The genome sequence, morphology, and genetic features of a novel phage, named SSE1, is reported here. Phage SSE1 that infectsShigella dysenteriae(China General Microbiological Culture Collection Center number: 1.1869) was isolated from the aeration tank water of a sewage treatment plant. SSE1 showed morphological features associated with those of phages inMyoviridae. The whole genome sequence of phage SSE1 is composed of 169,744 bp with the GC content of 37.51%. The double-stranded DNA of SSE1 contains 270 open reading frameworks (ORFs). Phylogenetically, phage SSE1 showed a stronger homology (whole genome and terminase large subunit protein sequence) toEscherichiaphages than otherShigellaphages in the NCBI database, but SSE1 did not infectEscherichiastains. This indicates that phage SSE1 should be a novel phage infectingShigella dysenteriae. Besides, the result of this study provided a new idea for phage therapy. SSE1 may become a candidate for potential therapy againstShigella dysenteriaeinfection in clinical applications.