Microstructure of the materials is essential to design new functional materials, especially from atomic scale to micron order structures. Many attempts have been carried out to give nanostructures and such structures have been analyzed using cutting-edge methods both theoretically and experimentally. In this report, recent trends in research on functional materials related to the micro-structures in nano-meter scale are reviewed by mainly introducing the contents of the special issue published in Materials Transactions, vol. 61, No. 8, in which following 6 categories of the topics are included; computational materials science, magnetic materials, advanced functional oxides, carbon and organic materials, and optical materials.