Supplemental Figure S1. GOX1 and GOX2 gene models.
Supplemental Figure S2. Read coverage of GOX1 and GOX2 loci from
RNA-seq analysis of cat2-2 gox1-1, cat2-2, and cat2-2 gox2-1 mutants.
Supplemental Figure S3. Heat map of differentially expressed transcripts
(|log2 FC| . 1, FDR , 0.05) between cat2-2 gox1-1, cat2-2 gox2-1, and
cat2-2 mutants under control high CO2 conditions aimed at inhibiting
the photorespiratory flux.
Supplemental Figure S4. Redox status of Col-0, cat2-2, cat2-2 gox1-1, and
cat2-2 gox2-1 plants grown under ambient air and moderate light intensity
(300 mmol m22 s
21
).
Supplemental Figure S5. Nonphotochemical quenching and phosphorylation
of LHCBII upon exposure of Col-0, gox1-1, and gox2-1 plants grown
under conditions limiting photorespiration to high light.
Supplemental Figure S6. GOX1 and GOX2 genes in Brassicaceae are clustered
as monophyly in the gene tree of ORTHO03D000507 from PLAZA
3.0 dicots.
Supplemental Figure S7. Extractable leaf GOX activity.
Supplemental Figure S8. GOX1 and GOX2 transcript abundance.
Supplemental Table S1. Maximum likelihood estimates of parameters under
branch models on both postduplication branches leading to the
GOX1 and GOX2 clades.
Supplemental Table S2. Likelihood ratio tests for comparing different
branch models applied to both postduplication branches leading to the
GOX1 and GOX2 clades.
Supplemental Table S3. The modified branch-site models for detecting
positive selection on six branches after the duplication event leading
to GOX2 in Arabidopsis.
Supplemental Table S4. List of primers used in this study.
Supplemental Table S5. Mutations enriched in line 238.3.
Supplemental Table S6. Data sources and sequence accessions.
Supplemental Data Set 1. RNA-seq results.
Supplemental Data Set 2. List of transcripts that responded to the photorespiratory
stress treatment in a genotype-specific manner.
Supplemental Data Set 3. Gene Set Enrichment Analysis (http://
structuralbiology.cau.edu.cn/PlantGSEA) of the transcripts that responded
to the photorespiratory stress treatment in a genotype-specific
manner.