Phylogeny of Arabidopsis TIR-NBS & TIR-NBS-LRR proteins

Phylogeny of Arabidopsis CC-NBS & CC-NBS-LRR proteins

Sequence IDs are web links to corresponding sequences in the MIPS Arabidopsis Database

Tree of TN and TNL proteins. The set of 111 proteins in the phylogeny all contain NBS motifs typical of those encoded by plant resistance genes. Proteins that are not TNLs are indicated with a code after the identifier that refer to protein configurations (T=toll-interleukin homology domain or 'TIR', N=nucleotide binding site, L=leucine rich repeat, X=other). Sequence identifiers are given for each sequence as designated by the Arabidopsis Genome Initiative. The NBSs of all protein sequences were aligned based using CLUSTALW. Two genes (At4g19500 and At4g36140) have been dissected into sub-sequences because they each contain two NBS domains. The tree shown above is a neighbor-joining tree, calculated from distance matrices according to Kimura's two-parameter method. The tree was generated using PAUP*4.0. Numbers on branches indicate the percentage of 1000 bootstrap replicates that support the adjacent node; bootstrap results were not reported if the support was less than 50%. Branch lengths are proportional to genetic distance, based on amino acid substitutions. Known resistance genes are indicated in bold, with genes cloned from ecotypes that are not Columbia in parentheses. Branch lengths are colored to indicate the location on the chromosomes. The number of exons for each gene is indicated at right by the gray brackets. Asterisks indicate that our gene prediction differed from that in MIPS and TIGR; superscript "p" indicates a predicted or potential pseudogene (see text). The Streptomyces sequence with GenBank accession #P25941 roots the tree as the outgroup. Trees with similar topologies were obtained with both parsimony and distance analyses.

Sequence IDs are web links to corresponding sequences in the MIPS Arabidopsis Database

email: Blake Meyers
email: Alexander Kozik
email: Richard Michelmore

Last modified 11 August 2002