. 2016 Jul 29;7:1074. doi: 10.3389/fpls.2016.01074

Table 2.

Identification, sub-cellular localization, and quantitative analysis of differentially expressed proteins.

S.N. (U/D)	Accession no.	Name of protein	Mr (da)	pI	M. Score	Location	Relative spot intensities
							Low N effect	eCO₂ effect	eCO₂ + Low N effect
1 (U)	gi\|111608879	α-1,4-glucan phosphorylase	8852	5.17	134	Chloroplast
2 (U)	gi\|226533870	cp31BHv	18,293	4.85	86	Nucleus, chloroplast
3 (U)	gi\|145327751	GLYOXYLASE I 7	15,564	5.22	74	Peroxisome
4 (U)	gi\|88909669	L-ascorbate peroxidase 5	33,852	5.84	94	Chloroplast
5 (D)	gi\|1174745	Triosephosphate isomerase, chloroplastic	31,955	6.10	148	Chloroplast, cytosol
6 (U)	gi\|259490070	Lipid binding protein precursor	12,904	6.69	59	Membrane
7 (U)	gi\|6523032	Flavonol synthase-like protein	36,401	5.33	94	Cytoplasm, nucleus
8 (U)	gi\|15229664	MYB77; DNA binding/transcription factor	34,318	6.07	53	Nucleus
9 (D)	gi\|521301355	Ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit	53,901	6.16	351	Chloroplast
10 (D)	gi\|15220615	Chlorophyll a-b binding protein 1	24,836	5.11	112	Chloroplast
11 (D)	gi\|226493349	3-isopropylmalate dehydratase large subunit 2	53,901	7.05	147	Chloroplast
12 (U)	gi\|162135976	Sterolesin-B	28,873	5.63	55
13 (U)	gi\|37653227	PII-like protein	25,729	9.84	160	Chloroplast
14 (U)	gi\|21322655	ADP glucose pyrophosphatase	21,172	5.62	83	Chloroplast
15 (U)	gi\|334183671	Glutamine synthetase	46,852	5.96	120	Chloroplast/mitochondria
16 (U)	gi\|255073229	Glutathione transferase	25,098	6.35	76	Cytosol
17 (U)	gi\|297382831	Beta-amylase	24,276	5.59	64	Chloroplast, vacuole, cytosol
18 (D)	gi\|27735224	Ribulose bisphosphate carboxylase small chain 2B	20,801	6.29	232	Chloroplast
19 (U)	gi\|224015956	RADIALIS	9381	8.29	32	Nucleus
20 (U)	gi\|31415978	Putative TNP2-like transposase	116,347	7.91	60	Nucleus
21 (D)	gi\|108706066	Cytoplasmic aconitate hydratase	99,314	5.73	151	Cytosol
22 (U)	gi\|159157513	Putative chaperonin 60 beta precursor	64,721	5.68	158	Mitochondria
23 (U)	gi\|2244775	Salt-inducible protein homolog	65,905	5.96	51	Nucleus
24 (U)	gi\|15231865	AGD6; ARF GTPase activator/DNA binding/zinc ion binding	49,222	6.57	99	Golgi apparatus
25 (D)	gi\|49574618	Ribosomal protein L14	13,216	9.71	54	Ribosome
26 (D)	gi\|114329695	Ribosomal protein S19	10,689	10.90	50	Ribosome, chloroplast, mitochondria
27 (U)	gi\|325947633	Salt overly sensitive 2	20,331	4.94	33	Plasma membrane
28 (U)	gi\|100831	Photosystem II oxygen-evolving complex protein 1	33,596	8.13	160	Chloroplast
29 (U)	gi\|1263097	MYB-related protein	33,799	6.07	133	Nucleus
30 (D)	gi\|2546952	Translation elongation factor-TU	27,375	5.09	99	Plastid, mitochondria, cytosol
31 (U)	gi\|4090259	Ubiquitin-conjugating enzyme E2	18,891	7.01	75	Nucleus, cytosol
32 (U)	gi\|145666464	Protein disulfide isomerase	56,921	5.01	149	ER
33 (U)	gi\|12643259	Rubisco activase chloroplast precursor	51,886	5.43	138	Chloroplast
34 (U)	gi\|330255651	3-Ketoacyl-CoA synthase	46,810	9.02	65	Plasma membrane
35 (U)	gi\|297807473	GDSL-motif lipase/hydrolase family protein	43,124	8.76	34	chloroplast stroma
36 (U)	gi\|1572627	Cu/Zn superoxide dismutase	20,312	5.35	130	Cytosol
37 (U)	gi\|15231902	Phosphatidylinositol-4-phosphate 5-kinase family protein	82,129	8.63	133	Plasma membrane
38 (U)	gi\|30686609	PUB23 (PLANT U-BOX 23); ubiquitin-protein ligase	46,648	8.28	92	Cytosol
39 (D)	gi\| 15229231	Glyceraldehyde 3-phosphate dehydrogenase	37,366	6.62	141	Plastid, mitochondria
40 (U)	gi\|729477	RecName: Ferredoxin-NADP reductase	41,622	8.54	139	Chloroplast stroma, thylakoid membrane
41 (D)	gi\|296932709	Granule-bound starch synthase I	13,696	9.76	51	Chloroplast
42 (U)	gi\|50252278	Flavin-containing monooxygenase	42,795	8.75	65	ER
43 (D)	gi\|186886309	ATPase F1 alpha subunit	38,233	8.27	134	Mitochondria
44 (D)	gi\|260780700	Acetyl-CoA carboxylase beta subunit	40,007	9.02	53	Cytoplasm, plastid
45 (U)	gi\|2570499	23 kDa polypeptide of photosystem II	27,772	9.06	94	Chloroplast
46 (U)	gi\|83700338	Chloroplast-localized cyclophilin	16,127	8.48	146	Chloroplast
47 (D)	gi\|52353463	ACC oxidase	36,852	4.97	134	Cytosol
48 (D)	gi\|217075182	Unknown	19,372	8.81	39
49 (U)	gi\|145329965	TTN7 (TITAN7); ATP binding/protein binding	138,856	6.05	144	Nucleus
50 (D)	gi\|56785387	Hypothetical protein [Oryza sativa Japonica Group]	8515	11.31	40
51 (U)	gi\|21537409	Osmotin-like protein	27,148	6.34	135	Cell-wall
52 (D)	gi\|22296371	Putative 29 kDa ribonucleoprotein A, chloroplast precursor	28,126	4.75	165	Nucleus
53 (D)	gi\|41584495	SMC3	139,879	6.07	54	Cytoplasm, nucleus
54 (D)	gi\|79595267	ATPase	209,868	6.50	169	Plasma membrane, tonoplast
55 (U)	gi\|255575181	Carnitine racemase	27,262	7.64	32	Nucleus, peroxisome
56 (U)	gi\|297807151	Hypothetical protein ARALYDRAFT_909075	27,949	5.57	45
57 (D)	gi\|260619528	LIM1	21,920	9.07	124	Nucleus, cytosol
58 (D)	gi\|69216892	RNA polymerase beta chain	79,308	9.10	217	Nucleus
59 (U)	gi\|21397266	Small heat shock protein	25,122	6.26	61	Nucleus
60 (U)	gi\|269969449	Iron deficiency-specific protein	374,514	5.71	78	Cytosol
61 (U)	gi\|38344419	OSJNBb0080H08.11	202,531	8.71	46
62 (U)	gi\|304571953	Anthranilic acid methyltransferase 3	43,177	6.29	142	Cytosol
63 (D)	gi\|4261643	Sedoheptulose-1,7-bisphosphatase	42,068	6.26	153	Chloroplast
64 (U)	gi\|18424254	Zinc finger (C3HC4-type RING finger) family protein	44,981	6.36	88	Nucleus
65 (U)	gi\|159487407	NAD-dependent epimerase/dehydratase	36,518	7.13	135	Cytosol
66 (D)	gi\|297806809	Galactosyl transferase GMA12/MNN10 family protein	52,488	7.52	95	Golgi apparatus
67 (U)	gi\|113205313	“Chromo” domain containing protein	93,199	9.21	143	Thylakoid membrane
68 (U)	gi\|15213029	Maturase K	14,517	9.86	55	Mitochondria, chloroplast, nucleus
69 (U)	gi\|308804756	Stress-induced protein sti1-like protein (ISS)	69,580	6.03	72	Cytosol, chloroplast
70 (U)	gi\|238005590	Unknown	9609	8.88	52
71 (D)	gi\|75180109	Heme oxygenase 4	32,115	6.89	62	Chloroplast
72 (U)	gi\|300669644	Ferredoxin-dependent glutamate synthase 2	27,542	6.24	102	Chloroplast

S.N. (U/D), Spot Number; U, upregulated; D, downregulated; Mr, Molecular Weight; pI, Isoelectric Point; M.Sco, MASCOT Score; eCO₂, elevated CO₂ level. Y-axis denoted relative spot intensities; X-axis denotes treatments. Red bars indicate Pusa Bold cultivar, and blue bars indicate Pusa Jai Kisan cultivar. Spot volumes were analyzed by PD Quest software. The fold-change of up-regulated protein spot volumes was calculated by treatment (T1-T3)/control (T0), whereas the change fold of down-regulated protein spot volumes was calculated by control (T0)/treatment (T1-T3). T0, ambient CO₂ level and sufficient-N; T1, ambient CO₂ level and low-N; T2, elevated CO₂ level and sufficient-N; T3, low-N and elevated CO₂ level. Values are presented as mean of three replicates ± SE.