Recent research suggests that soybean yield could be doubled in Brazilian conditions, implying that the base fertilization is pivotal, as it might influence chemical and microbiological soil indicators and, hence, the crop grain yield. The current study had the goal of assessing alterations in the chemical and microbiological soil indicators, in the short term, as well as the soybean biometric and grain yield performance as a function of different fertilizers for base fertilization, in two sowing periods. An experiment comprised of two sowing periods was carried out in the 2019/2020 season on a dystrophic Red Latosol, in north Parana state. Five treatments were assessed, comprising: 1) control; 2) mineral fertilizer; 3) organomineral fertilizer; 4) mineral fertilizer mixed with granulated gypsum; and 5) slow release mineral fertilizer. A randomized block design with four replicates was adopted. The following variables were assessed: chemical and microbiological soil indicators; final stand; first pod insertion height; plant height; stem diameter; number of pods per plant; number of grains per plant; number of grains per pod; grain mass per plant; and one thousand grain mass and grain yield. There is no base fertilization effect on the chemical soil indicators in the short term, however, there is an effect on the microbiological soil indicators. Soybean biometric and grain yield performance is decreased with the delayed sowing period, regardless of the type of fertilizer utilized for base fertilization. Analyzing a set of soil quality indicators enables precise and judicious results to be gathered on management practices in the soil environment.