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. 2019 Apr 5;70(12):3255–3268. doi: 10.1093/jxb/erz149

Table 1.

List of genes with SwissProt annotations differentially expressed in key comparisons within Alloteropsis semialata from C3 to C3+C4, and C3+C4 to C4

Gene SwissProt protein description Arabidopsis
ortholog		 Mean RPKM
C3 C3+C4 C4
Genes up-regulated in C3+C4 and C4A. semalata (branch E in Fig. 4)
ASEM_AUS1_17510a Phosphoenolpyruvate carboxykinase (PCK) AT4G37870 2 1168 3017
ASEM_AUS1_08268a Aspartate aminotransferase (ASP-AT) AT5G11520 158 1843 1196
ASEM_AUS1_19029a Phosphoenolpyruvate carboxylase (PEPC) AT2G42600 95 828 1118
ASEM_AUS1_30031a Fruit bromelain AT1G06260 11 260 497
ASEM_AUS1_08709 Iron–sulfur cluster assembly protein 1 AT4G22220 67 394 473
ASEM_AUS1_11198 Bifunctional TENA2 protein AT3G16990 10 43 80
ASEM_AUS1_19914 50S ribosomal protein L17 AT5G64650 1 78 58
ASEM_AUS1_02887a Cysteine proteinase 1 AT2G32230 0 44 54
ASEM_AUS1_16281a Probable carboxylesterase 15 AT5G06570 1 16 50
ASEM_AUS1_11666 Putative protease Do-like 14 AT5G27660 1 63 39
ASEM_AUS1_18766a Nudix hydrolase 16 AT3G12600 4 24 38
ASEM_AUS1_21431a DNA-binding protein MNB1B AT4G35570 0 94 30
ASEM_AUS1_24040a,b Putative phosphatidylglycerol/phosphatidylinositol transfer protein AT3G11780 4 32 24
ASEM_AUS1_08934 Putative F-box protein AT4G38870 0 18 23
ASEM_AUS1_44075 Indole-3-acetaldehyde oxidase AT5G20960 0 28 22
ASEM_AUS1_24692 Dihydrolipoyllysine-residue acetyltransferase component 1 of pyruvate dehydrogenase complex AT3G52200 0 13 20
ASEM_AUS1_38810 UDP-glycosyltransferase AT1G05680 0 35 17
ASEM_AUS1_24427 Putative F-box protein AT1G65770 0 19 16
ASEM_AUS1_43609a Flavin-containing monooxygenase FMO GS-OX-like 9 AT5G07800 0 7 13
ASEM_AUS1_40960 Cysteine-rich receptor-like protein kinase 26 AT4G23240 1 18 13
ASEM_AUS1_16960a Valine-tRNA ligase AT1G14610 0 26 12
ASEM_AUS1_27461b Aspartic proteinase nepenthesin-2 AT2G03200 0 2 12
ASEM_AUS1_15840 Tyrosine-tRNA ligase AT2G33840 0 4 10
ASEM_AUS1_22664 Probable nucleolar protein 5-1 AT5G27120 0 19 8
ASEM_AUS1_39034 Putative protease Do-like 14 AT5G27660 0 11 7
ASEM_AUS1_21913 Protein NEN1 AT5G07710 0 5 6
ASEM_AUS1_01903 Disease resistance protein RPM AT3G07040 0 7 2
Genes down-regulated in C3+C4 and C4A. semialata (branch E in Fig. 4)
ASEM_AUS1_21734 60S ribosomal protein L23a AT3G55280 206 0 72
ASEM_AUS1_01414a,b Acyl transferase 4 AT3G62160 150 18 17
ASEM_AUS1_31537 Pumilio homolog 23 AT1G72320 49 12 9
ASEM_AUS1_00061 40S ribosomal protein SA AT3G04770 42 7 7
ASEM_AUS1_22162 Tubulin alpha-3 chain AT4G14960 32 6 3
ASEM_AUS1_22449a Callose synthase 3 AT5G13000 30 2 1
ASEM_AUS1_04268a 40S ribosomal protein S21 AT5G27700 20 0 0
ASEM_AUS1_06562a,b PTI1-like tyrosine-protein kinase 3 AT3G59350 5 1 1
Genes up-regulated in C4A. semialata (branch I in Fig.4)
ASEM_AUS1_39556a,b Pyruvate, phosphate dikinase 1 (PPDK) AT4G15530 60 133 1149
ASEM_AUS1_24184a Phosphatidylglycerol/phosphatidylinositol transfer protein AT3G11780 0 1 104
ASEM_AUS1_29700 Protein SRG1 AT1G17020 2 1 86
ASEM_AUS1_16577a Lactoylglutathione lyase AT1G11840 0 0 46
ASEM_AUS1_06220 S-Norcoclaurine synthase 1 AT1G17020 1 1 39
ASEM_AUS1_24241 DnaJ homolog subfamily A member 1 AT3G14200 1 1 33
ASEM_AUS1_44200a Aquaporin TIP1-1 AT2G36830 0 0 17
ASEM_AUS1_13652 Transcription factor TGAL4 AT1G08320 0 0 7
ASEM_AUS1_00246 Nicotinamide adenine dinucleotide transporter 2 AT1G25380 0 0 2
Genes down-regulated in C4A. semialata (branch I in Fig.4)
ASEM_AUS1_43847a,b Short-chain dehydrogenase TIC 32 AT4G23420 18 11 0

SwissProt protein description and Arabidopsis ortholog information are based on top-hit blast matches. Mean RPKM is derived from the seven A. semialata populations used for differential expression analysis (full summary of results can be found in Supplementary Table S6).

a Significant change in the same direction in A. angusta.

b Significant change in the same direction in A. cimicina