In a recent issue of Arthritis Research & Therapy, Raijmakers and colleagues 1 use an unbiased approach via mass spectrometry to identify candidate citrullinated peptides that have the potential to be involved in rheumatoid arthritis (RA). By sampling synovial fluid from a number of patients with RA as well as from non- RA disease control subjects, the authors demonstrate that it is possible to broaden the arsenal of potential autoantigenic peptides that deserve further investigation as candidate B- or T-cell epitopes in the setting of anticitrullinated protein antibody (ACPA)-positive RA disease.

Why citrullination, a common physiological protein modification, is regarded as such a threat to the immune system in patients with RA and causes more than 60% of patients to mount autoantibody titers (ACPA) remains an enigma. One underlying reason is the strong bias toward a certain set of HLA class II alleles that are very capable of presenting this altered amino acid 23, but that is not enough. In fact, most individuals carrying the HLA shared epitope alleles do not develop RA. Clearly, these autoimmune reactions must be triggered, and here environmental provocations (smoking, bacterial infection in the gum, and so on) have become an intriguing hypothesis (reviewed in 4).

A central function of citrullination is to contribute to structure (for example, in the skin, hair follicles, central nervous system, and histones). Another, partly related, function is to destabilize proteins and mark them for degradation. In most cases, the regulated step in degradation of proteins is initial cleavage followed by rapid removal of the degradation products. The commonality of ACPAs in patients with RA suggests that citrullinated proteins are readily exposed to the immune system. Indeed, citrullinated proteins are found and even abundant at many sites of inflammation 5. ACPA targets are probably a mix of degradation products and secreted or cell-bound proteins 67. In their study, Raijmakers and colleagues demonstrate that synovial fluid of patients with RA and, to lesser degree, that of disease control subjects accumulate fibrinogen degradation products and that the peptides thereof are citrullinated (to a small but significant degree).

In the last few years, several studies that present either improved methods for the identification of citrullinated peptides or new citrullinated targets present in biological tissues have been published (reviewed in 8). Citrullination of arginines can easily be confused with deamidation of asparagine or glutamine, and this potential confusion makes correct assignments of citrullinated peptides very important. The present study illustrates several characteristics that are diagnostic for citrulline species, such as a decrease in the precursor charge state, shifts in retention time when reverse-phase chromatography is used, and changes in the relative abundance of the ions in tandem mass spectrometry. With this approach, citrullinated peptides from a variety of sources 910 can be identified and validated.

The next step is to evaluate whether these 'suspects' are indeed involved in immune reactions and, if so, the nature of these responses. Understanding the chronic autoimmune reactions in affected joints may hold critical clues toward ways of reversing them and re-establishing a tolerogenic state.

An even broader vision of current RA research entails preventive measurements toward disease development. Dissecting disease-initiating events (since ACPAs appear before clinical onset) will require access to different material from subjects at risk of disease. Time will tell what technical platforms will help us dissect ACPA targets in this setting. Clearly, unbiased approaches such as the one described in the present study are very attractive.

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