This paper analyses the impact of the increased use of natural organic materials (NOMs) from Suwannee River (USA). Aqueous solutions were contacted with clays materials to study their specific adsorption and/or possible alteration by combined high resolution ICR-FT (soluble NOMs) and FTIR (sorbed NOMs). The present study aims at initializing research with ICR on the effect of clays and three-dimensional porous materials in selectively sorbing molecules and fragments contained in various NOMs. In the presence of clays minerals, new techniques have been developed to study NOM interaction behaviour with clays. When soluble NOMs are in contact with natural clay minerals or with selected (meso-) porous synthetic materials, they are often selectively adsorbed in these substrates, so that their analysis before and after contact may help to understand the complex natural processes and further give hints for possibilities to use similar or other synthetic inorganic surfaces to monitor and control such modifications in relation to their bio-active significance. While clays retain aromatic molecules through an original mechanism, materials adsorb less bulky compounds, due to their shape and selective properties.