Firrao, G., Avinent, L., Sears, B.B. and Stackebrandt, E. (1994). Phylogenetic classification of phytopathogenic mollicutes by sequence analysis of 16SrDNA. International Journal of Systematic Bacteriology, 44 440-446. 

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