A study has been carried out on the acid soluble fraction (hydrosysis at pH 1.5, 3N HCl, 20 % KCl) of organic matter (OM) in the highly calcareous lacustrine sediments of the Jura region, France. Amino acids (AA's) were quantified and determined ninhydrin photometry and HPLC respectively. There was a high degree of interference by calcium in both procedures. The mechanism of interference is explained and methodology adopted to overcome it, by removal of calcium, are dealt with. The results of both methods are compared.