Anaerobic digestates derived from agricultural mesophilic biogas plants are mainly used as organic fertilizers. However, animal derived pathogens could persist in the anaerobic digestates (ADs) posing an epidemiological risk. The present study investigated whether storage of ADs could reduce Salmonella Typhimurium, Listeria monocytogenes, and ESBL carrying Escherichia coli and whether reduction rates are dependent on temperature and substrate. Quantified bacterial suspensions were used to inoculate ADs derived from five biogas plants using different input materials to investigate the substrate dependence of the pathogen reduction. ADs were stored over six months with four different temperature profiles each representing six consecutive months, and, thus, the four seasons. Pathogen reduction during storage was shown to be strongly dependent on the temperature but also on the type of AD. This influence was higher at low temperatures. At higher temperatures (spring and summer profiles), a 5-log reduction was achieved after twelve weeks for S. Typhimurium, after twenty weeks for E. coli (ESBL) and after twenty-four weeks for L. monocytogenes in all ADs, respectively. In contrast at lower temperatures (autumn and winter profiles), a 5-log reduction was reached after twenty-four weeks for S. Typhimurium and not reached for ESBL-E. coli and L. monocytogenes. In conclusion, storing the ADs after the biogas process improves the hygienic quality and reduce the risk of introducing pathogens to the environment, but each case should be evaluated individually considering the composition of the ADs and the storage temperatures.

In the case of a notifiable animal disease like salmonellosis, manure is contaminated and must be disinfected. This can be performed using heat measures, chemical disinfectants, or long-term storage. All these measures bring along severe economic, ecological, and logistical problems. The aim of this study was to evaluate lactic acid fermentation (LAF) as an alternative disinfection method. Fermentation was started by adding a carbohydrate source to the manure and creating anaerobic conditions. For testing, cattle manure was enriched with different carbohydrate (CHO) sources and spiked with Salmonella Typhimurium (S. Ty.). The samples were incubated at 10 °C and 21 °C for 111 days (Exp1) and at 21 °C for 50 days (Exp2). The microbial shift was determined using cultural methods and MALDI-TOF. Both the change in pH and Enterococcus spp. were tested as suitable indicators. The results showed the different suitability of the selected CHO for hygienization by LAF. Using squeezed oat as an additive, S. Ty was reduced to below the detection limit under both temperature conditions within 21 days and 14 days. Additional saccharose decreased the reduction time. This study showed that LAF is a valuable alternative for disinfecting cattle manure in the case of bovine salmonellosis. Using this method, both manure and feed residues can be treated in one approach and afterwards be used as fertilizer.