Dataset Information

Trapping carbon dioxide on Arabidopsis proteome

ABSTRACT: Carbon dioxide is vital to the chemistry of life processes including including metabolism, cellular homeostasis, and pathogenesis. CO2 forms carbamates on the neutral N-terminal a-amino- and lysine e-amino-groups that regulate the activities of ribulose 1,5-bisphosphate carboxylase/oxygenase and haemoglobin, however, very few protein other carbamates are known. Tools for the systematic identification of protein carbamylation sites have not been developed owing to the reversibility of carbamate formation, and in consequence carbamylation is typically overlooked. Here we demonstrate methods to identify protein carbamates using triethyloxonium ions to covalently trap CO2 on proteins for proteomic analysis. Our method delivers evidence to support the hypothesis that carbamylation is widespread in biology, and understanding its role should significantly advance our understanding of cellular CO2 interactions.

INSTRUMENT(S): LTQ Orbitrap Elite

ORGANISM(S): Arabidopsis Thaliana (mouse-ear Cress)

TISSUE(S): Plant Cell, Leaf

SUBMITTER: Victoria Linthwaite

LAB HEAD: Martin Cann

PROVIDER: PXD007753 | Pride | 2018-10-23

REPOSITORIES: Pride

ACCESS DATA

Publications

The identification of carbon dioxide mediated protein post-translational modifications.

Linthwaite Victoria L VL Janus Joanna M JM Brown Adrian P AP Wong-Pascua David D O'Donoghue AnnMarie C AC Porter Andrew A Treumann Achim A Hodgson David R W DRW Cann Martin J MJ

Nature communications 20180806 1

Carbon dioxide is vital to the chemistry of life processes including metabolism, cellular homoeostasis, and pathogenesis. CO2 is generally unreactive but can combine with neutral amines to form carbamates on proteins under physiological conditions. The most widely known examples of this are CO2 regulation of ribulose 1,5-bisphosphate carboxylase/oxygenase and haemoglobin. However, the systematic identification of CO2-binding sites on proteins formed through carba ...[more]

PMID: 30082797

Similar Datasets

Project description:Protein lysine residue carbamylation is an irreversible post-translational modification, resulting in the generation of protein-bound homocitrulline (N--carbamyllysine). Carbamylation alters protein structure and can thus also alter protein function because of the loss of the charged -amino lysine moiety. Two distinct pathways can promote protein carbamylation. The first pathway occurs as a result of urea decomposition forming an equilibrium mixture of cyanate (CNO-) and the reactive electrophile isocyanate; the second (enzymatic) pathway occurs from myeloperoxidase (MPO)–catalyzed oxidation of thiocyanate (SCN-), yielding CNO- and isocyanate. We and others have previously shown that apolipoprotein A-I (apoA-I), the major protein constituent of high density lipoprotein (HDL), is a target for MPO-catalyzed modification in vivo altering its function, converting the traditionally cardio-protective lipoprotein into a pro-atherogenic and pro-apoptotic one. We hypothesized that insights into the chemical environment within the human artery wall could be gained by monitoring site-specific carbamylation patterns of apoA-I recovered from human atherosclerotic aorta. Toward testing this hypothesis, we first mapped and quantified carbamyllysine obtained from in vitro carbamylation of apoA-I by: (i) the urea driven (cyanate) vs. the inflammatory driven (MPO) pathways; as well as (ii) in lipid-poor vs. lipidated apoA-I (reconstituted nascent HDL). Our in vitro studies, interpreted in the context of existing structural models, suggest lysine residues within regional proximity of the known MPO binding sites on HDL are preferentially targeted by the enzymatic (MPO) carbamylation pathway, whereas the non-enzymatic (cyanate) pathway leads to nearly uniform distribution of carbamylated lysine residues along the apoA-I polypeptide chain. Quantitative proteomic analyses of apoA-I recovered from human aortic atheroma identified 16 of the 21 total lysine residues as carbamylated and suggests that the majority of apoA-I carbamylation in vivo occurs via the non-enzymatic cyanate pathway, and on ‘lipid-poor’ apoA-I forms. Monitoring the patterns of post translational modification of apoA-I lysine residues in vivo can provide insights into the chemical environment within human atheroma.

Project description:Insufflation of the colon, usually with room air, is necessary to distend the lumen for exploration. Carbon dioxide (CO2) insufflation instead of room air insufflation (AI) has been shown to decrease symptoms of abdominal pain or discomfort during the procedure and particularly during the following 24 hours. CO2 is is rapidly absorbed by the intestinal mucosa and exhaled through respiration. AI colonoscopy has usually been the reference standard to compare colonoscopy using CO2 insufflation. In two recent articles AI was compared to either CO2 insufflation and Water-aided colonoscopy (WAC), which entails infusion of water to facilitate insertion to the cecum. WAC can be categorized broadly in Water Immersion (WI) and Water Exchange (WE). In WI water is infused during the insertion phase of colonoscopy, with removal of infused water predominantly during withdrawal. Occasional use of insufflation may be allowed. WE entails complete exclusion of insufflation, removal of residual colonic air pockets and feces, and suction of infused water predominantly during insertion to minimize distention. During the withdrawal phase insufflation is used to distend the colonic lumen. In the WAC arms of the two mentioned articles the insertion method used was WI, with infusion of water at room temperature or at 37°C. During withdrawal, air insufflation or either air or CO2 insufflation were employed. Compared to AI, CO2 insufflation and WI (using room air insufflation or CO2 insufflation during withdrawal) were effective in both studies in decreasing sedation requirement, pain and tolerance scores, with patients’ higher willingness to repeat the procedure. Until now no direct comparison has been made within a single study about pain score during colonoscopy using AI, CO2 insufflation, WI/CO2, WE/CO2, WI/AI and WE/AI. In this study we test the hypothesis that, compared to AI, CO2 insufflation and WAC/CO2-AI methods will decrease pain score during colonoscopy, with reduction of sedation requirement, and that WE will achieve the best result. This comparative study has also the aim to test the respective peculiarities of each method.

Dataset Information

Trapping carbon dioxide on Arabidopsis proteome

Publications

The identification of carbon dioxide mediated protein post-translational modifications.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure