In mice that fail to express the phagolysosomal endonuclease, DNase II, and the type I IFN receptor, excessive accrual of undegraded DNA results in a STING-dependent, TLR-independent inflammatory arthritis. These double knockout (DKO) mice develop additional indications of systemic autoimmunity, including anti-nuclear autoantibodies and splenomegaly, not found in Unc93b1−/− DKO mice and therefore TLR-dependent. The DKO autoantibodies predominantly detect RNA-associated autoantigens, commonly targeted in TLR7-dominated SLE-prone mice. To determine whether an inability of TLR9 to detect endogenous DNA could explain the absence of dsDNA-reactive autoantibodies in DKO mice, we used a novel class of bifunctional autoantibodies, IgM/DNA DVD-Ig™ molecules, to activate B cells through a BCR/TLR9-dependent mechanism. DKO B cells could not respond to the IgM/DNA DVD-Ig™ molecule, despite a normal response to both anti-IgM and CpG ODN 1826. Thus DKO B cells only respond to RNA-associated ligands because DNase II-mediated degradation of self-DNA is required for TLR9 activation.