Andrew C Liu

Andrew C Liu,

ASO PROF

Department: MD-PHYSIOLOGY FUNCTIONAL GENOM
Business Phone: (352) 294-8900
Business Email: andrew.liu@ufl.edu

About Andrew C Liu

I am an Associate Professor in the Department of Physiology and Functional Genomics, College of Medicine. I obtained my Ph.D. in Biochemistry at the University of Michigan Medical Center and was trained in Molecular Genetics and Genomics as a postdoc at the Scripps Research Institute. I studied the unfolded protein response in my Ph.D. graduate research. Since 2003, I’ve been studying the mammalian circadian clocks, first as a postdoc (2003-2006), then as an institute fellow and group manager (2006-2008), and as a principal investigator (2008-present). I joined UF in 2018, and prior to that, I was an Assistant and then Associate Professor in the Department of Biological Sciences at the University of Memphis where I taught several courses at both undergraduate (Biochemistry, Introduction to Biology) and graduate levels (Biological Clocks), and led a successful extramurally funded research program.

Teaching Profile

Courses Taught
2019-2023
DEN5120C Physiology
2019,2021
GMS5905 Special Topics in Biomedical Sciences
2018
MAT7979 Advanced Research
2020-2021
BMS3521 Human Physiology in Translation
2021
GMS6003 Fundamentals of Graduate Research and Professional Development
Teaching Philosophy
I always try to implement the following elements in teaching. First, I believe that the instructor’s passion is a key component of effective teaching. I love science and enjoy sharing this passion, and in turn, I find the students’ intellectual engagement rewarding. Second, I believe it is important to convey to students that biology is an experimental science, constantly under revision. I try to put topics into historical perspective and point out major discoveries and their relevance. 3) I emphasize that learning is a process, involving systematic learning, self-teaching, and self-motivation. Importantly, teaching has expanded the scope of my own knowledge base and undoubtedly made me a better scientist.

Research Profile

The major focus of our research program is the molecular, cellular and physiological mechanisms of circadian rhythms in mammals. We ask i) How is the molecular clockwork built in a cell (cell-autonomous) and in the central SCN (neural network)? And ii) How are the clocks integrated with metabolism and physiology, both under normal and pathological conditions (genetic network)? We use mice and cultured mammalian cells as model systems and employ highly integrated approaches in our research. Virtually every single cell in our body is a clock and each cell, organ, and organism can be studied as a system, and accordingly, we study the clock at the levels of cell, tissue, organ, and organism. More than 50% of all genes cycle somewhere in the body. As opposed to traditional methods, we use kinetic (not just steady-state snapshots) and longitudinal methods (multiple days/cycles) to measure the temporal dynamics of molecular, cellular and physiological processes.

I obtained my Ph.D. in Biochemistry at the University of Michigan and was trained in Molecular Genetics and Genomics as a postdoc at the Scripps Research Institute. Since 2003, I’ve been studying the mammalian circadian clocks, first as a postdoc (2003-2006), then as an institute fellow and group manager (2006-2008), and as a principal investigator (2008-present). In 2007, we demonstrated that intercellular coupling in the SCN (the body’s central clock) confers system robustness against genetic perturbations; peripheral clocks (e.g., fibroblasts, liver, lung), however, generally lack strong coupling and reflect gene/protein function on a biochemical and oscillator basis. Thus, the SCN is a more robust clock system and peripheral clocks are experimentally more tractable. Strategically, we use peripheral and cellular models for gene discovery and use cells and mice to study gene functions. We use multi-integrated approaches which include molecular biology, biochemistry, structural biology, genetics, functional genomics, gene discovery, and small molecule discovery.

Leveraging our expertise and cell and animal models, my lab carries out the following main areas of research: i) To probe the biochemical and structural basis of cellular circadian behavior, and neural network basis of the central SCN clock; ii) To identify novel clock genes and characterize how these genes and networks modulate clock function; iii) To investigate the extensive, bidirectional integration between the circadian clock and cell physiology, particularly nutrient/energy sensing, and innate immunity and inflammation; iv) To explore pharmacological and chronotherapeutic approaches in hopes to enhance circadian physiology and sleep/wake homeostasis and improve health.

Scientifically, our goal is to fill in the huge knowledge gap in our understanding of the molecular and cellular processes connecting genes to phenotypes and to elucidate how the molecular clocks regulate behavior, physiology, and metabolism. Ultimately, we hope to gather sufficiently detailed knowledge to effectively modulate our timekeeping system. We hope to contribute to chronotherapy and chronotherapeutics to improve treatments for circadian rhythms and sleep/wake disorders, as well as clock-related disorders.

Open Researcher and Contributor ID (ORCID)

0000-0003-1927-0900

Publications

2022
A wrinkle in time: circadian biology in pulmonary vascular health and disease
American Journal of Physiology-Lung Cellular and Molecular Physiology. 322(1):L84-L101 [DOI] 10.1152/ajplung.00037.2021. [PMID] 34850650.
2021
Circadian Rhythm Effects on the Molecular Regulation of Physiological Systems.
Comprehensive Physiology. 12(1):2769-2798 [DOI] 10.1002/cphy.c210011. [PMID] 34964116.
2021
Circadian Synchrony: Sleep, Nutrition, and Physical Activity.
Frontiers in network physiology. 1 [PMID] 35156088.
2021
Likelihood-based tests for detecting circadian rhythmicity and differential circadian patterns in transcriptomic applications.
Briefings in bioinformatics. 22(6) [DOI] 10.1093/bib/bbab224. [PMID] 34117739.
2021
NF-κB modifies the mammalian circadian clock through interaction with the core clock protein BMAL1
PLOS Genetics. 17(11) [DOI] 10.1371/journal.pgen.1009933. [PMID] 34807912.
2020
Innovations in Geroscience to enhance mobility in older adults.
Experimental gerontology. 142 [DOI] 10.1016/j.exger.2020.111123. [PMID] 33191210.
2020
Kava as a Clinical Nutrient: Promises and Challenges
Nutrients. 12(10) [DOI] 10.3390/nu12103044. [PMID] 33027883.
2020
Systems Level Understanding of Circadian Integration with Cell Physiology.
Journal of molecular biology. 432(12):3547-3564 [DOI] 10.1016/j.jmb.2020.02.002. [PMID] 32061938.
2019
The eIF2α Kinase GCN2 Modulates Period and Rhythmicity of the Circadian Clock by Translational Control of Atf4.
Neuron. 104(4):724-735.e6 [DOI] 10.1016/j.neuron.2019.08.007. [PMID] 31522764.
2019
The NRON complex controls circadian clock function through regulated PER and CRY nuclear translocation
Scientific Reports. 9(1) [DOI] 10.1038/s41598-019-48341-8. [PMID] 31417156.
2018
Developing Mammalian Cellular Clock Models Using Firefly Luciferase Reporter.
Methods in molecular biology (Clifton, N.J.). 1755:49-64 [DOI] 10.1007/978-1-4939-7724-6_4. [PMID] 29671262.
2018
mTOR signaling regulates central and peripheral circadian clock function.
PLoS genetics. 14(5) [DOI] 10.1371/journal.pgen.1007369. [PMID] 29750810.
2018
NRF2 regulates core and stabilizing circadian clock loops, coupling redox and timekeeping in Mus musculus.
eLife. 7 [DOI] 10.7554/eLife.31656. [PMID] 29481323.
2018
Protein kinase p38α signaling in dendritic cells regulates colon inflammation and tumorigenesis
Proceedings of the National Academy of Sciences. 115(52) [DOI] 10.1073/pnas.1814705115. [PMID] 30541887.
2018
Time-restricted feeding of a high-fat diet in male C57BL/6 mice reduces adiposity but does not protect against increased systemic inflammation.
Applied physiology, nutrition, and metabolism = Physiologie appliquee, nutrition et metabolisme. 43(10):1033-1042 [DOI] 10.1139/apnm-2017-0706. [PMID] 29717885.
2017
A Slow Conformational Switch in the BMAL1 Transactivation Domain Modulates Circadian Rhythms.
Molecular cell. 66(4):447-457.e7 [DOI] 10.1016/j.molcel.2017.04.011. [PMID] 28506462.
2017
Guidelines for Genome-Scale Analysis of Biological Rhythms.
Journal of biological rhythms. 32(5):380-393 [DOI] 10.1177/0748730417728663. [PMID] 29098954.
2016
CREBH Couples Circadian Clock With Hepatic Lipid Metabolism.
Diabetes. 65(11):3369-3383 [PMID] 27507854.
2016
Mammalian retinal Müller cells have circadian clock function.
Molecular vision. 22:275-83 [PMID] 27081298.
2015
Cryptochrome 1 regulates the circadian clock through dynamic interactions with the BMAL1 C terminus.
Nature structural & molecular biology. 22(6):476-484 [DOI] 10.1038/nsmb.3018. [PMID] 25961797.
2015
Light-regulated translational control of circadian behavior by eIF4E phosphorylation.
Nature neuroscience. 18(6):855-62 [DOI] 10.1038/nn.4010. [PMID] 25915475.
2014
Cell type-specific functions of period genes revealed by novel adipocyte and hepatocyte circadian clock models.
PLoS genetics. 10(4) [DOI] 10.1371/journal.pgen.1004244. [PMID] 24699442.
2014
Machine learning helps identify CHRONO as a circadian clock component.
PLoS biology. 12(4) [DOI] 10.1371/journal.pbio.1001840. [PMID] 24737000.
2014
Prevalence of cycling genes and drug targets calls for prospective chronotherapeutics.
Proceedings of the National Academy of Sciences of the United States of America. 111(45):15869-70 [DOI] 10.1073/pnas.1418570111. [PMID] 25368193.
2013
Translational control of entrainment and synchrony of the suprachiasmatic circadian clock by mTOR/4E-BP1 signaling.
Neuron. 79(4):712-24 [DOI] 10.1016/j.neuron.2013.06.026. [PMID] 23972597.
2012
Cry1-/- circadian rhythmicity depends on SCN intercellular coupling.
Journal of biological rhythms. 27(6):443-52 [DOI] 10.1177/0748730412461246. [PMID] 23223370.
2012
Identification of a novel cryptochrome differentiating domain required for feedback repression in circadian clock function.
The Journal of biological chemistry. 287(31):25917-26 [DOI] 10.1074/jbc.M112.368001. [PMID] 22692217.
2012
Monitoring cell-autonomous circadian clock rhythms of gene expression using luciferase bioluminescence reporters.
Journal of visualized experiments : JoVE. (67) [DOI] 10.3791/4234. [PMID] 23052244.
2011
Circadian regulation of ATP release in astrocytes.
The Journal of neuroscience : the official journal of the Society for Neuroscience. 31(23):8342-50 [DOI] 10.1523/JNEUROSCI.6537-10.2011. [PMID] 21653839.
2011
Delay in feedback repression by cryptochrome 1 is required for circadian clock function.
Cell. 144(2):268-81 [DOI] 10.1016/j.cell.2010.12.019. [PMID] 21236481.
2010
Cryptochrome mediates circadian regulation of cAMP signaling and hepatic gluconeogenesis.
Nature medicine. 16(10):1152-6 [DOI] 10.1038/nm.2214. [PMID] 20852621.
2010
Emergence of noise-induced oscillations in the central circadian pacemaker.
PLoS biology. 8(10) [DOI] 10.1371/journal.pbio.1000513. [PMID] 20967239.
2009
A genome-wide RNAi screen for modifiers of the circadian clock in human cells.
Cell. 139(1):199-210 [DOI] 10.1016/j.cell.2009.08.031. [PMID] 19765810.
2009
A model of the cell-autonomous mammalian circadian clock.
Proceedings of the National Academy of Sciences of the United States of America. 106(27):11107-12 [DOI] 10.1073/pnas.0904837106. [PMID] 19549830.
2008
A chemical biology approach reveals period shortening of the mammalian circadian clock by specific inhibition of GSK-3beta.
Proceedings of the National Academy of Sciences of the United States of America. 105(52):20746-51 [DOI] 10.1073/pnas.0811410106. [PMID] 19104043.
2008
Redundant function of REV-ERBalpha and beta and non-essential role for Bmal1 cycling in transcriptional regulation of intracellular circadian rhythms.
PLoS genetics. 4(2) [DOI] 10.1371/journal.pgen.1000023. [PMID] 18454201.
2007
Intercellular coupling confers robustness against mutations in the SCN circadian clock network.
Cell. 129(3):605-16 [PMID] 17482552.
2007
Mammalian circadian signaling networks and therapeutic targets.
Nature chemical biology. 3(10):630-9 [PMID] 17876320.
2006
The crystal structure of human IRE1 luminal domain reveals a conserved dimerization interface required for activation of the unfolded protein response.
Proceedings of the National Academy of Sciences of the United States of America. 103(39):14343-8 [PMID] 16973740.
2004
Bioluminescence imaging of individual fibroblasts reveals persistent, independently phased circadian rhythms of clock gene expression.
Current biology : CB. 14(24):2289-95 [PMID] 15620658.
2004
The unfolded protein response represses differentiation through the RPD3-SIN3 histone deacetylase.
The EMBO journal. 23(11):2281-92 [PMID] 15141165.
2003
Structure and intermolecular interactions of the luminal dimerization domain of human IRE1alpha.
The Journal of biological chemistry. 278(20):17680-7 [PMID] 12637535.
2003
The unfolded protein response.
Journal of cell science. 116(Pt 10):1861-2 [PMID] 12692187.
2002
The protein kinase/endoribonuclease IRE1alpha that signals the unfolded protein response has a luminal N-terminal ligand-independent dimerization domain.
The Journal of biological chemistry. 277(21):18346-56 [PMID] 11897784.
2002
The unfolded protein response in nutrient sensing and differentiation.
Nature reviews. Molecular cell biology. 3(6):411-21 [PMID] 12042763.
2001
Complementary signaling pathways regulate the unfolded protein response and are required for C. elegans development.
Cell. 107(7):893-903 [PMID] 11779465.
2001
Translational control is required for the unfolded protein response and in vivo glucose homeostasis.
Molecular cell. 7(6):1165-76 [PMID] 11430820.
2000
Ligand-independent dimerization activates the stress response kinases IRE1 and PERK in the lumen of the endoplasmic reticulum.
The Journal of biological chemistry. 275(32):24881-5 [PMID] 10835430.
1998
Cloning of 1-aminocyclopropane-1-carboxylate (ACC) synthetase cDNA and the inhibition of fruit ripening by its antisense RNA in transgenic tomato plants.
Chinese journal of biotechnology. 14(2):75-84 [PMID] 10196631.
1997
Construction and characterization of the soybean leaf metalloproteinase cDNA.
FEBS letters. 404(2-3):283-8 [PMID] 9119080.
Defining the age-dependent and tissue-specific circadian transcriptome in male mice
. [DOI] 10.1101/2022.04.27.489594.
Detailed Clinical and Functional Studies of New MTOR Variants in Smith-Kingsmore Syndrome Reveal Deficits of Circadian and Sleep Homeostasis
. [DOI] 10.1101/2022.02.15.22269076.
Experimental Design and Power Calculation in Omics Circadian Rhythmicity Detection
. [DOI] 10.1101/2022.01.19.476930.
NF-κB modifies the mammalian circadian clock through interaction with the core clock protein BMAL1
. [DOI] 10.1101/2020.09.06.285254.

Grants

Jun 2022 ACTIVE
University of Florida Claude D. Pepper Older Americans Independence Center
Role: Other
Funding: NATL INST OF HLTH NIA
Mar 2021 ACTIVE
Circadian Clock and Muscle Health
Role: Co-Investigator
Funding: NATL INST OF HLTH NIAMS
Oct 2018 – May 2022
Assessment of epigenetic driven circadian rhythm defects in neurons from individuals with PWS
Role: Principal Investigator
Funding: UNIV OF TENNESSEE KNOXVILLE via FOU FOR PRADER-WILLI RESEARCH
Mar 2018 ACTIVE
Molecular, cellular and physiological mechanisms of the mammalian circadian clock
Role: Principal Investigator
Funding: CINCINNATI CHILDRENS HOSPITAL MED CTR via NATL INST OF HLTH NINDS
Jan 2018 – Apr 2022
Collaborative Research: Biochemical Basis of Cellular Circadian Behavior
Role: Principal Investigator
Funding: NATL SCIENCE FOU

Education

Ph.D.
1998-2003 · University of Michigan Medical School

Contact Details

Phones:
Business:
(352) 294-8900
Emails:
Business:
andrew.liu@ufl.edu
Addresses:
Business Mailing:
1345 CENTER DR M548
GAINESVILLE FL 32610
Business Street:
1345 CENTER DR M548
GAINESVILLE FL 32610