Although, LC-MS is one of the most sensitive and selective analytical techniques, it often suffers from matrix effects, especially when using ESI for analyzing extracts of complicated matrices [1][2][3]. Matrix effects are often caused by the alteration of ionization efficiency of target analytes in the presence of co-eluting compounds in the same matrix. Matrix effects can be observed either as a loss in response (ion suppression) or as an increase in response (ion enhancement). Both the ion suppression and enhancement dramatically affect analytical performance of a method [4]. Therefore, matrix effects must be evaluated when validating an LC-MS method. Since, matrix effects were first observed, efforts have been devoted to understanding the mechanisms and minimizing them [5][6][7][8]. In this commentary article, the causes of matrix effects and methods for evaluating, minimizing and/or compensating for them are discussed. A novel concept, matrix effect factor (MEF) using stable isotopically labeled internal standards (SIL-ISs) is introduced and its application is presented. Since, SIL-ISs are usually added in the very beginning of the sample preparation procedure to compensate for matrix effects and recovery, the MEF reflects any loss/gain from both the sample preparation and 'conventional' matrix effects caused by co-eluting components during ionization in a mass spectrometer (MS) ion source.
The causes of matrix effectSince, matrix effects were first observed for ESI MS in 1990s, several mechanisms have been proposed [5,6,9,10]. These include matrix components preventing analyte from gaining access to the charge, competing with analytes to gain charge, interfering with analyte's ability to remain charged in the gas phase, increasing surface tension of droplet or increasing electric resistance. Although, the exact mechanisms of matrix effects are still not fully understood, it has been widely accepted that the co-eluted matrix can alter ionization efficiency of target analytes and influence signal intensity due to the competition for the available charges and for the access to the droplet surface for gas-phase emission during the electrospray process [7,8]. Therefore, any process that changes the ionization efficiency and occurs in the liquid phase and gas phase, will cause matrix effects. For example, some studies showed that the presence of interfering compounds at a higher concentration could increase the viscosity and the surface tension of the droplets, which change the efficiency of their formation and evaporation. The changes in liquid phase could result in the alteration of the amount of charged ions in the gas phase. In addition, matrix components or mobile-phase additives that act as ion-pairing reagents usually reduce ionization efficiency and result in low response [9].Based on the available literature and our experiences, atmospheric pressure chemical ionization (APCI) and atmospheric pressure photoionization (APPI) sources have less matrix effects than an ESI source, because APCI utilizes gas-ph...