Cardiovascular disease (CVD) is the leading cause of death worldwide. CVD is associated with insomnia such that insomnia symptoms double the risk of incident CVD. However, how they are related is unknown. Two recent genome-wide association studies (GWAS) identified genetic loci significantly associated with insomnia, including one locus with five nearby genes that are associated with CVD in an independent GWAS. Therefore, we hypothesized that genetic predisposition to insomnia contributes to the development of CVD. To test this and identify causal genes at this locus, we used Drosophila melanogaster, which are well-established model systems for sleep and cardiac studies. To assess the role of these genes on cardiac physiology, we used the cardiac-specific Hand-Gal4 driver to perform genetic knockdown (KD). One-week-old Drosophila progeny were then used for semi-intact microscopic heart preparation followed by high-speed videography to assess cardiac physiology. Similarly, to assess their role in sleep, we used the neuronal-specific Elav-Gal4 driver to perform KD of these genes. Sleep and locomotor activity of one-week-old flies were monitored using the Drosophila Activity Monitoring System. We found that neuronal and cardiac-specific RNAi KD of four genes conserved in Drosophila: Lsn, ATPSynC, Bruce, and Imp, contributes to compromised sleep and cardiac performance, respectively. Cardiac-specific KD of Lsn led to significant cardiac dilation and reduced fractional shortening, a measure of cardiac performance. KD of ATPSynC led to significantly reduced fractional shortening without dilations. Furthermore, Lsn and ATPSynC KD hearts had disrupted actin-containing myofibrillar organization. Suppression of Lsn increased Pericardin deposition, indicative of fibrosis. Also, the cardiac suppression of ATPSynC and Lsn significantly shortened lifespan. Neuronal-specific KD of three genes significantly disrupted sleep. Furthermore, KD of ATPSynC and Lsn in the heart disrupted sleep in a non-cell-autonomous manner. This work provides novel insights into genetic mechanisms linking CVD and insomnia, highlighting the potential importance of these four genes in the development of both diseases.