The time- and spectral-resolved set-up for measurements of weak infrared luminescence of photosensitizers (PSs) and singlet oxygen using optical lightguides was used on skin of laboratory animals in vivo. Wistar rats with abdominal incisions treated by methylis aminolevulinitis (MAL) were used as a model. A control group of animals with abdominal incisions was also tested. Spectrally resolved fluorescence of the PS was acquired during the treatment from the same spot. The intensity and spectral profile of the fluorescence signal from the skin can be used to guide the detection setup to the investigated spots in the lesion. The rate of bleaching of Protoporphyrin IX band and appearance of a band of its photoproducts during the treatment can be characterized by the exposition ED, under which the latter becomes dominant feature in fluorescence spectrum. ED value differs statistically significantly between the normal skin and the lesion treated by MAL. No direct proportionality was found between the fluorescence signal and singlet oxygen production. Nevertheless, the strong fluorescence signal is necessary but not a sufficient condition for higher singlet oxygen production in vivo. ED value correlates rather well with production of singlet oxygen, but differently in lesion and normal skin. Lifetimes of singlet oxygen differ between spots outside and in the lesion. PS triplet state lifetimes exhibit weak difference between spots treated and untreated by MAL.