Summary Peatlands are an important component of the global carbon cycle because they comprise huge amounts of terrestrial carbon (C). Different conditions during peat formation and secondary peat decomposition affect the quantity and composition of soil organic matter (SOM) in peats. There are few comparative studies on the chemical composition of SOM in temperate peatland soil. This study investigates compositional changes of SOM functional groups in peats and corresponding peat‐forming plants by Fourier transform infrared (FTIR) spectroscopy. Three plant samples and 29 peat samples were taken from seven temperate peatland sites with different genesis and land‐use intensity. Site‐specific differences, such as genesis of the peat, were found to be reflected in the FTIR spectra. In general, there was more variation in FTIR spectra in samples from fens than in those from bogs and peat‐forming plants. The samples from fens have a smaller C–H absorption band than those from bogs and plants, which reflects greater biochemical activity in the minerotrophic than ombrotrophic environments. In addition to peat genesis, drainage and secondary peat decomposition also affect SOM composition substantially. The larger amounts of aliphatic compounds in undrained peats could be explained by selective preservation caused by anaerobic conditions. With increasing drainage of the sites, there was a decrease in the C–H absorption that was accompanied by a relative increase in C=O absorption. These changes in absorption intensities reflect the enhanced aerobic decomposition and mineralization that accompanies drainage and land‐use intensity. However, the ‘degree of peat decomposition’, a diagnostic tool used in the field, is not reflected by OM composition determined by FTIR spectroscopy. Our results contribute to further understanding of changes in SOM composition during peat formation and processes of secondary decomposition caused by drainage.

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