SI Table 4: Genes putatively affected by adaptive protein evolution as revealed by branch-specific tests for selection.												
"† : possible link to CAM photosynthesis;  ‡ :  potentially related to general drought / heat stress response syndrome;  (‡): indirectly linked to drought stress response; Differential expression analysis, FDR significance thresholds: ** : < 0.01, * : <0.05,  ns : >0.05 ;  - : not differentially expressed."												
												
												
Gene_accessions	Intraspecific DAY/NIGHT				Interspecific CAM/C3 – DAY			Interspecific CAM/C3 – NIGHT			  Description	References
	Tspha	Taust	Tfasc	Tflor	Tspha	Tfasc	Tflor	Tspha	Tfasc	Tflor		
Aco020962†	-	-	**	-	**	**	ns	**	**	ns	"Enolase EC4.2.1.11, phosphoenolpyruvate hydratase. Last step of glycolysis which catalyses the reversible conversion of 2-phosphoglycerate into phosphoenolpyruvate (PEPC). PEPC is a key-enzyme in C4 and CAM photosynthesis"	"PEPC evolution:
Christin et al. 2014
Wai et al. 2017"
Aco012463‡	-	-	-	-	ns	ns	ns	ns	ns	ns	E3SUMO: E3-SUMO protein ligase SIZ1 controls phosphate deficiency response and regulates drought response	"Miura et al. 2005
Catala et al. 2007"
Aco005505‡	-	-	ns	-	ns	**	ns	ns	ns	ns	"LACS or ACSL, also called FATP: Long chain fatty acid CoA ligase. In plants, linked to cuticle growth (wax content), thus conferring susceptibility to drought stress.  "	"Pulsifer 2012
Weng et al. 2010"
Aco009511‡	-	-	-	-	ns	ns	ns	ns	ns	ns	"ERF: Ethylene responsive transcription factor. TF present in numerous adaptive responses to a wide variety of biotic and abiotic stresses. In Pepper (Capsicum sp.), enhances drought tolerance."	"Fujimoto et al. 2000
Hong et al. 2017"
Aco005399‡	-	-	-	-	ns	ns	ns	ns	ns	ns	"Protein of unknown function DUF1645, in rice this protein domain confers drought resistance"	Cui et al. 2016
Aco000648(‡)	-	-	-	-	ns	ns	ns	ns	ns	ns	"Chaperone protein DnaJ: stress-induced heat shock protein (Hsp40), co-chaperone of Hsp70, large family of heat-shock proteins. Hsp plastid concentration promotes thermotolerance in C3, C4 and CAM species. "	
Aco018002(‡)	-	-	-	-	ns	ns	ns	ns	ns	ns	"PARG2: Poly-ADP ribose glycohydrolase 2, response to DNA damage, and immune response. PARG1 is involved in drought stress response. PARG1, PARG2, PARP1 and PARP2 are suggested to be linked by regulatory interactions."	"Song et al. 2015
Li et al. 2011
"
Aco003224(‡)	-	-	ns	-	ns	ns	ns	ns	**	ns	MYB: DNA-binding protein MYB transcription factor. Can be involved in many biotic and abiotic stress responses. 	Ambawat et al. 2013
Aco007014(‡)	-	-	-	-	**	**	**	**	**	**	"LPIN3: Phosphatidate phosphatase, key regulatory enzyme in fatty acid metabolism. Potentially involved in heat-stress and drought-stress response. "	"Carman 2009
De Bigault Du Granrut, & Cacas 2016"
Aco013659	**	**	**	-	**	**	ns	**	ns	*	"SAM Mtase: S-adenosyl-L-methionine synthase 2516 (c.f. gene above), enzyme of the cysteine and methionine metabolism pathways (KEGG EC2.5.1.6, ec00270)"	"Joshi & Chiang 1998
Roje 2006"
Aco003279	-	ns	-	-	ns	ns	**	ns	ns	**	"SAM: S-adenosyl-L-methionine dependent methyltransferase superfamily protein. The methyl group donor has a regulatory function in many metabolic pathways. 
"	"Joshi & Chiang 1998
Roje 2006"
Aco002187	-	-	-	-	ns	ns	ns	ns	**	ns	"TUBCGP: Gamma-tubulin complex component, highly conserved"	Kong et al. 2010
Aco012435	-	-	-	-	ns	ns	ns	ns	ns	ns	"G6PD: Glucose6phosphate dehydrogenase, first enzyme of the pentose-phosphate pathway. "	Hauschild & von Schaewen 2003
Aco001521	-	-	-	-	ns	ns	ns	ns	ns	ns	CECR2 : Cat eye syndrome critical region protein-like protein	
Aco008752	-	-	-	-	ns	ns	ns	ns	*	ns	"Nucleoporin-related, highly conserved, few studies in plants"	Tamura et al. 2010
Aco011527	-	-	-	-	ns	**	ns	ns	ns	ns	"CLUH:  Clustered mitochondria protein-like protein, regulates mitochondrial biogenesis by binding mRNAs of nuclear-encoded mitochondrial proteins"	Gao et al. 2014
Aco013210	-	-	ns	-	ns	ns	ns	ns	*	ns	"PPR: Pentatricopeptide repeat containing protein, one of the largest protein families in plants, involved in many different biological processes."	"Zhang et al. 2017
Barkan & Small 2014"
Aco011299	-	-	-	-	ns	ns	ns	ns	ns	ns	"PPR: Pentatricopeptide repeat containing protein, one of the largest protein families in plants, involved in many different biological processes."	"Zhang et al. 2017
Barkan & Small 2014"
Aco007782	-	-	-	-	ns	ns	ns	ns	ns	ns	"InvB: Plant neutral invertase family protein
Active in plant biotic stress response involving sucrose"	Tauzin & Giardina 2004
Aco008802	-	-	-	-	ns	ns	ns	ns	ns	ns	"FBT: Folate biopterin (vitamin B9) transporter, promoting biosynthesis of amino acids such as methionine, serine, histidine"	Bedhomme et al. 2005
Aco007483	-	-	-	-	-	-	-	-	-	-	"CAS1: Cyclo-artenol synthase1, cycloartenol, important precursor of sterols in photosynthetic organisms"	Babiychuk et al. 2008