Increasing evidence suggests that neurotoxicity of secreted superoxide dismutase 1 (SOD1) mutants is associated with amyotrophic lateral sclerosis (ALS). We show here that mutant SOD1 protein activates microglia via a myeloid differentiation factor 88 (MyD88)-dependent pathway. This inflammatory response is also associated with a marked recruitment of bone marrow-derived microglia (BMDM) in the central nervous system. We then generated chimeric SOD1(G37R) and SOD1(G93A) mice by transplantation of bone marrow (BM) cells from MyD88-deficient or green fluorescent protein (GFP)-expressing mice. SOD1(G37R) mice receiving MyD88(-/-) BM cells exhibit a significantly earlier disease onset and shorter lifespan compared with mice transplanted with control GFP cells. This compelling beneficial effect of MyD88-competent BMDM is a previously unrecognized natural innate immune mechanism of neuroprotection in a mouse model of late-onset motor neuron disease.