Phylogenetic relationships sequence

Fig. 3. Phylogenetic relationship of strain BMEL-2 and related taxa, based on D1/D2 region sequence of the large-subunit rDNA. Bar, 0.01 nucleotide substitution per position.

Bakker, E. T., Yassibades, D. D., Morton, C. and Savolainen, V. 1998. Phylogenetic relationships of Biebersteinia Stephan (Geraniaceae) inferred from rbcL and utpB sequence comparisons. Bot. J. Linn. Soc. 127 149-158. 

Nyffeler, R. 2002. Phylogenetic relationships in the cactus family (Cactaceae) based on evidence from tmK/matK and trnL-trnF sequences. Amer. J. Bot. 89 312-326. 

Hibsch-Jetter, C. 2001. Phylogenetic relationships in Chrysosplenium (Saxifragaceae) based on analysis of a combined rbcUmatK sequence data set. Amer. J. Bot. 88 883-893. 

Chilton, N.B., Gasser, R.B. and Beveridge, I. (1997a) Phylogenetic relationships of Australian strongyloid nematodes inferred from ribosomal DNA sequence data. InternationalJournal for Parasitology 27,1481-1494. 

Okamoto, M., Bessho, Y., Kamiya, M., Kurosawa, T. and Horii, T. (1995) Phylogenetic relationships within Taenia taeniaeformis varian Is and other taeniid cestodes inferred from the nucleotide sequence of the cytochrome c oxidase subunit I gene. Parasitology Research 81, 451-458. 

Fig. 16.3. Phylogenetic relationships between the predicted amino acid sequence of As-p18 and cLBPs from other sources. Asterisked ( ) proteins possess secretory leader/signal sequences. The percent identity of each protein with As-p18 is shown in parenthesis. Protein sequences from C. elegans and C. briggsae are prefixed Ce and Cb , respectively. It is clear that cLBP-like proteins from nematodes fall into two groups - one group whose members have secretory leaders, and those with no such leader - and cLBPs from vertebrates fall into the latter group. Reproduced from Plenefisch etal., 2000, with permission.

Peterson SW et ai, Penicillium coffeae, a new endophytic species isolated from a coffee plant and its phylogenetic relationship to P. fellutanum, P. thiersii and P. brocae based on parsimony analysis of multilocus DNA sequences, Mycologia 97 659-666, 2005. 

There are numerous computer software programs that permit one to investigate sequence ahgnment and phylogenetic relationships among (a) various proteins, domains, motifs, modules, etc., and (b) nucleic acid sequences in DNA and RNA. In addition to those presented below, various Internet-based algorithms afford rapid and convenient analysis of macromolecular sequences. 

Phylogenetic relationship among cockroach families inferred from mitochondrial 12S rRNA gene sequence. Systematic Entomology 21 89-98. 

Lahti CJ, d Oliveira CE, Johnson PJ (1992) Beta-succinyl-coenzyme A synthetase from Trichomonas vaginalis is a soluble hydrogenosomal protein with an amino-terminal sequence that resembles mitochondrial presequences. J Bacteriol 174 6822-6830 Lange S, Rozario C, Muller M (1994) Primary structure of the hydrogenosomal adenylate kinase of Trichomonas vaginalis and its phylogenetic relationships. Mol Biochem Parasitol 66 297-308... 

Fig. (7). Phylogenetic relationship of tomato subtilases. An unrooted phylogenetic tree is shown based on the amino acid sequences deduced from tomato subtilase genes and cDNAs. Numbers indicate PAM distances (accepted point mutations per 100 residues) between sequences. The figure was modified after (8).

Jovelin, R. and Justine, J.L. (2001) Phylogenetic relationships within the polyopisthocotylean monogeneans (PlatyheIminthes) inferred from partial 28S rDNA sequences. International Journal for Parasitology 31,... 

Roodt-Wilding, R. and Spies, J. J. (2006). Phylogenetic relationships in southern African chloridoid grasses (Poaceae) based on nuclear and chloroplast sequence data. System. 

Figure 18.4 A Phylogenetic relationships of moth ABPXs and DmeIPBPRPs. The primary sequences of the proteins were aligned in Clustal X 1.8 and processed using PAUP 4.0d65 (Swofford, 1999). The tree represents equally most parsimonious trees of 909 steps and consistency index 0.52. The numbers above each branch indicate the percent bootstrap support above 50 percent for the supported node using maximum parsimony (Felsenstein,...

Kohring, L.L., Ringelberg, D.B., Devereux, R., Stahl, D.A., Mittelmann, M.M., and White, D.C. (1994) Comparison of phylogenetic relationships based on phospholipids fatty acid profiles and ribosomal RNA sequence similarities among dissimilatory sulfate-reducing bacteria. FEMS Microbiol. Lett. 119, 303-308. 

Fig. 2.2 Phylogenetic relationships within the peroxidase-cyclooxygenase superfamily. This circle tree was obtained in MEGA package [13] after compressing all resolved branches from 160 full sequences of this superfamily to main clades. Seven subfamilies [10] are clearly discernible...

Procedures involved in the analysis of rRNA sequence data for inferring phylogenetic relationships have been extensively discussed.24,25 A critical prerequisite is that sequence alignments be carefully examined by reference to rRNA secondary structure.23,26... 

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