In genomic transcripts of mammalians, long non-coding RNA (lncRNA) is an important group due to its considerable absolute number as well as numerous types. By means of base complimentary paring or spatial conjunction with certain three-dimensional structures, different lncRNAs interact with other biological molecules such as proteins, RNAs and DNAs to exert different biological functions. Together, they constitute a regulatory network both intricate and delicate. More and more researches show that lncRNAs play important roles in the regulation of innate immunity, such as determining differentiation of innate immune cells, adjusting expression of inflammatory factors and participating in host-virus interaction. In this review, we described the biological effects of lncRNAs in innate immunity, and further illuminated the molecular mechanisms. Finally, we discussed the strategies and technologies for carrying out researches on innate immunity-related lncRNAs.