Table 2

Fast evolving genes identified by the branch, site, and branch-site codon substitution models at a FDR threshold of 0.20.

Gene

Function

LRTa


AT1G07890b

Ascorbate peroxidase; response to salt and heat stress

BSCr

AT1G14610

Aminoacyl-tRNA ligase

BSCr

AT1G21680

Unknown protein

BSCr

AT1G49750

Leucine-rich repeat family protein

S21, S87

AT1G54040b

Enzyme regulator; response to jasmonic acid stimulus, leaf senescence

BSCr

AT1G71040b

Copper ion binding, oxidoreductase; response to phosphate starvation

B, BCi

AT2G25840

Aminoacyl-tRNA ligase

BCr

AT2G31610b

40S ribosomal protein; response to salt stress

S21, S87

AT3G06130

Metal ion binding

BSCr

AT3G52910

Growth regulating factor, transcription activator

BSCr

AT4G17520

Putative nuclear RNA-binding protein

S21, S87, BSCi

AT5G06980

Unknown protein

S21, S87

AT5G20900

Jasmonate-ZIM-domain protein

BSCr

AT5G26830

Threonyl-tRNA synthetase and ligase

B, BCi

AT5G62680

Transport family protein

BCi


a Likelihood Ratio Tests (LRT) in which the alternative model explained the pattern of codon substitution better than the null model, and with a false discovery rate lower than 0.20. Patterns of codon substitution were tested using branch models (B tests), site models (S tests), and branch-site models (BS tests). B tests compared models M0 and M0'. S tests compared model M2a to M1a (S21) and model M8 to M7 (S87). BS tests were based on the branch-site model A, test 2. Subscripts in the B and BS tests indicate whether the C. impatiens (Ci) or the C. resedifolia (Cr) lineages were used as foreground branches (see main text for details).

b gene of the SGO functional class.

Ometto et al. BMC Evolutionary Biology 2012 12:7   doi:10.1186/1471-2148-12-7

Open Data