Pathogenic Organisms: Infection by various bacteria, viruses, fungi and other organisms can cause inflammation of the lymph nodes. Bacteria (Staphylococci, Streptococci, Mycobacteria, Brucella, etc.), viruses (HIV, Epstein-Barr virus, etc.), fungi (Histoplasma, Coccidioides, etc.), and other organisms like Toxoplasma gondii and Leishmania, commonly cause infections that affect lymph nodes.