Neighbor joining method

Saitou, N. and M. Nei (1987). The neighbor-joining method A new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4 406 -25. 

Fig. 7.4 The tree is based on full-length sequences, and constructed by using the neighbor-joining method. Bootstrap values (% from 1,000 replications) are indicated. NodA sequences of published rhizobia are available in GenBank. A, Azorhizobium, B, Bradyrhizobium. M, Mesorhizobium. Me, Methylobacterium. R, Rhizobium. S, Sinorhizobium (Moullin et al. 2001)...

The nucleotide sequences of gastrin precursors in Phylip format are given below. Preform phylogenetic analysis by neighbor joining method using the Kimura two-parameter model. 

Fig. 3. Phylogentic relationship among select members of the photolyase/ cryptochrome family. Sequences were aligned with Clustal W, and the tree was produced by the Neighbor-Joining method using MEGA 2.1. Bootstrap confidence values are shown (values for interior branches >95% are statistically significant). At, Arabidopsis thaliana Dm, Drosophila melangaster Ec, Escherichia coli Hs, Homo sapiens Vc, Vibrio cholerae.

Figure 9.3 Phylogenetic tree of solvento-genic Clostridia based on 16S rRNA gene sequences. Sequences were aligned using ClustalW 1.6 [96]. The phylogenetic tree was obtained by using the neighbor-joining method within MEGA 5.05 software [97]. Numbers at nodes are bootstrap values...

Figure 7.6 Phylogenetic tree of Lactobacillus and Pediococcus species derived from 16S rRNA gene sequence data, using neighbor-joining method for calculation. The bar indicates the number of inferred substitutions per 100 nucleotides. The accession numbers of 16S rRNA gene sequence are shown in parentheses, and the strong beer-spoilage species are underlined.

Figure 7. A phylogenetic tree constructed based on the deduced amino acid sequence of CCBE and those of fungal CBHs or exoglucanases of GH-7. Numbers at each branch indicate the percentage of times a node was supported in 1000 bootstrap pseudo replications by the Neighbor-Joining method. (Cited from reference[142]).

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