Microalgae-bacteria biomass cultured in wastewater is an interesting renewable material capable of metabolising nutrients from wastes into carbohydrates, proteins, and lipids through photosynthesis. Despite the interest in the valorisation of this biomass to improve the viability of microalgae-based wastewater treatment processes, very scarce research has been devoted to the fractional recovery of its components. This work evaluates the effect of different pretreatments coupled with enzymatic hydrolysis on the solubilisation of biomass components and on the recovery of fermentable monosaccharides (glucose and xylose) from Scenedesmaceae based biomass grown in a thin layer reactor feed with piggery wastewater.Chemical pretreatments generated high concentrations of byproducts, mainly organic acids. No bacterial DNA was found in these pretreated biomasses. The acid pretreatment provided the highest carbohydrate solubilisation (98%) and monosaccharide recovery (81%). Enzymatic hydrolysis coupled with alkaline NaOH 2 M pretreatment achieved almost complete solubilisation of the biomass components, but high carbohydrate losses.Physical pretreatments remarkably increased the solubilisation of the biomass components during the enzymatic hydrolysis step, especially bead milling, which achieved solubilisation yields of 83% of carbohydrates, 43% of proteins, and 60% of lipids. The presence of viable bacteria in these pretreated biomasses could be related to the high carbohydrate losses and the generation of methanol and ethanol in addition to organic acids as byproducts.