Spondylodiscitis is an inflammatory disease characterized by primary infection of the intervertebral disc and/or secondary infection to the adjacent vertebrae. Fungal etiology is rare. Fungal spondylodiscitis is a rare spinal infection and usually develops in immunocompromised patients, especially in those with a malignant tumor, chronic urogenital tract infections, diabetes, or advanced age or in those taking immunosuppressive drugs for organ transplantations. Chronic pyelonephritis is a complication of repeated bouts of acute pyelonephritis. In the present report, two patients diagnosed with chronic pyelonephritis were treated with antibiotics for more than six months. They presented with symptoms of sudden-onset low back pain and fever. Magnetic resonance imaging revealed fungal spondylodiscitis with abscess, which was confirmed with surgery and culture. Fungal spondylodiscitis may result from chronic pyelonephritis. The patients received intravenous antifungal agents after spinal surgery, followed by oral antifungal agents. Their symptoms improved with treatment, and they were discharged after surgery.