Zhenglong Gu


Zhenglong Gu

Associate Professor
312 Savage Hall
Phone: (607) 254-5144 Fax: (607) 255-1033
Email: zg27@cornell.edu
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Curriculum Vitae
Biographical Statement:

  • Dr. Zhenglong Gu received his Bachelors of Science degree in Biochemistry and Molecular Biology from Peking University in 1998, and his PhD degree in Ecology and Evolution in 2003 from University of Chicago. He conducted his postdoctoral research at Stanford Genome and Technology Center from 2004 to 2006. He became an Assistant Professor in the Division of Nutritional Sciences at Cornell University in 2006.
  • Dr. Gu's laboratory uses a combination of computational and experimental approaches to understand the structure of metabolic networks and how these have been shaped over evolutionary time by selective pressures, such as those imposed by nutrient constraints. Much of the effort is devoted to understanding these issues in Saccharomyces cerevisiae, because of its simplicity, rapid growth and the availability of robust experimental and computational tools. Specific interests include evolution of aerobic fermentation in yeast and its implication in ethanol production and cancer physiology, duplicate gene regulation and evolution of antagonistic pleiotropy, genetic and evolution of complex life traits in pathogenic fungi. His laboratory also has interests in using computational and experimental approach to investigate function, evolution and diseases relevance for mitochondria.

Teaching and Advising Statement:
  • Teaching: I believe the primary goal of teaching at a prestigious academic institution is to provide knowledge and instruction to students, encourage them to fulfill their potential and challenge them to perform above their own expectations. 
  • Advisory: The primary goals of an advisor are to serve as a mentor to students, and assist them in their pursuit of meaningful educational programs, which is important for fulfilling their life goals. The positive experience for students during their years at Cornell will have a great impact on their future. I have been fortunate to serve as an advisor to many students, and I have performed this role with care.

Current Professional Activities:
  • Genomics (minor field), 2009-present
  • Genetics & Development, 2008- present
  • Computational Biology, 2008-present
  • Nutritional Sciences, 2006-present

Current Research Activities:

  • Genetic and Evolutionary Basis of Pathogenic Fungi
  • Evolution of Aerobic Fermentation in Yeast
  • Metabolic Adaptation during Human Evolution
  • Mitochondrial DNA Variation and Their Phenotypic Consequences
  • Mitochondrial Function and Diseases

  • PhD in Ecology and Evolution, University of Chicago, 2003
  • BS in Biochemistry and Molecular Biology, Peking University, 1998

Courses Taught:
  • NS2750, Human Biology and Evolution
  • NS7030 Seminar Nutritional Science
  • BIOG 4990, Independent Undergraduate Research
  • NS 4010, Empirical Research (Independent Study)

Related Websites:

Gu Lab website
Cornell Center for Comparative & Population Genomics

Administrative Responsibilities:
  • Division Curriculum Committee, Chair, 2012-present
  • Executive Committee (Seed Funding and Shared Resources), VERGE, 2011-present

Selected Publications:

1.  Liu, X., Jiang, H., Gu, Z. & Roberts, J.W. High-resolution view of bacteriophage lambda gene expression by ribosome profiling. Proc Natl Acad Sci U S A. 110:11928-11933 (2013)

2.  Shestov, A.A., Barker, B., Gu, Z. & Locasale JW  Computational approaches for understanding energy metabolism. Wiley Interdiscip Rev Syst Biol Med. doi: 10.1002/wsbm.1238, (2013)

3.  Ye, K. Lu, J., Madhura Raj, S. & Gu, Z. Human expression QTLs are enriched in signals of environmental adaptation , Genome Biol Evol. 5:1689-1701 (2013)

4.  Xu, L., Barker, B. & Gu, Z. Dynamic epistasis for the different alleles of the same gene, PNAS, 109:10420-10425 (2012)

5.  Jiang, H., Guo, X., Xu, L. & Gu, Z. Rewiring of post-transcriptional RNA regulons: Puf4p in fungi as an example, Mol Biol Evol. 29:2169-2176 (2012)

6.  Stover, P. & Gu, Z.  Polymorphism: effect on nutrient utilization and metabolism.  Book Chapter,  Modern Nutrition in Health and Diseases, (2011)

7.  Ye, K. & Gu, Z. Recent advances in understanding the role of nutrition in genome evolution, Advances in Nutrition, 2:486-496, (2011)

8.  Xue, Z., He, Y., Ye, K., Gu, Z., Mao, Y. & Qi, L. A highly-conserved structural “hinge” bridging the kinase and RNase domains of the IRE1 protein is critical for its stability and activation. J Biol Chem 286:30859-30866 (2011)

9.  Xu, L, Jiang, H & Gu,  Z. Genetic architecture of complex traits revealed by epistatic interaction. In press, Genome Biol. & Evol. 3:909-914 (2011)

10.  Zou, Y., Huang, W., Gu, Z. & Gu, X. Predominant gain of promoter TATA box after gene duplication associated with stress responses. Mol Biol Evol. 28:2893-2904 (2011)

11.  Jiang, H. Xu, L & Gu, Z. Growth of novel epistatic interaction by gene duplication,  Genome Biol & Evol, 3:295-301 (2011)

12.  Xu, L. & Gu, Z. Asynchronous regulation of backup circuits as a strategy for survival in the fluctuating environments. International Journal of Systems and Synthetic Biology, 1: 227-239 (2010)

13.  K.T. Nishant , Wei, W., Mancera, E., Argueso, J.L., Schlattl, A., Delhomme, N., Ma, X., Bustamante, C., Korbel, J., Gu, Z., Steinmetz, L., Alani, E.  The baker's yeast diploid genome is remarkably stable in vegetative growth and meiosis, PLoS Genetics 6(9): e1001109 (2010)

14.  Zanders, S., Ma, X., RoyChoudhury, A., Hernandez, R., Demogines, A., Barker, B., Indap, A., Gu, Z., Bustamante, C.,  & Alani, E. Detection of heterozygous mutations in the genome of mismatch repair defective diploid yeast using a Bayesian approach. Genetics 186:493-503 (2010)

15.  Jiang, H., Guan, W. & Gu, Z. Tinkering evolution of a posttranscriptional RNA regulon by Puf3p in yeast. PLoS Genetics 6(7): e1001030 (2010)

16.  Guan, W., Jiang, H., Xu, L., Li, Y., Steinmetz, L.M., Li, Y. & Gu, Z. Antagonistic changes in sensitivity to antifungal drugs by functional loss of an important ABC transporter gene. PLoS ONE 5(6): e11309 (2010)

17.  Li, Y., Liang, H., Gu, Z., Lin, Z., Guan, L., Zhou, L., Li, Y. & Li, W.-H. Detecting positive selection in the budding yeast genome, J . Evol. Bio. 22:2430-2437 (2009)

18.  Gu, Z. & Oliver, S.G. Yeasts as models in evolutionary biology. Genome Biology 10:304 (2009)

19.  Xu, L., Su, Z. Gu, Z. & Gu, X. Parallel adaptation vs. mutation hotspot for the evolution of RNases in leaf monkeys. Mol. Phyl. & Evol. 50:397-400 (2009)

20.  Jiang, H., Wang, W. & Gu, Z. Genetic diversities detected by translational efficiency between Ashbya gossypii and yeasts. BMC Evol Biol. 8:343 (2008)

21.  Chen, H., Xu, L. & Gu, Z. Regulation dynamics of the WGD genes during the yeast metabolic oscillation. Mol. Biol. & Evol 25:2513-2516 (2008)

22.  Jiang, H, Guan, W., Pinney, D., Wang, W. & Gu, Z. Functional relaxation of mitochondria after WGD in yeast. Genome Res. 18:1466-1471 (2008)

23.  Wu, W., McCusker, J.H. …Gu, Z. ... Genome sequencing and comparative analysis of Saccharomyces cerevisiae strain YJM789. P. Natl. Acad. Sci. USA. 104:12825-12830

24.  Jiang, H., Liu, D., Gu, Z. & Wang, W. Rapid evolution in a pair of recent duplicate segments of rice. Exp Zoolog B Mol Dev Evol. 308:50-57 (2007)

25.  Oakley, T. H., Gu, Z., Abouheif, E., Patel, N. H. & Li, W.-H. Comparative analyses of gene expression evolution using functional genomic data. Mol. Biol. & Evol. 22:40-50 (2005)

26.  Maltsev, N., Glass, E.M., Ovchinnikova, G., Gu, Z. Molecular mechanisms involved in robustness of yeast central metabolism against null mutations. J Biochem. (Tokyo) 137:177-187 (2005)

27.  Gu, Z., David, L., Petrov, D., Jones, T., Davis, R. W. & Steinmetz, L. M.  Elevated evolutionary rates in the lab strain of S. cerevisiae.  P. Natl. Acad. Sci. USA. 102:1092-1097 (2005)

28.  Gu, Z., Rifkin, S.A., White, K. P. & Li, W.-H. Duplicate genes increase expression diversity within and between species. Nat. Genet. 36:577 - 579 (2004)

29.  Marland, E., Prachumwat, A., Maltsev, N., Gu, Z. & Li, W.-H. Higher gene duplicabilities for metabolic proteins than for nonmetabolic proteins in yeast and E. coli. J Mol Evol. 59:806-814 (2004)

30.  Zhang, P, Gu, Z. & Li, W-H. Different evolutionary patterns between young duplicate genes in the human genome. Genome Biology 4:R56 (2003)

31.  Yang, J., Gu, Z. & Li, W.-H. Rate of evolution vs. fitness effect of gene deletion. Mol. Biol. & Evol. 20:772-774 (2003)

32.  Cavalcanti, A., Ferreira, R., Gu, Z. & Li, W.-H. Patterns of gene duplication in yeast and C. elegans. J Mol. Evol. 56:28-37 (2003)

33.  Li, W.-H., Gu, Z., Cavalcanti, A.& Nekrutenko, A. Detection of gene duplications and block duplications in eukaryotic genomes. J Str. & Funct. Genom. 3:27-34 (2003)

34.  Gu, Z., Steinmetz, L. M., Gu, X., Scharfe, C., Davis, R. W., & Li, W.-H. Role of duplicate genes in genetic robustness against null mutations. Nature 421:63-66 (2003)

35.  Gu, Z., Nicolae, D., Lu, H.-S., & Li, W.-H. Rapid divergence in expression between duplicate genes inferred from microarray gene expression data. Trends Genet. 18:609-613 (2002)

36.  Gu, Z., Cavalcanti, A., Chen, F.-C., Bouman, P. & Li, W.-H. Extent of gene duplication in the genomes of drosophila, nematode, and yeast. Mol. Biol. & Evol. 19:256-262 (2002)

37.  Li, W.-H., Gu, Z., Wang, H. & Nekrutenko, A. Evolutionary analyses of the human genome. Nature 409:847-849 (2001)

38.  Gu, Z., Wang, H., Nekrutenko, A. & Li, W.-H. Densities, length proportions, and other distributional features of repetitive sequences in the human genome estimated from 430 megabases of genomic sequence. Gene 259:81-88 (2000)

Searchable Keywords:
Evoluitonary Genomics
Systems Biology

The information on this bio page is taken from the CHE Annual Report.