CLEMENT CHOW

Clement Chow

e-mail: cchow@genetics.utah.edu
Assistant Professor of Human Genetics

The Chow Lab
Molecular Neuroscience
Neurobiology Disease
Developmental Neurobiology
B.A. 2003, Cornell University; Ph.D. 2008; University of Michigan; Postdoctoral Fellow, 2008-2015, Cornell University

RESEARCH:

Genetic variation, Genomics, ER stress, Disease modifiers

Our lab is focused on understanding the role of genetic variation on disease outcomes. We employ quantitative and functional tools, in a variety of model organisms, to study how genetic variation impacts basic cellular traits important to human health. Our work in model organisms will help to model and inform studies of genetic variation in the human population. We hope to identify variation in the human population that can lead to more precise, personalized therapies.

The endoplasmic reticulum (ER) is a large organelle responsible for the synthesis, maturation, and delivery of proteins essential for cellular function. ER stress occurs when misfolded proteins accumulate in the ER lumen and if left unresolved, results in cell death. The cell responds to ER stress with the conserved "unfolded protein response" (UPR). The UPR returns the ER to homeostasis by attenuating protein synthesis, activating transcriptional signaling cascades, and refolding or degrading misfolded proteins in the ER.

ER stress can contribute to the pathogenesis of many different human diseases, like obesity, diabetes, and neurodegeneration. In many of these cases, genetic or pharmacological manipulation of ER stress levels influences disease outcome. This suggests that differing ER stress responses in patients may determine disease severity.

Genetic architecture of the ER stress response
Genetic variation is a powerful, unbiased tool to uncover novel aspects of gene networks. We are using natural variation to understand how endoplasmic reticulum (ER) stress varies among individuals in a population and what this means for disease variability. To do this, we are using the mouse Collaborative Cross to uncover the genetic architecture underlying this important cellular stress response. We are also utilizing Drosophila, mouse, and cell culture studies to uncover the function of genes that contribute to variability in the ER stress response.

Genomic adaptation to ER stress
In order to fully understand how genetic variation impacts the ER stress response, we are also undertaking studies to deeply characterize the genomic response to ER stress. How does the epigenome and the transcriptome adapt when a tissue or cell is challenged with acute vs. prolonged ER stress? And more importantly, how do these states differ in a tissue- or cell-specific manner? To do this we are using RNAseq and various epigenetic tools to measure in vivo responses to ER stress in the mouse.

Mendelian diseases as quantitative traits
Natural genetic variation can also be used as a tool to identify novel modifiers of Mendelian diseases. It is widely appreciated that the expressivity of many Mendelian diseases can be quite variable. However, there is still a large gap in understanding why this variability exists. We use natural genetic variation in model organisms to study this variability in a controlled, tractable manner. We think that natural variation (rather than mutagenesis) in model organisms better models genetic variation in the human population. As a first step, we tested a well-studied retinitis pigmentosa mutation on ~200 strains of Drosophila and found extensive phenotypic variation in retinal degeneration. Using association study techniques we identified and validated numerous novel modifier genes. We are applying this paradigm to other rare Mendelian diseases, like NGLY1 deficiency, to try to understand the nature of genetic modification.


Chow Figure 1

Chow Figure 2


Selected Publications:

Chow, C.Y. (2016) Bringing genetic background into focus. Nature Reviews Genetics, 17(2):63-64.

Chow, C.Y., Kelsey, K., Wolfner, M.F., and Clark, A.G. (2016) Candidate genetic modifiers of retinitis pigmentosa identified by exploiting natural variation in Drosophila. Hum. Mol. Gen., 25:651-659.

Chow, C.Y., Avila, F., Wolfner, M.F., and Clark, A.G. (2015) Induction of excessive endoplasmic reticulum stress in the Drosophila male accessory gland results in infertility. PLoS ONE, 10(3):.

Chow, C.Y., Wang, X., Riccardi, D., Wolfner, M.F., and Clark, A.G. (2015) The genetic architecture of the genome-wide transcriptional response to ER stress in the mouse. PLoS Genet, 11(2):.

Chow, C.Y., Wolfner, M.F., and Clark, A.G. (2013) Using natural variation in Drosophila to discover previously unknown endoplasmic reticulum stress genes. PNAS, 110(22):9013-9018.

Chow, C.Y., Wolfner, M.F., and Clark, A.G. (2013) A large neurological component to genetic differences underlying biased sperm use in Drosophila. Genetics, 193(1):177-178.

Lenk, G.M., Ferguson, C.J., Chow, C.Y., Jin, N., Jones, J.M., Grant, A.E., Zolov, S.N., Winters, J.J., Giger, R.J., Dowling, J.J., Weisman, L.S., and Meisler, M.H. (2011) Pathogenic mechanism of the FIG4 mutation responsible for Charcot-Marie-Tooth disease CMT4J. PLoS Genet, Jun 7(6). 

Im, K.M., Kirchhoff, T., Wang, X., Green, T., and Chow, C.Y., et al. (2011) Haplotype Structure in Ashkenazi Jewish BRCA1 and BRCA2 Mutation Carriers. Hum Genet, 130(5):685-699.

Chow, C.Y., Wolfner, M.F., and Clark, A.G. (2010) The Genetic Basis for Male x Female Interactions Underlying Variation in Reproductive Phenotypes of Drosophila. Genetics, 186(4):1355-1365. 

Sirot, L.K., LaFlamme, B.A., Stitnik, J.L., Rubinstein, C.D., Avila, F.W., Chow, C.Y., and Wolfner, M.F. (2009) Molecular social interactions: Drosophila melanogaster seminal fluid proteins as a case study. Adv. Genet., 68:23-56.

Chow, C.Y., Landers, J.E., Bergren, S.K., Sapp, P.C., Grant, A.E., Jones, J.M., Everett, L., Lenk, G.M., McKenna-Yasek, D.M., Weisman, L.S., Figlewicz, D., Brown, R.H., and Meisler, M.H. (2009) Deleterious Variants of FIG4, a Phosphoinositide Phosphatase, in Patients with ALS. Am J Hum Genet, 84(1):85-88. 

Jin, N.*, Chow, C.Y.*, Liu, L., Zolov, S.N., Bronson, R., Davisson, M., Petersen, J.L., Zhang, Y., Park, S., Duex, J.E., Goldowitz, D., Meisler, M.H. and Weisman, L.S. (2008) VAC14 nucleates a protein complex that is essential for the regulation of PI(3,5)P2 levels in yeast and mouse. EMBO J., (27):3221-2134.
*co-first authors

Zhang, X., Chow, C.Y., Sahenk, Z., Shy, M., Meisler, M., and Li, J. (2008) Mutation of FIG4 causes a rapidly progressive, asymmetric neuronal degeneration. Brain, 131:1990-2001.

McKinney, B., Chow, C.Y., Meisler, M., and Murphy, G. (2008) Exaggerated emotional behavior in mice heterozygous null for the sodium channel Scn8a (Nav1.6). Genes, brain, and behavior, 7(6):629-638.

Zhang, Y., Zolov, S., Chow, C.Y., Slutsky, S., Richardson, S., Piper, R., Yang, B., Nau, J., Westrick, R., Morrison, S., Meisler, M., and Weisman, L. (2007) Loss of Vac14, a regulator of the signaling lipid phosphatidylinositol 3,5-bisphosphate, results in neurodegeneration in mice. PNAS, 104(44):17518-17523.

Chow, C.Y., Zhang, Y., Dowling, J., Jin, N., Adamska, M., Shiga, K., Szigeti, K., Shy, M., Li, J., Zhang, X., Lupski, J., Weisman, L., and Meisler, M. (2007) Mutation of FIG4 causes neurodegeneration in the pale tremor mouse and patients with CMT4J. Nature, 448(7149):68-72.