Surface Enhanced Raman Spectroscopy (SERS) is a highly sensitive analytical technique used for fingerprint recognition of molecular samples. The SERS effect, which enhances Raman scattering signals, has been the subject of extensive research over the past few decades. More recently, the commercialization of portable Raman spectrometers has brought SERS closer to real-world applications. The aim of the study was to enhance their performance, properties, and biocompatibility for potential use as SERS substrates. The synthesis and characterization of MoS and SnS nanoparticles are described, along with the functionalization process using l-cysteine. The detection and identification of () bacteria using MoS and SnS as SERS substrates are also investigated. The results demonstrate the successful functionalization and characterization of the nanostructures, indicating their potential as SERS substrates. The abstract highlights the importance of developing cost-effective and environmentally friendly disposable analysis chips with high accuracy and specificity for practical SERS applications.