We report the whole-genome sequences of the endophyte Curtobacterium flaccumfaciens strain W004 isolated from the seeds of winter wheat, cv. Bezostaya 100. The genome was obtained using Oxford Nanopore MinION sequencing. The bacterium has a circular chromosome consisting of 3.63 kbp with a G+C% content of 70.89%. We found that Curtobacterium flaccumfaciens strain W004 could promote the growth of spring wheat plants, resulting in an increase in grain yield of 54.3%. Sequencing the genome of this new strain can provide insights into its potential role in plant–microbe interactions.
