Alper Lab: Current Projects

The Innate Immune Response & Human Disease

We used a comparative genomics screening approach in several "simple" and accessible model systems to identify novel regulators of the innate immune response. We developed assays to monitor the response to pathogens in two different model systems: an in vivo system using the nematode C. elegans and an in vitro system using mouse macrophage cell culture. We used these assays to identify genes that control the response to Gram negative bacteria. These genes were then tested for a role in mammalian disease using knockout mice and samples from human patients. Our overall approach is illustrated schematically below:

Regulation of alternative pre-mRNA splicing in the TLR pathway to limit inflammation.

Click to view larger image.LPS from Gram negative bacteria is sensed by the TLR4-MD2 co-receptors. When activated by LPS, these receptors initiate a complex signal transduction pathway (some but not all components depicted in the Figure) that ultimately leads to the activation of the pro-inflammatory transcription factors NFkB and AP1 and the resulting production of inflammatory cytokines. Remarkably, alternative splice forms of many of the signaling proteins in the TLR pathway have been identified that encode negative regulators of signaling (including TLR4, MD2, MyD88, IRAK1, and IRAK2). Production of these negatively acting splice forms is induced by prolonged LPS stimulation; thus these negatively acting splice forms mediate a negative feedback loop that limits inflammation. We are investigating the mechanisms that regulate this alternative splicing negative feedback loop with the goal of harnessing these alternative splicing mechanisms to limit inflammation and prevent chronic inflammatory disease.

Spatiotemporal regulation of TLR signaling by a novel RAB-GAP

Click to view larger image.We have found that the Tbc1d23 RAB-GAP inhibits the maintenance but not the initiation of TLR signaling, acting several hours after challenge to terminate the response to LPS. RABs are members of the RAS superfamily of small GTPases that mediate vesicle trafficking within the cell. RAB-GAPs inhibit their cognate RABs by facilitating the hydrolysis of the GTP on the RAB. Tbc1d23 inhibits TLR signaling by regulating a RAB and therefore by regulating the trafficking of key innate immune regulatory protein(s). We are currently investigating what RAB is regulated by Tbc1d23, what vesicles/proteins are trafficked by Tbc1d23, and how Tbc1d23 impacts the TLR signaling pathway. Based on our current data, we expect that inhibition of the target RAB should allow for a normal pathogen response that eventually is terminated, potentially a very attractive drug target for chronic inflammatory disease.