The evolution of S-nitrosylation detection methodology and the role of protein S-nitrosylation in various cancers

Liang, Feng; Wang, Min; Li, Jiannan; Guo, Jie

doi:10.1186/s12935-024-03568-y

Cancer Cell International

Table 1 Summary of advantages and disadvantages of commonly used methods for identifying SNO-modified proteins

From: The evolution of S-nitrosylation detection methodology and the role of protein S-nitrosylation in various cancers

Author	Method	Specific changes	Advantage	Disadvantage	References
Chao et al	Adjust the reaction time and drug dosage in BST method	Increase the time for precipitation reaction	Increase the precipitation ratio of SNO protein	NA	[73]
Koning et al		Reduce the reaction dose of HPDP	Save reagent raw materials and economic costs	NA	[76]
Soonnarong et al		Reduce the temperature during the seal reaction	NA	NA	[77]
Firdaus et al		Increase the time for precipitation reaction	Increase the precipitation ratio of SNO protein	NA	[74]
Lv et al		Reduce the temperature during the seal reaction	NA	NA	[78]
Okuda et al		Increase the temperature during the seal reaction	NA	NA	[79]
Rizza et al		Increase the time for precipitation reaction	Increase the precipitation ratio of SNO protein	NA	[75]
Chen et al	Improve BST method by using novel reagents	Iodoacetamide replace MMTS S-alkylation reagents replace ascorbic acid	Enhance the specific recognition efficiency of SNO-modified proteins	Experimental costs are higher than traditional BST methods	[80]
Han et al		Urea replace SDS	Enhance the opening of protein structure and improve the sealing effect of MMTS	NA	[81]
Martinez-Ruiz et al		Establishment of a positive negative control group	Improve the detection efficiency and sensitivity	Cumbersome experimental steps and waste of samples	[47]
Wang et al		Add copper ions	Enhance SNO-modified protein reduction efficiency	NA	[82]
Hao et al		Add trypsin	Enhance the sensitivity of identifying endogenous SNO active sites	The primary sequence characteristics of SNO protein have not been clearly identified	[83]
Camerini et al		His-tag replace HPDP	Simplify the purification process	NA	[84]
Benhar		Thioredoxin-Trapping Mutant replace HPDP	Higher sensitivity	Lower specificity	[85]
Ben-Lulu et al		Thioredoxin-Trapping Mutant replace HPDP	Higher accuracy	NA	[86]
Huang et al		Biotin-PEO-maleimide (IBP) replace HPDP	Eliminate interference from intermolecular disulfide bonds	Increase in experimental steps and costs	[87]
Chen et al		Add DTT, TCEP	Improve the purification efficiency of biotin labeling	False positive results	[42]
Yi et al		IBP	Increase the precipitation ratio of SNO protein	NA	[88]
Gao et al		IBP	Increase the precipitation ratio of SNO protein	NA	[89]
Doulias et al	Improvement of enrichment steps and enrichment materials (resin) in BST method	Phenylmercury resin replace agarose beads	Lower cost and higher efficiency	NA	[90]
Faccenda et al		Gold nanoparticles replace agarose beads	Higher sensitivity	Interference of free thiol bonds	[91]
Ibanez-Vea et al		CysPAT replace HPDP and titanium dioxide chromatography replace agarose beads	Lower experimental cost Higher enrichment efficiency	NA	[92]
Gu et al		OxcyscPILOT	Higher detection efficiency	NA	[93]
Guo et al		Resin assisted enrichment replace agarose beads	Reduce endogenous biotin interference	False positive identification caused by free thiol bonds	[94]
Forrester et al		SNO-RAC	Simplify sample processing and reduce protein loss	NA	[95]
Shin et al		SNO-RAC	Reduce the reaction dose of ascorbic acid	NA	[96]
Thompson et al		SNO-RAC	simplify the purification steps of peptide segment	NA	[97]
Derakhshan et al	Mass spectrometry	SNOSID-MS	SNOSID prioritizes identifying specific subgroups of SNOCys sites with higher activity	The sample suffers excessive loss during the experimental process	[98]
Zhang et al		FluoroTRAQ	Reduce the interference of free thiol bonds	NA	[68]
Qu et al		IodoTMT switch assay	Higher sensitivity	High experimental costs	[100]
Chung et al		Parallel dual labeling strategy	Higher sensitivity	NA	[101]
Ong et al		SILAC	Improve sensitivity of endogenous SNO-modified protein detection	NA	[102]
Sircar et al	Spin-trapping method	DMPO, no reducing agents	Efficient and convenient Higher reproducibility	NA	[57, 103]
Chen et al	Physical biology technology	X-ray analysis, nESI-MS	Clarify the specific three-dimensional structure of SNO sites	Higher experimental instrument cost	[104]
Wang et al	Microfluidic technology	Two-dimensional micro electrophoresis and microfluidic technology	Rapid batch detection of SNO protein microchips	NA	[105]
Xu et al	SNO predictor	iSNO-AAPair predictor	Higher identification accuracy	Neglected the internal correlation of amino acid position distribution	[106]
Li et al		computer algorithm predictor	Improve the detection accuracy Save time and economic cost	NA	[107]
Xu et al		iSNO-PseAAC predictor	Convenient and fast identification	NA	[108]

NA: none

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ISSN: 1475-2867

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