Succinyl-proteome profiling of a high taxol containing hybrid Taxus species (Taxus × media) revealed involvement of succinylation in multiple metabolic pathways

Abstract

Protein lysine succinylation, a ubiquitous protein post-translational modification among eukaryotic and prokaryotic cells, represents a vital regulator of various metabolic processes. However, little is known about its functions and cellular distribution in Taxus × media, which is a hybrid Taxus species containing a high content of taxol. In this study, LC-MS/MS was used to identify peptides enriched by immune-purification with high-efficiency succinyl-lysine antibody. A total of 193 succinylated proteins and 325 succinylation sites were identified. The bioinformatics analysis indicated that these succinylated proteins were involved in a wide range of cellular functions from metabolism to protein binding and showed diverse subcellular localizations. Furthermore, our findings suggested that lysine succinylation in Taxus × media involved a diverse array of metabolic processes and protein–protein interactions. Many enzymes involved in multiple metabolic pathways, such as glycolysis, pyruvate metabolism, the tricarboxylic acid cycle and carbon fixation, were identified as substrates for lysine succinylation, suggesting the presence of a common mechanism underlying the participation of succinylation in metabolic regulation. These results provide the first comprehensive view of the succinylome of Taxus × media and may catalyze future biological investigation of succinylation.

Integrated Succinylome and Metabolome Profiling Reveals Crucial Role of S-Ribosylhomocysteine Lyase in Quorum Sensing and Metabolism of Aeromonas hydrophila*

“…Gene Ontology Categories and Bioinformatics Analyses-Gene Ontology (GO) terms for the identified proteins were assessed by querying the UniProt-GO Annotation database (http://www.ebi.ac.uk/ GOA) (29). Amino acid sequence motifs comprising at least 20 amino acids within Ϯ 10 residues of the succinylated lysine sites were analyzed using the web-based Motif-X program (http://motif-x.med.…”

Succinyl-proteome profiling of Dendrobium officinale, an important traditional Chinese orchid herb, revealed involvement of succinylation in the glycolysis pathway

“…Peptide separation was carried out using an Acclaim PepMap RSLC reversed-phase analytical column (Thermo Scientific, Shanghai, China). The LC-MS/MS analysis was performed following the procedure described by our previous publication [ 18 ].…”

“…Since first being verified in three Escherichia coli proteins [ 9 ], succinylation profiles have subsequently been identified in animal tissues [ 12 ]. Recently, lysine succinylation has also been widely investigated in various organisms, including bacteria ( Vibrio parahemolyticus , Corynebacterium glutamicum and Mycobacterium tuberculosis ), fungi ( Saccharomyces cerevisiae ), protozoa ( Toxoplasma gondii ), plants ( Solanum lycopersicum , Taxus × media and Oryza sativa ) and mammals ( Rattus norvegicus , Homo sapiens and Mus musculus ) [ 7 , 13 – 18 ]. Emerging evidence shows that lysine succinylation is involved in metabolism regulation, especially that of glycolysis, the citrate cycle (TCA) and carbohydrate metabolism [ 19 ].…”

“…In different organisms, most TCA cycle-related enzymes are succinylated [ 7 , 16 ]. For example, IDH1, a key enzyme that catalyzes the rate-limiting step of the TCA cycle, was identified as a succinylated protein in both microbes and mammals, indicating a potential conserved function for succinylation in the regulation of the TCA cycle [ 7 , 18 , 20 ].…”

The Effects of Storage on Platelet Proteome Assessed by Protein Expression Changes and Lysine Modification Changes Using Tmt Isobaric Labeling

“…Interestingly, protein lysine succinylationis preferred in protein biosynthesis and carbon metabolisms, such as the tricarboxylic acid (TCA) cycle and fatty acid metabolism [26]. Even though Ksucc has been broadly investigated and validated in various organisms [27], limited has been explored in the context of platelet storage, which may involve substantial metabolic changes.…”