The effect of plastic and methanol on the loss of microcystin-LR from solution was analysed by HPLC with photodiode array detection (HPLC-PDA). With plastic disposable pipette tips, the loss from an aqueous microcystin-LR (MC-LR) solution was 4.2% per tip operation. Using the same pipette tip, four operations were required to completely saturate a single tip with toxin. MC-LR attached to plastic pipette tips could subsequently be eluted by methanol and detected by HPLC-PDA. At methanol concentrations below 25% (v/v), recovered concentrations of MC-LR decreased significantly. Differences in MC-LR concentration were also noted by performing 50% dilution with Milli-Q water or methanol. The results are discussed in relation to the hydrophobicity of MC-LR, analytical procedures and the avoidance of toxin losses from solution during laboratory manipulations.