Skip to main content

Table 2 Fast evolving genes identified by the branch, site, and branch-site codon substitution models at a FDR threshold of 0.20.

From: Rates of evolution in stress-related genes are associated with habitat preference in two Cardamine lineages

Gene Function LRTa
AT1G07890b Ascorbate peroxidase; response to salt and heat stress BS Cr
AT1G14610 Aminoacyl-tRNA ligase BS Cr
AT1G21680 Unknown protein BS Cr
AT1G49750 Leucine-rich repeat family protein S21, S87
AT1G54040b Enzyme regulator; response to jasmonic acid stimulus, leaf senescence BS Cr
AT1G71040b Copper ion binding, oxidoreductase; response to phosphate starvation B, B Ci
AT2G25840 Aminoacyl-tRNA ligase B Cr
AT2G31610b 40S ribosomal protein; response to salt stress S21, S87
AT3G06130 Metal ion binding BS Cr
AT3G52910 Growth regulating factor, transcription activator BS Cr
AT4G17520 Putative nuclear RNA-binding protein S21, S87, BS Ci
AT5G06980 Unknown protein S21, S87
AT5G20900 Jasmonate-ZIM-domain protein BS Cr
AT5G26830 Threonyl-tRNA synthetase and ligase B, B Ci
AT5G62680 Transport family protein B Ci
  1. 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).
  2. b gene of the SGO functional class.