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Yi Liu, Ph.D.
Professor
Voice (214) 645-6033
Fax (214) 645-6049
Room ND13.214AA
Yi.Liu@UTSouthwestern.edu
The University of Texas Southwestern Medical Center at Dallas
Department of Physiology
5323 Harry Hines Boulevard
Dallas, TX 75390-9040
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Publications:
Cheng, P, Y. Yang, C. Heintzen, and Y. Liu (2001) Coiled-coil domain mediated FRQ-FRQ interaction is essential for its circadian clock function in Neurospora. EMBO J. 20: 101-108.
Cheng, P, Y. Yang, and Y. Liu. (2001) Interlocked feedback loops contribute to the robustness of the Neurospora circadian clock. Proc. Natl. Acad. Sci. USA 98:7408-7413
Yang, Y., P. Cheng, G. Zhi, and Y. Liu (2001) Identification of a calcium/calmodulin-dependent protein kinase that phosphorylates the Neurospora circadian clock protein FREQUENCY. J. Biol. Chem. 276: 41064-41072
Cheng, P, Y. Yang, K. H. Gardner, and Y. Liu. (2002) PAS domain mediated WC-1/WC-2 heterodimeric complex is essential for their circadian clock function and the stability of WC-1. Mol. Cell. Biol 22: 517-524
Yang, Y., P. Cheng, and Y. Liu. (2002) Regulation of the Neurospora circadian clock by casein kinase II. Genes & Development 15:994-1006.
He, Q.*, P. Cheng*, Y. Yang, L. Wang, K. H. Gardner, and Y. Liu. (2002) White Collar-1, a DNA-binding transcription factor and a light sensor. Science. 297: 840-843 (cover article, accompanied by a Perspective)
Froehlich, A. C., Y. Liu, J. J. Loros, and J. C. Dunlap. (2002) White Collar-1, a circadian blue light photoreceptor, binds to the frequency promoter. Science. 297: 815-819 843 (cover article, accompanied by Perspective)
Cheng, P, Y. Yang, L, Wang, Q. He, and Y. Liu. (2003) WHITE COLLAR-1, a multifunctional Neurospora protein involved in the circadian feedback loops, light sensing, and transcription repression of wc-2. J. Biol. Chem. 278:3801-3808.
Cheng, P., Q. He, Y. Yang, L, Wang, and Y. Liu. (2003) Functional conservation of light, oxygen, or voltage domains in light sensing. Proc. Natl. Acad. Sci. USA 100:5938-5943
Liu, Y., (2003) J. Biol. Rhythms Molecular mechanisms of entrainment of the Neurospora circadian clock. 18: 195-205.
Yang, Y., P. Cheng, Q. He, L. Wang, and Y. Liu (2003) Phosphorylation of FREQUENCY Protein by Casein Kinase II is Necessary for the Function of the Neurospora Circadian Clock. Mol. Cell. Biol 23:6221-6228
He, Q.*, Cheng, P.*, Y. Yang, Q. He, H. Yu, and Y. Liu. (2003) FWD1-mediated degradation of FREQUENCY in Neurospora establishes a conserved mechanism for circadian clock regulation. EMBO J. 22:4421-4430
Liu, Y., Q. He, and P. Cheng. (2003) Photoreception in Neurospora, A Tale of Two White Collar Proteins. Cell. Mol. Life Sci. 60:2131-2138.
Yang, Y., Q. He, P. Cheng, P. Wrage, Oded Yarden, and Y. Liu. (2004) Distinct roles for PP1 and PP2A in the Neurospora circadian clock. Genes & Development. 18:255-260
Min, H., Y. Liu, C. H. Johnson, and S. S. Golden. (2004) Phase Determination of Circadian Gene Expression in Synechococcus elongatus PCC 7942. J. Biol. Rhythms 19:103-112.
Liu, Y., Y. Yang. and Q. He (2005) Posttranscriptional regulation of the Neurospora circadian clock. In “Circadian Clocks in Eukaryotic Microbes”. Edited by Fred Kippert. published by Landes Bioscience. (http://www.eurekah.com/abstract.php?chapid=2329&bookid=180&catid=85&PHPSESSID=4ca3afca5fc5f5d6da4e00fcc7abc154)
Liu, Y.(2005) Analysis of posttranslational regulations in the Neurospora circadian clock. Methods in Enzymology. “Circadian Rhythms”,Edited by Michael Young. 393:379-393
Cheng, P., Q. He, Q. He, L. Wang, and Y. Liu. (2005) Regulation of the Neurospora circadian clock by an RNA helicase. Genes & Development 19: 234-241.
He Q., H. Shu, P. Cheng, S. Chen, L. Wang, and Y. Liu. (2005) Light-independent phosphorylation of WHITE COLLAR-1 is important for its role in the circadian negative feedback loop. J. Biol. Chem. 280: 17526-17532.
He, Q., Cheng, P., Q. He, and Y. Liu. (2005) The COP9 signalosome regulates the Neurospora circadian clock by controlling the stability of the SCFFWD-1 complex. Genes & Development 19: 1518-1531.
He, Q, and Y. Liu (2005) Degradation of the Neurospora circadian clock protein FREQUENCY through the ubiquitin-proteasome pathway. Biochem Soc Trans. 33:953-956.
He, Q. and Y. Liu (2005) Molecular mechanism of light responses in Neurospora: from light-induced transcription to photoadaptation. Genes & Development 19: 2888-2899.
Huang, G., L. Wang, and Y. Liu (2006) Molecular mechanism of suppression of circadian rhythm by a critical stimulus. EMBO J. 25: 5349-5357.
Liu. Y. and D. Bell-Pedersen (2006) Circadian rhythms in Neurospora and other filamentous fungi. Eukaryotic Cell. 5: 1184-1193.
He, Q., J. Cha, Q. He, H. Lee, Y. Yang, and Y. Liu. (2006) CKI and CKII mediate the FREQUENCY-dependent phosphorylation of the WHITE COLLAR complex to close the Neurospora circadian negative feedback loop. Genes & Dev. 20:2552-2565.
Heintzen, C. and Y. Liu (2007) The Neurospora crassa circadian clock. Adv in Genetics, 58:25-66
Maiti, M., HC. Lee, and Y. Liu (2007) QIP, a putative exonuclease, interacts with the Neurospora Argonaute protein and facilitates conversion of duplex siRNA into single strands. Genes & Dev. 21: 590-600
Choudhary, S.*, HC Lee*, M. Maiti*, Q. He, P. Cheng, Q. Liu, and Y. Liu (2007) A double-stranded RNA response program important for RNAi efficiency. Mol. Cell. Biol. 27:3995-4005. (the cover article).
Guocun Huang, She Chen, Shaojie Li, Joonseok Cha, Chengzu Long, Lily Li, Qiyang He and Yi Liu. (2007) Protein Kinase A and Casein Kinases Mediate Sequential Phosphorylation Events in the Circadian Negative Feedback Loop. Genes & Dev. 21: 3283-3295.
Cha, J., G. Huang, J. Guo, and Y. Liu (2007) Posttranslational control of the Neurospora circadian clock. Cold Spring Harbor Symposia on Quantitative Biology 72: 185-91.
Cha J, Chang SS, Huang G, Cheng P, and Y. Liu (2008) Control of WHITE COLLAR localization by phosphorylation is a critical step in the circadian negative feedback process. EMBO J. 27: 3246-3255.
He Q., Tang C, and Y. Liu (2008) The roles of the ubiquitin-proteasome system in the control of circadian clocks. The Ubiquitin Proteasome System. Edited by Napoli and Wojcik. In press.
Jinhu Guo, Guocun Huang, Joonseok Cha, Yi Liu (2008) Protein analyses of the filamentous fungus Neurospora crassa. Molecular and Cell Biology Methods for Fungi. Edited by Amir Sharon. In press.
Lee HC, Chang SS, Choudhary S, Aalto AP, Maiti M, Bamford DH, Y. Liu. (2009) qiRNA is a new type of small interfering RNA induced by DNA damage. Nature 459(7244):274-277. Cover article.
Chi-Tai Tang, Shaojie Li, Chengzu Long, Joonseok Cha, Guocun Huang, Lily Li, She Chenand Yi Liu (2009) Setting the pace of the Neurospora circadian clock by multiple independent FRQ phosphorylation events. Proc. Natl. Acad. Sci. USA 106(26):10722-7.
Guo J, Cheng P, Yuan H, and Yi Liu (2009) The Exosome Regualtes Circadian Gene Expression in a Posttranscriptional Negative Feedback Loop. Cell, 138:1236-1246.
