Brucella genomic islands (GIs) share similarities in their genomic organization to pathogenicity islands from other bacteria and are likely acquired by lateral gene transfer. Here, we report the identification of a GI that is important for the pathogenicity of Brucella melitensis. The deletion of GI-1, GI-5, or GI-6 did not affect bacterial growth in macrophages as well as their virulence in interferon regulatory factor 1-deficient (IRF-1 ؊/؊ ) mice, suggesting that these islands do not contribute to Brucella virulence. However, the deletion of GI-2 resulted in the attenuation of bacterial growth in macrophages and virulence in IRF-1 ؊/؊ mice. The GI-2 mutant also displayed a rough lipopolysaccharide (LPS) phenotype indicated by acriflavin agglutination, suggesting that in vitro and in vivo attenuation is a result of LPS alteration. Further, systematic analysis of the entire GI-2 revealed two open reading frames (ORFs), BMEI0997 and I0998, that encode hypothetical sugar transferases and contribute to LPS alteration, as the deletion of either of these ORFs resulted in a rough phenotype similar to that of the GI-2 mutant. Complementation analyses indicated that in addition to I0997 and I0998, I0999 is required to restore the smooth LPS in the GI-2 mutant as well as its full in vitro and in vivo virulence. The I0999 sequence analysis suggested that it might function as a transporter to help facilitate the transport or linking of the O antigen to the LPS. Our study also indicated that the rough LPS resulting from the GI-2 deletion may affect pathogen-associated molecular pattern recognition by Toll-like receptors.Brucellosis caused by Brucella species is a zoonotic disease with a serious impact on public health and the livestock industry (13). Humans are targeted mainly by Brucella melitensis, although Brucella suis and Brucella abortus can also cause brucellosis in humans. This gram-negative, broad-host-range, facultative pathogen causes a systemic, febrile illness in humans and, while rarely fatal, can lead to chronic debilitating diseases such as endocarditis, osteoarthritis, and neurological impairment (13, 45). In animals, Brucella infection can lead to abortions in females and sterility in males (13).Brucella, during entry into macrophages, interacts with lipid rafts. Lipid raft association is essential for Brucella to evade the degradative endocytic pathway and permit intracellular replication (24,25,33). Brucella lipopolysaccharide (smooth LPS), an important virulence factor, is required for lipid raft-mediated entry that allows intracellular survival (20,35). Brucella species, unlike other gram-negative bacteria, possess nonclassical LPS with altered pathogen-associated molecular patterns (PAMP) leading to reduced endotoxicity. Toll-like receptors (TLRs) constitute a family of host pattern recognition molecules that respond to many PAMPs. TLR2 and TLR4 recognize lipoproteins and LPS of gram-negative bacteria (1, 40), resulting in the expression of proinflammatory cytokines, including tumor necrosis factor a...