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

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


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


The set of 159 genes with pronounced NBS motif was selected from our Tree of CN and CNL1 proteins. The set of 61 proteins in the phylogeny all contain NBS motifs typical of those encoded by plant resistance genes. Proteins that are not CNL1s are indicated with a code after the identifier that refer to protein configurations (C=coiled coil domain, 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. 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. Black curly braces at right indicate three sub-families that are distinguished by motif patterns in the coiled-coil domain. 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