Soybean [Glycine max (L.) Merr.] plays a critical role in global food security and sustainability, acquiring most of the nitrogen (N) required for growth and high-protein seeds from symbiotic N fixation (SNF). However, there is scarce information on how soil N supply interacts with N fixation (kg ha−1) throughout the growing season. This study aims to (1) evaluate the allometric relationships between the total N uptake and dry matter by N source (soil and fixation), (2) describe seasonal changes on soil-plant N dynamics among genotypes with contrasting genetic background (released between 1981 and 2019), and (3) assess the influence of soil NO3 and NH4 on the temporal SNF changes during the growing season. Four genotypes were field grown during 2019 and 2020. Bayesian non-linear models described seasonal change on dry matter, N uptake, soil NO3, and NH4 (60 cm depth). The allometric relationship between N uptake and dry matter indicated that total N status is more sensitive to variations in N uptake from the soil than from fixation. Seasonal exposure to NH4 (given by the area under the curve) and a delay on maximum NO3 availability from early to mid-season suppressed end-season N fixation by two-fold the benefit on soil N uptake (kg ha−1). Both the magnitude and timing of soil N sources affected N uptake in all tested genotypes. Future research must explore broader SNF levels for understanding to what extent soil N can affect the N uptake sources, especially SNF, without decreasing seed yield in soybeans.