Table 1.
Differentially expressed proteins in water-stressed rice seedlings categorized into different subgroups according to their function.
| Spot No | Protein | Mowse Score | Mr (kD)/pI | Access key | Sequence Coverage/peptides matched | Protein orthologue | Up/down regul -ated |
|---|---|---|---|---|---|---|---|
| 1. Carbon fixation: | |||||||
| SSC3-2 | Ribulose bisphosphate carboxylase large chain precursor, putative [Oryza sativa (japonica cultivar−)] | 70.5 | 56.5/9.7 | gi|108862318 | 19.3%/10 | Down | |
| SSC3-8 | Fructose-bisphosphate aldolase | 113 | 41.8/6.0 | gi|108864048 | 34.4%/13 | Down | |
| SSC3-12 | Fructose-bisphosphate aldolase class-I [Oryza sativa Japonica Group] | 77.9 | 39.6/7.6 | gi|62732954 | 23.7%/8 | Down | |
| SSC3-20 | hypothetical protein OsJ_30136 [Oryza sativa Japonica Group] | 137 | 26.3/9.7 | gi|125606445 | 60.0%/15 | Triose phosphate isomerase, chloroplastic | Down |
| SSC3-23 | hypothetical protein OsI_20474 [Oryza sativa Indica Group] | 109 | 30.5/7.7 | gi|125552851 | 43.7%/10 | Phosphoglycerate kinase, chloroplastic | Down |
| SSC3-11 | Os01g0501800 [Oryza sativa (japonica cultivar-group)] | 143 | 35.1/6.0 | gi|115436780 | 53.8%/15 | OEC 33 | Down |
| CBC3-49 | PSII Oxygen evolving complex protein 2 precursor, rice | 332 | 26.932/8.66 | T02B73 | 44%/8 | Down | |
| 2. Unknown/Uncharacterized proteins: | |||||||
| SSC3-1 | Os04g0620200 [Oryza sativa (japonica cultivar-group)] | 45.8 | 31.6/9.1 | gi|115460610 | 24.3%/5 | Remorin C-terminal domain protein+ DNA binding | Down |
| SSC3-6 | hypothetical protein LOC_Os11g39500 [Oryza sativa (japonica cultivar-group)] | 33.1 | 13.7/9.8 | gi|77551932 | 18.6%/3 | Hypothetical protein | Down |
| SSC3-7 | hypothetical protein OsI_32755 [Oryza sativa Indica Group] | 34.9 | 11.5/11.1 | gi|218184148 | 49.0%/3 | IGR family prot (unknown function) | Down |
| SSC3-18 | Os01g0652000 [Oryza sativa (japonica cultivar-group)] | 56.4 | 11.3/10.7 | gi|115438911 | 60.8%/5 | Uncharacterized | Down |
| SSC3-19 | unknown protein [Oryza sativa Japonica Group] | 44.3 | 12.7/10.4 | gi|47900462 | 28.6%/3 | Unknown protein | Down |
| CBC3-39 | hypothetical protein [Oryza sativa Japonica Group] | 28.5 | 12.8/6.7 | gi|53791471 | 51.7%/2 | No match | Down |
| CBC3-40 | hypothetical protein [Oryza sativa Japonica Group] | 59 | 9.9/7.8 | gi|57899958 | 46.4% | No match | Down |
| CBW3-5 | hypothetical protein [Oryza sativa] | 45.2 | 15.2/11.5 | gi|10440615 | 59.4%/6 | No match | Up |
| CBW3-26 | hypothetical protein [Oryza sativa Japonica Group] | 38.2 | 16.01/11.6 | gi|51534990 | 30.8%/4 | No match | Up |
| CBW3-27 | hypothetical protein OsI_26020 [Oryza sativa Indica Group] | 43.1 | 260.7/10.8 | gi|218199617 | 22.8%/8 | No match | Up |
| CBW3-29 | Os12g0623600 [Oryza sativa (japonica cultivar-group)] | 34.0 | 32.36/7.8 | gi|115489646 | 18.8%/3 | Unknown function RmlC_Cupin domain, DUF1637 family | Up |
| CBW3-31 | hypothetical protein OsI_02030 [Oryza sativa Indica Group] | 46.4 | 12.58/9.9 | gi|125526034 | 37.9%/4 | No match | Up |
| CBW3-32 | hypothetical protein [Oryza sativa Japonica Group] | 17.54/31.4 | 12.4 | gi|50251877 | 28.2%/32 | No match | Up |
| 3. Cell Homeostasis: | |||||||
| SSC3-4 | hypothetical protein OsJ_22283 [Oryza sativa Japonica Group] | 51.9 | 18.6/10.1 | gi|222636049 | 20.9%/4 | Thioredoxin O; Mitochondrial, OsTrxO1 | Down |
| SSC3-9 | Os01g0978100 [Oryza sativa (japonica cultivar−)] | 138 | 42.1/6.3 | gi|115442595 | 48.7%/16 | Putative plastidic cysteine synthase1 | Down |
| SSC3-13 | hypothetical protein LOC_Os03g32290 [Oryza sativa (japonica cultivar-group)]; predicted mitochondrial with TargetP | 42.4 | 11.7/5.4 | gi|108709024 | 33.0%/3 | Hypothetical protein; low similarity (~51% positives) to Glycerol 3-phosphate dehydrogense | Down |
| SSC3-14 | aminotransferase-like [Oryza sativa Japonica Group] | 54.9 | 20.0/4.8 | gi|50725174 | 37.3%/4 | Down | |
| SSC3-16 | hypothetical protein OsJ_04099 [Oryza sativa Japonica Group] | 51.9 | 80.6/10.1 | gi|222619550 | 14.6%/6 | Chloroplastic, anion transporter 3; have LRR and receptor kinase like domain; Alternate phosphate transporter 4 | Down |
| CBC3-43 | Putative malate dehydrogenaseOryza sativa (japonica cultivar -group) | 306 | 35.414/8.22 | Q6F361_ORYSA | 30%/12 | Down | |
| CBC3-44 | Putative malate dehydrogenase Oryza sativa (japonica cultivar -group) | 215 | 35.439/8.74 | Q94JA2_ORYSA | 22%/7 | Down | |
| CBC3-45 | Putative malate dehydrogenase Oryza sativa (japonica cultivar -group) | 103 | 35.414/8.22 | Q6F361_ORYSA | 12%/4 | Down | |
| CBC3-46 | Malate dehydrogenase cytoplasmic, Oryza sativa (japonica cultivar) | 221 | 35.415/5.75 | MDHC_ORYSA | 34%/17 | Down | |
| CBC3-47 | Putative malate dehydrogenase mitochondrial Oryza sativa (japonica cultivar -group) | 124 | 35.439/8.74 | Q94JA2_ORYSA | 12%/5 | Down | |
| CBW3 -24 | Os04g0174100 [Oryza sativa (japonica cultivar-group)] | 36.9 | 27.7/9.0 | gi|115457106 | 21.7%/4 | (CYP family, fragment) or tyrosine N-monooxygenase | Up |
| 4. Retrotransposons: | |||||||
| SS W3-7 | putative gag-pol polyprotein [Oryza sativa (japonica cultivar-group)] | 53.9 | 133.1/6.9 | gi|31126757 | 9.5%/8 | Up | |
| SS W3-8 | OSIGBa0146I21.3 [Oryza sativa (indica cultivar-group)] | 54 | 79.35/9.8 | gi|116309588 | 9.1%/7 | retrotransposon protein, putative, Ty1-copia subcla | Up |
| SS W3-11 | Hypothetical protein P0701E03.31.- Oryza sativa (japonica cultivar-group). | 18.3 | 6.77/4.7 | Q69YD6_ORYSA | 10.6%/1 | plant disease resistance polyprotein-like | up |
| 5. Transcription factors and DNA/RNA binding proteins: | |||||||
| CBC3-35 | Putative glycine rich protein 2 Oryza sativa-japonica; have four CCHC Zn fingers | 49 | 22.709/6.64 | Q6YUR8_ORYSA; BAD07599 | 5%/1 | Contain S1-like CSD; cold shock domain protein 1 | down |
| CBC3-41 | Os08g0518200 [Oryza sativa (japonica cultivar-group)] | 66.7 | 10.2/72.15 | gi|115477308 | 25.3%/12 | Mito transcription termination factor family -related protein | down |
| SS W3-14 | Zinc finger CCCH domain-containing protein 31 OS = O.sativa sub. japonica GN = Os04g0665700 PE = 2 SV = 1 | 51.3 | 32.338/10.4 | C3H31_ORYSJ | 29.4%/5 | up | |
| CBW3-4 | hypothetical protein OsI_09486 [O. sativa Indica]; C2H2 Zn-finger | 45.7 | 20.5/4.9 | gi|125541662 | 13.8%/5 | Low Similarity (44%) to Setaria Zn-finger prot 7-like | up |
| CBW3-25 | hypothetical protein [Oryza sativa Japonica Group] | 32.6 | 11.8/12.6 | gi|53793156 | 46.7%/4 | RNA binding glycine-rich protein like | up |
| 6. Signaling: | |||||||
| SSC3-22 | Os06g0146100 [Oryza sativa (japonica cultivar-group)] | 47.3 | 118.9/9.2 | gi|115466384 | 9.5%/9 | NBS-LRR disease resistant protein | down |
| SS W3-12 | Hypothetical protein OSJNBb0005A04.22.- Oryza sativa (japonica cultivar). | 59.8 | 51.87/11.2 | Q6EQ30_ORYSA | 25.9%/6 | calcineurin-like phosphoesterase-like | up |
| SS W3-13 | hypothetical protein OsI_14142 [Oryza sativa Indica Group] | 65.5 | 49.62/9.5 | gi|218194019 | 30.0%/12 | Putative receptor kinase (tyrosine) | up |
| SS W3-15 | Os09g0483100 [Oryza sativa (japonica cultivar-group)] | 59.3 | 15.076/4.2 | gi|115479825 | 65.2%/5 | Ca+2 binding EF-hand 5 motif prot | up |
| CBW3-1 | hypothetical protein - OSJNBa0016I09.17.- Oryza sativa (japonica cultivar) | 49.5 | 30.4/10.7 | Q5QNA8_ORYSA | 26.4%/5 | Similar to receptor like kinase | up |
| CBW3-10 | Phosphatidylinositol-4-phosphate 5-kinase 4, putative, expressed [Oryza sativa (japonica cultivar)] | 53.5 | 84.93/9.7 | gi|108708236 | 13.5%/8 | up | |
| 7. Energy balance: | |||||||
| SSC3-15 | Os02g0750100 [Oryza sativa (japonica cultivar-group)] | 57.2 | 26.2/4.8 | gi|115448701 | 23.5%/6 | H+ transporting ATP synthase, δ chain | down |
| SSC3-21 | putative inorganic pyrophosphatase [Oryza sativa Japonica Group] | 155 | 31.8/5.7 | gi|46805452 | 42.3%/14 | down | |
| CBC3-34 | AP003518 NID: Oryza sativa- japonica cultivar | 58 | 41.315/6.68 | BAD37348 | 6%/3 | Formate dehydrogenase, mitochondrial precursor | down |
| 8. Protein folding/de-folding and degradation: | |||||||
| SSC3-3 | putative Lon protease [Oryza sativa Japonica Group] | 33.1 | 96.9/7.0 | gi|50725794 | 6.9%/4 | down | |
| CBC3-42 | Putative peptidylprolyl isomerase Oryza sativa (japonica cultivar -group) | 140 | 26.574/9.37 | Q75M32_ORYSA | 24%/5 | down | |
| 9. Antioxidant proteins: | |||||||
| CBW3-28 | Os03g0285700 [Oryza sativa (japonica cultivar-group)] | 66.4 | 27.02/5.3 | gi|115452337 | 54.8%/10 | APx1 | up |
| CBW3-30 | Os05g0116100 [Oryza sativa (japonica cultivar-group)] | 141 | 23.44/5.8 | gi|115461741 | 41.8%/9 | GST_C family, DHAR | up |
| 10. Cell shape/cytoskeleton protein: | |||||||
| SSW3-6 | Os04g0538800 [Oryza sativa (japonica cultivar-group)] | 71.5 | 106.4/6.6 | gi|115459666 | 12.3%/8 | Similar to Kinesin heavy chain (fragment) | up |
| SSC3-5 | hypothetical protein OsI_28608 [Oryza sativa Indica Group] | 39.9 | 57.6/0.0 | gi|125560931 | 0.0%/3 | Similar to Transducin/WD-40 repeat protein-like | down |
| CBW3-3 | Hypothetical protein.-Oryza sativa (japonica cultivar-group). Os12g0465000 | 28 | 14.1/10.2 | Q2QRD6_ORYSA | 22.0%/2 | Similar (68% positives) to Saccharum hybrid R570, A0A059Q350 Acetylglucosaminyl transferase family protein | up |
| 11. mRNA processing: | |||||||
| CBC3-33 | Hypothetical Protein OJ1611_C08.15.-Oryza sativa (japonica cultivar -group) | 39 | 132.188/5.57 | Q6ZHF3_ORYSA | 1%/1 | UPF0614 C14orf102-like protein; have HAT and NRDE-2 domains | down |
| 12. Proteins with specific functions: | |||||||
| SSW3-9 | IAA-amino acid hydrolase ILR1-like 3 O.sativa sub japon ica GN = ILL3 PE = 2 SV = 1 | 47.8 | 44.07/5.4 | ILL3_ORYSJ | 23.0%/5 | up | |
| SSW3-10 | IAA-amino acid hydrolase ILR1-like 3 OS = Oryza sativa subsp. japonica | 47.4 | 44.07/5.4 | ILL3_ORYSJ | 17.0%/6 | up | |
| CBW3-2 | Salt stress-induced protein (Salt protein) (Protein mannose-binding lectin).- Oryza sativa | 72 | 15.03/4.9 | SALT_ORYSA | 45.8%/5 | up | |
aSpot No. generated by UMAX PowerLook 2100XL Image Scanner (v 6.0, GE Healthcare); Numbered spots correspond to the identified proteins,.refer the spots shown on the representative image in Fig. 7. bAccession number from NCBI database. SC, sequence coverage; Mr, theoretical Molecular weight; pI, theoretical Isoelectric point; Fold change refers to increased (Up) or decreased levels (down) of protein content from control to water-stressed seedlings. Fold change ± 2 was used as threshold for protein identification. Orthologues were obtained by using Uniprot protein sequence and BLAST.