Aims Continuous use of inorganic fertilizers, pesticides, wastewater discharge, and leachates causes soil degradation, contamination of potable water and food ultimately leading to soil pollution and ill effects on human health. The current study involves monitoring of soil quality of agricultural soil samples collected from four different agricultural fields in Ludhiana, Punjab (India) near Buddha Nullah, a tributary of the Sutlej river. Methods Physico-chemical characteristics and heavy metal content of soil samples were estimated following the standard protocols. The genotoxic potential of soil samples were evaluated by using Allium cepa root chromosomal aberration assay.Results The agricultural soil samples were found to be slightly basic. Soil nutrients such as nitrate, phosphate and potassium ranged from 0.072 - 0.075 mg/g, 0.029 - 0.070 mg/g and 0.055 - 0.158 mg/g respectively. The contents (mg/kg) of heavy metals cadmium, chromium, cobalt, copper, and lead analyzed in five of the soil samples were observed to be above the permissible limits. Allium cepa root chromosomal aberration assay used for genotoxicity studies has shown that Hambran (HBN), induced maximum genotoxic effect, i.e. 46.7% in terms of percent aberrant cells in Allium cepa. Conclusions The statistical analysis evaluated the positive correlation of heavy metals (Cu, Co, Ni) with the percentage chromosomal aberration induced in Allium cepa test. The Pearson correlation indicated that genotoxicity had a significant positive correlation with the content of Cu and Ni at p ≤ 0.05 and with Co at p ≤ 0.01.