Research on the Rice Proteome: The Contribution of Proteomics Technology in the Creation of Abiotic Stress-Tolerant Plants

Komatsu, Setsuko

doi:10.1007/s12284-008-9013-8

Rice

Table 1 Differential Display Proteome Analysis of Abiotic Stress Treatments in Rice

From: Research on the Rice Proteome: The Contribution of Proteomics Technology in the Creation of Abiotic Stress-Tolerant Plants

Identified proteins
Genotype	Growth stage, tissue	Treatment	Stress duration	Proteomic approach	T value	C value	Major result	References
Drought stress
Nipponbare, Zhonghua (T)	Leaf sheath	Progressive water	2 to 6 days	2D-PAGE/sequencing	12	12	Up-regulation of actin depolymerizing factor	[4]
CT9993 (T), IR62266	Leaf	Progressive water (23 days)/recovery (10 days)		2D-PAGE/MALDI-TOF, Q-TOF MS	42	16	Stressed leaf WP = −2.4 Mpa/up-regulation of S-like RNase, actin depolymerizing factor and down-regulation of isoflavone reductase-like protein	[49]
Salt stress
Nipponbare	Root (20 days seedling)	150 mM NaCl	0, 10, 24 h	2D-PAGE, Pro-Q diamond/MALDI-TOF MS	214	28	Pro-Q diamond was used to study phosphoproteome. About 214 proteins were detected as phosphoproteins	[8]
IR651 (T)	Root (8 weeks)	100 mM NaCl	2 weeks	2D-PAGE/MALDI-TOF MS	164	24	Plasma membrane-associated protein was used. 1,4-Benzoquinone reductase, remorin and hypersensitive induced response protein were identified as salt responsive proteins	[42]
Nipponbare, Pokkali (T)	Leaf sheath	50, 100, 150 mM NaCl	6 to 48 h	2D-PAGE/Sequencing	8	5	IR36 was analyzed/coordinated response of different parts of the rice to NaCl	[1]
Nipponbare	Root	150 mM NaCl	24, 48, 72 h	2D-PAGE/MALDI-TOF MS	54	12	Several novel salt responsive proteins like α-NAC, COX6b-1, UGP	[57]
Nipponbare	Leaf	130 mM NaCl	4 days	2D-PAGE/LC MS/MS	55	33	Hydroponic culture system is best suited for proteomics of salt stress in rice seedling	[26]
IR4630 (M)	Leaf lamina	50 mM NaCl	1, 7 days	2D-PAGE/MALDI TOF-TOF MS	32	11	More responsive proteins in long- compare to short-term stress/defining threshold value to screen significant changes	[44]
IR651 (T)	Young panicle	70 mM NaCl	10 days	2D-PAGE/MALDI TOF-TOF MS	13	13	Constitutive high expression and/or up-regulation of ROS scavenging enzymes	[12]
Cold stress
Doongara (S)	Anther/trinucleate stage	12°C	4 days	2D-PAGE/MALDI-TOF MS	70	18	Chilling temperature stress at the young microspore stage enhances and induces partial degradation of proteins	[22]
NA	Leaf	15°C	24 h	2D-PAGE/MALDI-TOF, Q-TOF MS	60	41	43% of identified proteins were located in chloroplast. So chloroplast proteome is virtually subjective to cold stress	[9]
Doongara (S), HSC55 (T)	Anther/young microspore	12°C	1, 2, 4 days	2D-PAGE/MALDI-TOF, Q-TOF MS, sequencing	37	16	The specific expression of responsive proteins tolerant compare to susceptible cultivar	[23]
Nipponbare	Leaf	6°C for 6, 24 h/24 h recovery		2D-PAGE/MALDITOF-TOF MS	96	85	mRNA level of stress responsive genes was not correlated well with the protein level	[58]
Nipponbare, Kitaibuki (T), IR36, Er Jiu-Qing, Jamura, Kele (S)	Leaf	1, 5, 15°C	6 h	³²P-labeling, 2D-PAGE/sequencing	50	10	³²P-labeling was used to study phosphoproteome. Out of 10 cold responsible proteins, RuBisCO large-subunit was identified	[30]
Nipponbare, Kitaake (T), Basmati 370 (S), transgenic (T)	Leaf sheath	4°C	24 h	2D-PAGE/MALDI-TOF MS, sequencing	456	6	As transgenic rice, over-expression of CDPK13 and CRTintP1 was used. These two genes were binding to calreticulin	[34]
Nipponbare	Basal part of leaf sheath	4°C	48 h	2D-PAGE, lectin blot/MALDI-TOF MS	250	22	To analyze the glycosylation during cold stress, lectin blot was used	[33]
Nipponbare	Leaf blades, leaf sheath, root	4°C	48 h	2D-PAGE, RuBisCO removing/LC MS/MS	400	39	Antibody-affinity column was prepared to trap RuBisCO large subunit, and 4 proteins were newly detected after cold stress	[20]
Dondjin	Leaf	5, 10°C	24, 72 h	2D-PAGE, RuBisCO removing/MALDI-TOF MS, ESI MS/MS		12	Fractionation by PEG was used to trap RuBisCO large subunit	[37]
Dondjin	Root	10°C	24, 72 h	2D-PAGE/MALDI-TOF MS, ESI MS/MS	600	27	Acetyl transferase, phosphogluconate, NADP-specific isocitrate dehydrogenase, fructokinase, PrMC3, alpha-soluble N-ethylmaleinmide-sensitive factor attached protein and glyoxalase were found as cold responsive proteins	[38]
Ozone stress
Nipponbare	Leaf	0.2 ppm Ozone	24, 48, 72 h	2D-PAGE/Sequencing	52	37	Reduction in RuBisCO and induction of various defense/stress related proteins	[2]
Koshihikari	Leaf	5, 40, 80, 120 ppb	9 days	2D-PAGE/sequencing, MALDI-TOF MS	300	20	PR5, PR10 and RSPR10 were significantly induced after 2 days exposure	[15]
Other stresses
Hwayeong	Germinating seed	0.2 to 1.5 mM Copper	4 days	2D-PAGE/MALDI TOF MS	25	25	The majority of these proteins were antioxidants or stress-related regulatory proteins	[3]
Nipponbare, Zhonghua (T)	Basal part of leaf sheath	0 to 1,000 mM mannitol	0 to 120 h	2D-PAGE/sequencing, MALDI-TOF MS	327	15	Heat shock protein and dnaK-type molecular chaperone were induced under osmotic, cold, salt, drought and ABA were reduced, whereas 26S proteasome regulatory subunit was found to be responsive only to osmotic stress	[59]
Nipponbare	Leaf sheath	Water (wound)	0, 12, 24, 48 h	2D-PAGE/Sequencing, MALDI-TOF MS	29	12	Identification of wound responsive proteins including Bowman-Birk trypsin inhibitor, receptor-like protein kinase, and calmodulin-related protein	[52]
Multiple stresses
Nipponbare	leaf sheath, leaf blade, root	50 mM NaCl (salt), 12°C (cold)	24 h	³²P-labeling, 2D-PAGE/MALDI-TO, Q-TOF MS	4, 4	2, 3	Regulation of phosphorylation was studied	[24]
Nipponbare	Root	100 mM NaCl (salt), drought, 100 μM ABA	15 h	2D-PAGE/sequencing	300	13	RSPR10 was a novel rice PR10 protein, which was rapidly induced in roots by salt and drought stresses	[19]

S Sensitive, T tolerant, T total, C changed by stress

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