In the past two decades, with the rapid progress in synthesis of nanoscale materials and manufacturing of low-dimensional structures, it has created a great demand for understanding of thermal transport in nanoscale. The study of heat conduction in nanoscale is beneficial to many applications such as thermal management, thermal protection, thermoelectrics as well as phonon informatics. Here, we provide the reader with insight and an eye-opening review of the impact of atomic coating on the thermal conduction in low-dimensional structures, specially in coherent phonon regime. Typical systems including semiconducting nanowires, carbon nanotubes, two-dimension materials and nanoscale thin film have been considered. This review aims to summarize recent advances with theoretical, experimental and simulative studies toward understanding of thermal conductivity of nano materials with atomic coating. We also report the importance of the top-layer coating on the interfacial thermal conductance in twodimensional devices.