Yi Liu

Summary

Affiliation: University of Texas Southwestern Medical Center
Country: USA

Publications

  1. pmc Circadian rhythms in Neurospora crassa and other filamentous fungi
    Yi Liu
    Department of Physiology, University of Texas Southwestern Medical Center, 5323 Harry Hines Blvd, Dallas, TX 75390 9040, USA
    Eukaryot Cell 5:1184-93. 2006
  2. ncbi request reprint Photoreception in Neurospora: a tale of two White Collar proteins
    Y Liu
    Department of Physiology, University of Texas, Southwestern Medical Center, 5323 Harry Hines Blvd, Dallas, Texas 75390 9040, USA
    Cell Mol Life Sci 60:2131-8. 2003
  3. ncbi request reprint Molecular mechanisms of entrainment in the Neurospora circadian clock
    Yi Liu
    Department of Physiology, University of Texas Southwestern Medical Center, Dallas, Texas 75390 9040, USA
    J Biol Rhythms 18:195-205. 2003
  4. pmc RNA interference in fungi: pathways, functions, and applications
    Yunkun Dang
    Department of Physiology, ND13 214A, University of Texas Southwestern Medical Center, 5323 Harry Hines Blvd, Dallas, TX 75390 9040, USA
    Eukaryot Cell 10:1148-55. 2011
  5. ncbi request reprint White collar-1, a DNA binding transcription factor and a light sensor
    Qiyang He
    Department of Physiology, University of Texas Southwestern Medical Center, 5323 Harry Hines Boulevard, Dallas, TX 75390, USA
    Science 297:840-3. 2002
  6. pmc The DNA/RNA-dependent RNA polymerase QDE-1 generates aberrant RNA and dsRNA for RNAi in a process requiring replication protein A and a DNA helicase
    Heng Chi Lee
    Department of Physiology, University of Texas Southwestern Medical Center, Dallas, Texas, United States of America
    PLoS Biol 8:. 2010
  7. pmc CKI and CKII mediate the FREQUENCY-dependent phosphorylation of the WHITE COLLAR complex to close the Neurospora circadian negative feedback loop
    Qun He
    Department of Physiology, The University of Texas Southwestern Medical Center, Dallas, 75390, USA
    Genes Dev 20:2552-65. 2006
  8. ncbi request reprint Light-independent phosphorylation of WHITE COLLAR-1 regulates its function in the Neurospora circadian negative feedback loop
    Qiyang He
    Department of Physiology, The University of Texas Southwestern Medical Center, Dallas, Texas 75390, USA
    J Biol Chem 280:17526-32. 2005
  9. pmc Regulation of the Neurospora circadian clock by an RNA helicase
    Ping Cheng
    Department of Physiology, University of Texas Southwestern Medical Center, Dallas, TX 75390, USA
    Genes Dev 19:234-41. 2005
  10. pmc Functional significance of FRH in regulating the phosphorylation and stability of Neurospora circadian clock protein FRQ
    Jinhu Guo
    Department of Physiology, University of Texas Southwestern Medical Center, Dallas, Texas 75390, USA
    J Biol Chem 285:11508-15. 2010

Collaborators

Detail Information

Publications80

  1. pmc Circadian rhythms in Neurospora crassa and other filamentous fungi
    Yi Liu
    Department of Physiology, University of Texas Southwestern Medical Center, 5323 Harry Hines Blvd, Dallas, TX 75390 9040, USA
    Eukaryot Cell 5:1184-93. 2006
  2. ncbi request reprint Photoreception in Neurospora: a tale of two White Collar proteins
    Y Liu
    Department of Physiology, University of Texas, Southwestern Medical Center, 5323 Harry Hines Blvd, Dallas, Texas 75390 9040, USA
    Cell Mol Life Sci 60:2131-8. 2003
    ..The purpose of this review is to summarize the findings of recent studies on the molecular mechanism of photoreception in Neurospora...
  3. ncbi request reprint Molecular mechanisms of entrainment in the Neurospora circadian clock
    Yi Liu
    Department of Physiology, University of Texas Southwestern Medical Center, Dallas, Texas 75390 9040, USA
    J Biol Rhythms 18:195-205. 2003
    ..The purpose of this review is to summarize what we currently know about the molecular mechanism of light and temperature entrainment in Neurospora...
  4. pmc RNA interference in fungi: pathways, functions, and applications
    Yunkun Dang
    Department of Physiology, ND13 214A, University of Texas Southwestern Medical Center, 5323 Harry Hines Blvd, Dallas, TX 75390 9040, USA
    Eukaryot Cell 10:1148-55. 2011
    ..In this review, we will discuss our current understanding of the fungal RNAi-related pathways and their functions, with a focus on filamentous fungi. We will also discuss how RNAi can be used as a tool in fungal research...
  5. ncbi request reprint White collar-1, a DNA binding transcription factor and a light sensor
    Qiyang He
    Department of Physiology, University of Texas Southwestern Medical Center, 5323 Harry Hines Boulevard, Dallas, TX 75390, USA
    Science 297:840-3. 2002
    ..Together, these observations suggest that WC-1 is the blue-light photoreceptor for the circadian clock and other light responses in Neurospora...
  6. pmc The DNA/RNA-dependent RNA polymerase QDE-1 generates aberrant RNA and dsRNA for RNAi in a process requiring replication protein A and a DNA helicase
    Heng Chi Lee
    Department of Physiology, University of Texas Southwestern Medical Center, Dallas, Texas, United States of America
    PLoS Biol 8:. 2010
    ..Together, these results suggest a novel small RNA biogenesis pathway in Neurospora and a new mechanism for the production of aRNA and dsRNA in RNAi pathways...
  7. pmc CKI and CKII mediate the FREQUENCY-dependent phosphorylation of the WHITE COLLAR complex to close the Neurospora circadian negative feedback loop
    Qun He
    Department of Physiology, The University of Texas Southwestern Medical Center, Dallas, 75390, USA
    Genes Dev 20:2552-65. 2006
    ..Together, these results suggest that CKI and CKII, in addition to being the FRQ kinases, mediate the FRQ-dependent phosphorylation of WCs, which inhibit their activity and close the circadian negative feedback loop...
  8. ncbi request reprint Light-independent phosphorylation of WHITE COLLAR-1 regulates its function in the Neurospora circadian negative feedback loop
    Qiyang He
    Department of Physiology, The University of Texas Southwestern Medical Center, Dallas, Texas 75390, USA
    J Biol Chem 280:17526-32. 2005
    ..Together, these data suggest that phosphorylation of these sites negatively regulates the function of WC-1 in the circadian negative feedback loop and is important for the function of the Neurospora circadian clock...
  9. pmc Regulation of the Neurospora circadian clock by an RNA helicase
    Ping Cheng
    Department of Physiology, University of Texas Southwestern Medical Center, Dallas, TX 75390, USA
    Genes Dev 19:234-41. 2005
    ..These data demonstrate that FRH is an essential component in the circadian negative-feedback loop and reveal an unexpected role of an RNA helicase in regulating gene transcription...
  10. pmc Functional significance of FRH in regulating the phosphorylation and stability of Neurospora circadian clock protein FRQ
    Jinhu Guo
    Department of Physiology, University of Texas Southwestern Medical Center, Dallas, Texas 75390, USA
    J Biol Chem 285:11508-15. 2010
    ..Furthermore, we showed that the rapid FRQ degradation in the absence of FRH is independent of FWD-1, the ubiquitin E3 ligase of FRQ under normal conditions, thus uncovering an alternative pathway for FRQ degradation...
  11. pmc Setting the pace of the Neurospora circadian clock by multiple independent FRQ phosphorylation events
    Chi Tai Tang
    Department of Physiology, The University of Texas Southwestern Medical Center, 5323 Harry Hines Boulevard, Dallas, TX 75390, USA
    Proc Natl Acad Sci U S A 106:10722-7. 2009
    ..A model is proposed to explain how FRQ stability is regulated by multiple phosphorylation events...
  12. pmc Phosphorylation of FREQUENCY protein by casein kinase II is necessary for the function of the Neurospora circadian clock
    Yuhong Yang
    Department of Physiology, The University of Texas Southwestern Medical Center, Dallas, Texas 75390 9040, USA
    Mol Cell Biol 23:6221-8. 2003
    ..Together, these data indicate that CKII is an important component of the Neurospora circadian clock...
  13. pmc Functional conservation of light, oxygen, or voltage domains in light sensing
    Ping Cheng
    Department of Physiology, University of Texas Southwestern Medical Center, 5323 Harry Hines Boulevard, Dallas, TX 75390, USA
    Proc Natl Acad Sci U S A 100:5938-43. 2003
    ..Taken together, our data suggest that these LOV domains are structurally similar protein modules involved in blue-light sensing...
  14. pmc Control of WHITE COLLAR localization by phosphorylation is a critical step in the circadian negative feedback process
    Joonseok Cha
    Department of Physiology, The University of Texas Southwestern Medical Center, Dallas, TX 75390 9040, USA
    EMBO J 27:3246-55. 2008
    ....
  15. pmc A double-stranded-RNA response program important for RNA interference efficiency
    Swati Choudhary
    Department of Physiology, Room ND13 214A, University of Texas Southwestern Medical Center, 5323 Harry Hines Blvd, Dallas, TX 75390 9040, USA
    Mol Cell Biol 27:3995-4005. 2007
    ..Together, our results suggest that the activation of the RNAi components is part of a broad ancient host defense response against viral and transposon infections...
  16. ncbi request reprint WHITE COLLAR-1, a multifunctional neurospora protein involved in the circadian feedback loops, light sensing, and transcription repression of wc-2
    Ping Cheng
    Department of Physiology, University of Texas Southwestern Medical Center, Dallas 75390, USA
    J Biol Chem 278:3801-8. 2003
    ....
  17. pmc Molecular mechanism of light responses in Neurospora: from light-induced transcription to photoadaptation
    Qiyang He
    Department of Physiology, The University of Texas Southwestern Medical Center, Dallas, Texas 75390, USA
    Genes Dev 19:2888-99. 2005
    ..Finally, phosphorylation was also shown to inhibit the LRE-binding activity of D-WCC (dark WC complex), suggesting that it plays an important role in the circadian negative feedback loop...
  18. pmc FWD1-mediated degradation of FREQUENCY in Neurospora establishes a conserved mechanism for circadian clock regulation
    Qun He
    Department of Physiology, The University of Texas Southwestern Medical Center, 5323 Harry Hines Blvd, Dallas, TX 75390, USA
    EMBO J 22:4421-30. 2003
    ....
  19. pmc Protein kinase A and casein kinases mediate sequential phosphorylation events in the circadian negative feedback loop
    Guocun Huang
    Department of Physiology, The University of Texas Southwestern Medical Center, Dallas, Texas 75390, USA
    Genes Dev 21:3283-95. 2007
    ..Thus, PKA is a key clock component that regulates several critical processes in the circadian negative feedback loop...
  20. pmc qiRNA is a new type of small interfering RNA induced by DNA damage
    Heng Chi Lee
    Department of Physiology, University of Texas Southwestern Medical Center, 5323 Harry Hines Boulevard, Dallas, Texas 75390, USA
    Nature 459:274-7. 2009
    ..Furthermore, the Neurospora RNA interference mutants show increased sensitivity to DNA damage, suggesting a role for qiRNAs in the DNA-damage response by inhibiting protein translation...
  21. pmc The translin-TRAX complex (C3PO) is a ribonuclease in tRNA processing
    Liande Li
    Department of Physiology, The University of Texas Southwestern Medical Center, Dallas, Texas, USA
    Nat Struct Mol Biol 19:824-30. 2012
    ..This study identifies the endogenous RNA substrates of C3PO and provides a potential explanation for its roles in apparently diverse biological processes...
  22. pmc Regulation of the Neurospora circadian clock by casein kinase II
    Yuhong Yang
    Department of Physiology, The University of Texas Southwestern Medical Center, Dallas, Texas 75390, USA
    Genes Dev 16:994-1006. 2002
    ..Taken together, our results suggest that CKII is an important component of the Neurospora circadian clock...
  23. pmc Transcription of the major neurospora crassa microRNA-like small RNAs relies on RNA polymerase III
    Qiuying Yang
    Department of Physiology, The University of Texas Southwestern Medical Center, Dallas, Texas, USA
    PLoS Genet 9:e1003227. 2013
    ..Our study identifies the transcriptional machinery responsible for the synthesis of fungal milRNAs and sheds light on the evolutionary origin of eukaryotic small RNAs...
  24. pmc Homologous recombination as a mechanism to recognize repetitive DNA sequences in an RNAi pathway
    Zhenyu Zhang
    Department of Physiology, The University of Texas Southwestern Medical Center, Dallas, Texas 75390, USA
    Genes Dev 27:145-50. 2013
    ..Together, our results suggest that DNA damage-triggered HR-based recombination allows the RNAi pathway to recognize repetitive DNA to produce small RNA...
  25. pmc Distinct roles for PP1 and PP2A in the Neurospora circadian clock
    Yuhong Yang
    Department of Physiology, University of Texas Southwestern Medical Center, Dallas, Texas 75390, USA
    Genes Dev 18:255-60. 2004
    ..Furthermore, PP1 and PP2A expressed in Neurospora can dephosphorylate the endogenous FRQ in vitro, suggesting that these two phosphatases may differentially regulate FRQ and, consequently, the behavior of the circadian clock...
  26. pmc Diverse pathways generate microRNA-like RNAs and Dicer-independent small interfering RNAs in fungi
    Heng Chi Lee
    Department of Physiology, The University of Texas Southwestern Medical Center, Dallas, TX 75390, USA
    Mol Cell 38:803-14. 2010
    ..Taken together, these results uncover several pathways for small RNA production in filamentous fungi, shedding light on the diversity and evolutionary origins of eukaryotic small RNAs...
  27. pmc Regulation of the activity and cellular localization of the circadian clock protein FRQ
    Joonseok Cha
    Department of Physiology, The University of Texas Southwestern Medical Center at Dallas, Dallas, Texas 75390 9040, USA
    J Biol Chem 286:11469-78. 2011
    ..Our results indicate that the rhythmic FRQ phosphorylation profile observed is an important part of the negative feedback mechanism that drives robust circadian gene expression...
  28. pmc The COP9 signalosome regulates the Neurospora circadian clock by controlling the stability of the SCFFWD-1 complex
    Qun He
    Department of Physiology, The University of Texas Southwestern Medical Center, Dallas, Texas 75390, USA
    Genes Dev 19:1518-31. 2005
    ..Our findings also reconcile the CSN paradox and suggest that a major function of CSN is to maintain the stability of SCF ubiquitin ligases in vivo...
  29. pmc Non-optimal codon usage affects expression, structure and function of clock protein FRQ
    Mian Zhou
    Department of Physiology, The University of Texas Southwestern Medical Center, 5323 Harry Hines Boulevard, Dallas, Texas 75390, USA
    Nature 495:111-5. 2013
    ..Our study provides an example of how non-optimal codon usage functions to regulate protein expression and to achieve optimal protein structure and function...
  30. pmc Molecular mechanism of suppression of circadian rhythms by a critical stimulus
    Guocun Huang
    Department of Physiology, The University of Texas Southwestern Medical Center, Dallas, TX 75390, USA
    EMBO J 25:5349-57. 2006
    ..Together, these data suggest that the singularity behavior is due to a circadian negative feedback loop driven to a steady state after the critical treatment. After the initial arrhythmicity, cell populations are then desynchronized...
  31. doi request reprint Biochemical methods used to study the gene expression and protein complexes in the filamentous fungus Neurospora crassa
    Jinhu Guo
    Department of Physiology, The University of Texas Southwestern Medical Center, Dallas, TX, USA
    Methods Mol Biol 638:189-200. 2010
    ..These methods can also be modified for use in other filamentous fungi...
  32. doi request reprint Diverse small non-coding RNAs in RNA interference pathways
    Liande Li
    Department of Physiology, The University of Texas Southwestern Medical Center, Dallas, TX, USA
    Methods Mol Biol 764:169-82. 2011
    ..This review summarizes the various classes of eukaryotic small RNAs and the general knowledge of their characteristics, biogenesis, and functions, with emphasis on some of the recently identified small RNAs...
  33. pmc PAS domain-mediated WC-1/WC-2 interaction is essential for maintaining the steady-state level of WC-1 and the function of both proteins in circadian clock and light responses of Neurospora
    Ping Cheng
    Department of Physiology Department of Biochemistry, University of Texas Southwestern Medical Center, Dallas, Texas 75390, USA
    Mol Cell Biol 22:517-24. 2002
    ..Such interactions are essential for maintaining the steady-state level of WC-1 and the proper function of WC-1 and WC-2 in circadian clock and light responses...
  34. pmc Reconstitution of an Argonaute-dependent small RNA biogenesis pathway reveals a handover mechanism involving the RNA exosome and the exonuclease QIP
    Zhihong Xue
    Department of Physiology, The University of Texas Southwestern Medical Center, Dallas, TX 75390, USA
    Mol Cell 46:299-310. 2012
    ..In addition, exosome is also important for the decay of sRNAs. Together, our results establish a biochemical mechanism of an Argonaute-dependent sRNA biogenesis pathway and critical roles of exosome in sRNA processing...
  35. pmc The exosome regulates circadian gene expression in a posttranscriptional negative feedback loop
    Jinhu Guo
    Department of Physiology, University of Texas Southwestern Medical Center, Dallas, TX 75390, USA
    Cell 138:1236-46. 2009
    ..Taken together, these results suggest that FFC and the exosome are part of a posttranscriptional negative feedback loop that regulates frq transcript levels and the circadian output pathway...
  36. pmc QIP, a putative exonuclease, interacts with the Neurospora Argonaute protein and facilitates conversion of duplex siRNA into single strands
    Mekhala Maiti
    Department of Physiology, University of Texas Southwestern Medical Center, Dallas, Texas 75390, USA
    Genes Dev 21:590-600. 2007
    ..Together, these results suggest that both the cleavage and removal of the passenger strand from the siRNA duplex are important steps in RNAi pathways...
  37. doi request reprint RNA interference pathways in filamentous fungi
    Liande Li
    Department of Physiology, The University of Texas Southwestern Medical Center, Dallas, 75390 9040, USA
    Cell Mol Life Sci 67:3849-63. 2010
    ..This review summarizes our current understanding of RNAi pathways in filamentous fungi...
  38. ncbi request reprint RNA interference pathways in fungi: mechanisms and functions
    Shwu Shin Chang
    Department of Physiology, The University of Texas Southwestern Medical Center, Dallas, 75390, USA
    Annu Rev Microbiol 66:305-23. 2012
    ..In this review, we give an overview of different fungal RNAi pathways with a focus on their mechanisms and functions...
  39. pmc Convergent Transcription Induces Dynamic DNA Methylation at disiRNA Loci
    Yunkun Dang
    Department of Physiology, The University of Texas Southwestern Medical Center, Dallas, Texas, United States of America
    PLoS Genet 9:e1003761. 2013
    ..Importantly, DLDM is triggered by convergent transcription and enriched in promoter regions. Together, our results establish a new mechanism that triggers DNA methylation. ..
  40. pmc Interlocked feedback loops contribute to the robustness of the Neurospora circadian clock
    P Cheng
    Department of Physiology, University of Texas Southwestern Medical Center, Dallas, TX 75390-9040, USA
    Proc Natl Acad Sci U S A 98:7408-13. 2001
    ....
  41. ncbi request reprint Identification of a calcium/calmodulin-dependent protein kinase that phosphorylates the Neurospora circadian clock protein FREQUENCY
    Y Yang
    Department of Physiology, The University of Texas Southwestern Medical Center, Dallas, Texas 75390-9040, USA
    J Biol Chem 276:41064-72. 2001
    ..Taken together, our results suggest that multiple kinases may phosphorylate FRQ in vivo...
  42. ncbi request reprint DNA binding and transcriptional activation by a PDX1.PBX1b.MEIS2b trimer and cooperation with a pancreas-specific basic helix-loop-helix complex
    Y Liu
    Department of Molecular Biology, University of Texas Southwestern Medical Center, Dallas, Texas 75390 9148, USA
    J Biol Chem 276:17985-93. 2001
    ..PBX1b.MEIS2b complex cooperates with the PTF1 basic helix-loop-helix complex to activate an ELA1 minienhancer in HeLa cells and that this cooperation requires all three homeoprotein subunits, including the PDX1 activation domain...
  43. pmc Coiled-coil domain-mediated FRQ-FRQ interaction is essential for its circadian clock function in Neurospora
    P Cheng
    Department of Physiology, University of Texas Southwestern Medical Center, 5323 Harry Hines Boulevard, Dallas, TX 75390-9040, USA
    EMBO J 20:101-8. 2001
    ..Taken together, these data strongly suggest that the formation of the FRQ-FRQ and FRQ-WC complexes is essential for the function of the NEUROSPORA: clock...
  44. ncbi request reprint Posttranslational control of the Neurospora circadian clock
    J Cha
    Department of Physiology, University of Texas Southwestern Medical Center, Dallas, Texas 75390 9040, USA
    Cold Spring Harb Symp Quant Biol 72:185-91. 2007
    ..In this chapter, we summarize recent studies of the Neurospora circadian clock with emphasis on posttranslational regulation in the circadian negative feedback loop...
  45. pmc An endocrine-exocrine switch in the activity of the pancreatic homeodomain protein PDX1 through formation of a trimeric complex with PBX1b and MRG1 (MEIS2)
    G H Swift
    Department of Molecular Biology and Oncology, University of Texas Southwestern Medical Center, Dallas, Texas 75235, USA
    Mol Cell Biol 18:5109-20. 1998
    ..These observations suggest that association with PBX and MEIS partners controls the nature of the transcriptional activity of the organ-specific PDX1 transcription factor in exocrine versus endocrine cells...
  46. ncbi request reprint White Collar-1, a circadian blue light photoreceptor, binding to the frequency promoter
    Allan C Froehlich
    Department of Genetics, Dartmouth Medical School, Hanover, NH 03755, USA
    Science 297:815-9. 2002
    ....
  47. ncbi request reprint The Neurospora crassa circadian clock
    Christian Heintzen
    Faculty of Life Sciences, University of Manchester, Manchester M13 9PT, United Kingdom
    Adv Genet 58:25-66. 2007
    ..In summarizing our current understanding of the molecular basis of the Neurospora circadian system, this chapter aims to elucidate the basic building blocks of model eukaryotic clocks as we understand them today...
  48. ncbi request reprint Involvement of upstream stimulatory factors 1 and 2 in RANKL-induced transcription of tartrate-resistant acid phosphatase gene during osteoclast differentiation
    Yi Liu
    Department of Pathology, The University of Alabama, Birmingham, Alabama 35294, USA
    J Biol Chem 278:20603-11. 2003
    ..In summary, our data show that USF1 and USF2 play a functional role in RANKL-dependent TRAP expression during osteoclast differentiation...
  49. ncbi request reprint Studies on interactions of programmed cell death 5 (PDCD5) and its related peptides with heparin by capillary zone electrophoresis
    Xiaomei Ling
    Department of Pharmaceutical Analysis, School of Pharmaceutical Sciences, Peking University, Beijing, 100083, China
    Anal Bioanal Chem 387:909-16. 2007
    ..Our investigations show that it is possible to characterize the interaction between PDCD5 and heparin quantitatively and the interaction between PDCD5-related peptides and heparin qualitatively using CZE...
  50. ncbi request reprint TRIP6 is a RIP2-associated common signaling component of multiple NF-kappaB activation pathways
    Lianyun Li
    Department of Cell Biology and Genetics, College of Life Sciences, Peking University, Beijing 100871, China
    J Cell Sci 118:555-63. 2005
    ..These data have established a physical and functional association between TRIP6 and RIP2, and suggest that RIP2's involvement in multiple NF-kappaB and ERK activation pathways is mediated through TRIP6...
  51. ncbi request reprint Cytokine-mediated regulation of activating and inhibitory Fc gamma receptors in human monocytes
    Yi Liu
    Research Division, Hospital for Special Surgery, Department of Medicine and Graduate Program in Immunology, Weill Medical College of Cornell University, 535 East 70th Street, New York, NY 10021, USA
    J Leukoc Biol 77:767-76. 2005
    ..Our findings suggest that the cytokine milieu can induce changes in the relative expression of Fc gammaR with opposing function and thus, may regulate the amplitude of Fc gammaR-mediated uptake and inflammation...
  52. ncbi request reprint Microcalorimetry is a sensitive method for studying the effect of nucleotide mutation on promoter activity
    Yang Yang
    Department of Biotechnology, College of Life Sciences, Wuhan University, Wuhan 430072, P R China
    J Biochem Biophys Methods 62:183-9. 2005
    ..Our research also suggest that the microcalorimetric method is a very sensitive and easily performed method for investigation of promoter mutation...
  53. ncbi request reprint Fluorometric investigation of the interaction between methylene blue and human serum albumin
    Yan Jun Hu
    Department of Chemistry, College of Chemistry and Molecular Sciences, Wuhan University, Wuhan 430072, PR China
    J Pharm Biomed Anal 39:740-5. 2005
    ..Wavelength shifts in synchronous fluorescence spectra showed the conformation of HSA molecules is changed in the presence of MB...
  54. ncbi request reprint Growth and reactions of SiOx/Si nanostructures on surface-templated molecule corrals
    Yi Liu
    Department of Chemistry and Biochemistry, University of Delaware, Newark, Delaware 19716, USA
    Langmuir 21:8883-91. 2005
    ..The SiOx/Si nanostructures were also found to be stable toward multiple chemical reactions. Selective modification of SiOx/Si nanostructures on the HOPG basal plane is thus achievable...
  55. ncbi request reprint Labeling of human insulin-like growth factor-I eukaryotic expression vector with green fluorescent protein
    Yi Liu
    Department of Orthopaedic Surgery, First Hospital, Jilin University, Changchun 130021, China
    Chin J Traumatol 8:132-7. 2005
    ..To label human insulin-like growth factor-I (hIGF-I) eukaryotic expression vector with green fluorescent protein (GFP) for the repair of articular cartilage defects...
  56. ncbi request reprint [Genomic context of nucleus influences mitochondrial gene expression of HL-type rice]
    Yi Ping
    College of Chemistry and Molecular Science, Wuhan University, Wuhan 430072, China
    Yi Chuan 26:186-8. 2004
    ..Many different fragments are obtained from hybrids, but not from sterile line or remainder line. According to the results, it is concluded that there are extensive effects of nuclear background on mitochondrial gene expression...
  57. ncbi request reprint Shock waves increase T-cell proliferation or IL-2 expression by activating p38 MAP kinase
    Tie Cheng Yu
    Department of Orthopedics, The First Teaching Hospital of Jilin University, Changchun 130021, China
    Acta Biochim Biophys Sin (Shanghai) 36:741-8. 2004
    ..We concluded that the p38 MAPK activation played a key role in the regulation of T cells function by the LDSWs...
  58. ncbi request reprint Role for sterol regulatory element-binding protein in activation of endothelial cells by phospholipid oxidation products
    Michael Yeh
    Department of Medicine, Geffen School of Medicine at University of California Los Angeles, USA
    Circ Res 95:780-8. 2004
    ..The current studies suggest a novel role for endothelial cholesterol depletion and subsequent SREBP activation in inflammatory processes in which phospholipid oxidation products accumulate...
  59. ncbi request reprint Sterol-responsive element-binding protein (SREBP) 2 down-regulates ATP-binding cassette transporter A1 in vascular endothelial cells: a novel role of SREBP in regulating cholesterol metabolism
    Lingfang Zeng
    Division of Biomedical Sciences, University of California, Riverside, Riverside, California 92521, USA
    J Biol Chem 279:48801-7. 2004
    ..Thus, this SREBP-regulated mechanism may control the efflux of cholesterol, which is a newly defined function of SREBP2 in ECs in addition to its role in cholesterol uptake and biosynthesis...
  60. ncbi request reprint Phase determination of circadian gene expression in Synechococcus elongatus PCC 7942
    Hongtao Min
    Department of Biology, Texas A and M University, College Station, TX 77843 3258, USA
    J Biol Rhythms 19:103-12. 2004
    ..elongatus. To test this hypothesis, they fused the well-characterized DNA topology-dependent Escherichia coli fis promoter to luciferase and showed that it acts as a class 2 promoter in S. elongatus...
  61. pmc Fluorescent detection and isolation of DNA variants using stabilized RecA-coated oligonucleotides
    Michael C Rice
    Department of Biology, Delaware Biotechnology Institute, University of Delaware, Newark, Delaware 19711, USA
    Genome Res 14:116-25. 2004
    ..Stabilized double D-Loop intermediates accordingly offer the promise of haplotyping and pharmacogenomic analysis directly in double-stranded DNA samples...
  62. ncbi request reprint Rho-ROCK-LIMK-cofilin pathway regulates shear stress activation of sterol regulatory element binding proteins
    Tong Lin
    Division of Biomedical Sciences, University of California, Riverside, Riverside, Calif 92521 0121, USA
    Circ Res 92:1296-304. 2003
    ..By enhancing the SREBP-mediated cholesterol metabolism, this unique mechanism may contribute to endothelial cell functions under flow...
  63. ncbi request reprint Interaction of colchicine with human serum albumin investigated by spectroscopic methods
    Yan Jun Hu
    College of Chemistry and Molecular Sciences, Wuhan University, Wuhan 430072, PR China
    Int J Biol Macromol 37:122-6. 2005
    ..The distance r between donor (Trp214) and acceptor (colchicine) was obtained according to fluorescence resonance energy transfer (FRET)...
  64. ncbi request reprint High levels of protein expression using different mammalian CMV promoters in several cell lines
    Wei Xia
    Systems Biology, Berlex Biosciences, Richmond, CA, USA
    Protein Expr Purif 45:115-24. 2006
    ..Using the CMV driven constitutive promoters in the presence of intron A, we have been able to generate >10 microg/ml of recombinant protein using transient transfections...
  65. ncbi request reprint Regulated expression of FcgammaR in human dendritic cells controls cross-presentation of antigen-antibody complexes
    Yi Liu
    Research Division, Hospital for Special Surgery, Weill Graduate School of Medical Sciences, New York, NY 10021, USA
    J Immunol 177:8440-7. 2006
    ..The regulated expression of activating and inhibitory FcgammaRs in DCs emerges as a critical checkpoint in the process of Ag uptake and cross-presentation...
  66. pmc Cooperative interactions between CBP and TORC2 confer selectivity to CREB target gene expression
    Kim Ravnskjaer
    Peptide Biology Laboratories, The Salk Institute for Biological Studies, 10010 North Torrey Pines Road, La Jolla, CA 92037, USA
    EMBO J 26:2880-9. 2007
    ..Taken together, these results indicate that TORC2 is one of the long sought after cofactors that mediates the differential effects of cAMP and stress pathways on CREB target gene expression...
  67. ncbi request reprint Cloning and sequence analysis of the gene encoding 19-kD subunit of Complex I from Dunaliella salina
    Yi Liu
    Key Laboratory of Bio resources and Eco environment, Ministry of Education, College of Life Sciences, Sichuan University, Sichuan, P R China
    Mol Biol Rep 35:397-403. 2008
    ..The 19-kD subunit mRNA expression was observed in oxygen deficiency, salt treatment, and rotenone treatment with lower levels. It demonstrate that the 19-kD subunit of Complex I from Dunaliella salina is regulated by these stresses...
  68. pmc Fabrication and evaluation of Bis-GMA/TEGDMA dental resins/composites containing nano fibrillar silicate
    Ming Tian
    Department of Chemistry, South Dakota School of Mines and Technology, Rapid City, SD 57701 3995, United States
    Dent Mater 24:235-43. 2008
    ..To investigate the reinforcement of Bis-GMA/TEGDMA dental resins (without conventional glass filler) and composites (with conventional glass filler) with various mass fractions of nano fibrillar silicate (FS)...
  69. pmc R-Spondin1 regulates Wnt signaling by inhibiting internalization of LRP6
    Minke E Binnerts
    Nuvelo, Inc, 201 Industrial Road, Suite 310, San Carlos, CA 94070 6211, USA
    Proc Natl Acad Sci U S A 104:14700-5. 2007
    ..Our results support a model in which RSpo1 relieves the inhibition DKK1 imposes on the Wnt pathway...
  70. ncbi request reprint Insulin modulates gluconeogenesis by inhibition of the coactivator TORC2
    Renaud Dentin
    Peptide Biology Laboratories, Salk Institute for Biological Studies, La Jolla, California 92037, USA
    Nature 449:366-9. 2007
    ..Because TORC2 protein levels and activity were increased in diabetes owing to a block in TORC2 phosphorylation, our results point to an important role for this pathway in the maintenance of glucose homeostasis...
  71. ncbi request reprint [Influencing factors on dampproof effect of microcapsules and study on mechanism]
    Yi Feng
    Shanghai University of Traditional Chinese Medicine, Shanghai 201203, China
    Zhongguo Zhong Yao Za Zhi 32:1409-12. 2007
    ..The influence of spray drying technology on the damp proof effect of microcapsules and the mechanism were studied...
  72. pmc CCAAT/enhancer-binding protein beta and delta binding to CIITA promoters is associated with the inhibition of CIITA expression in response to Mycobacterium tuberculosis 19-kDa lipoprotein
    Meghan E Pennini
    Department of Pathology, Case Western Reserve University, Cleveland, OH 44106, USA
    J Immunol 179:6910-8. 2007
    ....
  73. ncbi request reprint NO-1886 upregulates ATP binding cassette transporter A1 and inhibits diet-induced atherosclerosis in Chinese Bama minipigs
    Chi Zhang
    Institute of Cardiovascular Research, Nanhua University Medical School, Hengyang, Hunan 421001, China
    J Lipid Res 47:2055-63. 2006
    ..These results demonstrate that the mechanism of atherosclerosis inhibition for NO-1886 is associated with its effect on ABCA1...
  74. ncbi request reprint Microcalorimetric and spectroscopic investigation of the antibacterial properties of cationic ytterbium(III)-porphyrin complexes lacking charged peripheral groups
    An Xin Hou
    Department of Chemistry, Wuhan University, Wuhan 430072, PR China
    Chem Biodivers 4:2889-99. 2007
    ....
  75. ncbi request reprint Phenotypic and functional analysis of LCMV gp33-41-specific CD8 T cells elicited by multiple peptide immunization in mice revealed the up-regulation of PD-1 expression on antigen-specific CD8 T cells
    Yi Liu
    Institute of Dermatology, Chinese Academy of Medical Sciences and Peking Union Medical College, Nanjing 210042, China
    Cell Mol Immunol 4:431-7. 2007
    ....
  76. doi request reprint The TEAD/TEF family protein Scalloped mediates transcriptional output of the Hippo growth-regulatory pathway
    Shian Wu
    Department of Molecular Biology and Genetics, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA
    Dev Cell 14:388-98. 2008
    ..Our results uncover a heretofore missing link in the Hpo signaling pathway and provide a glimpse of the molecular events on a Hpo-responsive enhancer element...
  77. ncbi request reprint CAT in the HAT: catabolic inhibition by the histone acetyltransferase GCN5
    Yi Liu
    The Salk Institute, 10010 North Torrey Pines Road, La Jolla, California 92037, USA
    Cell Metab 3:387-8. 2006
    ..In this issue of Cell Metabolism, Puigserver and colleagues (Lerin et al., 2006) report that the histone acetyltransferase GCN5 inhibits gluconeogenesis by acetylating and sequestering PGC-1alpha in nuclear foci...
  78. doi request reprint TRPV2 is activated by cannabidiol and mediates CGRP release in cultured rat dorsal root ganglion neurons
    Ning Qin
    Analgesics Team, East Coast Research and Early Development, Johnson and Johnson Pharmaceutical Research and Development, Spring House, Pennsylvania 19477 0776, USA
    J Neurosci 28:6231-8. 2008
    ..Together, these data suggest not only that TRPV2 may comprise a mechanism whereby cannabidiol exerts its clinically beneficial effects in vivo, but also that TRPV2 may constitute a viable, new drug target...
  79. pmc Evaluation of the light-sensitive cytotoxicity of Hypericum perforatum extracts, fractions, and pure compounds
    Laura A Schmitt
    The Center for Research on Dietary Botanical Supplements, Iowa State University, Ames, Iowa 50014, USA
    J Agric Food Chem 54:2881-90. 2006
    ..The absence of light-sensitive toxicity with the Hp extracts suggests that the hypericins were not playing a prominent role in the toxicity of the extracts...
  80. ncbi request reprint Shear stress activation of SREBP1 in endothelial cells is mediated by integrins
    Yi Liu
    Department of Bioengineering and Whitaker Institute of Biomedical Engineering, University of California at San Diego, La Jolla, USA
    Arterioscler Thromb Vasc Biol 22:76-81. 2002
    ..These results demonstrate that integrin signaling plays a critical role in the modulation of SREBP in ECs in response to shear stress...

Research Grants21

  1. Double-stranded RNA-mediated signaling pathway and gene silencing
    Yi Liu; Fiscal Year: 2010
    ..A better understanding of these pathways will potentially lead to new therapeutic approaches for treating human diseases. ..
  2. MOLECULAR MECHANISMS OF THE NEUROSPORA CIRCADIAN CLOCK
    Yi Liu; Fiscal Year: 2009
    ..Because of the conservation of the posttranslational regulations of eukaryotic clock proteins, our studies should provide important information relevant to the circadian systems in higher eukaryotic organisms. ..
  3. Posttranscriptional Regulation of the Neurospora Circadian Clock
    Yi Liu; Fiscal Year: 2010
    ..Because of the similarities between the Neurospora circadian clock and those of higher eukaryotes, our results in Neurospora will have important implications for the understanding of eukaryotic circadian clock mechanisms. ..
  4. Posttranscriptional Regulation of the Neurospora Circadian Clock
    Yi Liu; Fiscal Year: 2009
    ..Because of the similarities between the Neurospora circadian clock and those of higher eukaryotes, our results in Neurospora will have important implications for the understanding of eukaryotic circadian clock mechanisms. ..
  5. MOLECULAR MECHANISMS OF THE NEUROSPORA CIRCADIAN CLOCK
    Yi Liu; Fiscal Year: 2007
    ..Because of the conservation of the posttranslational regulations of eukaryotic clock proteins, our studies should provide important information relevant to the circadian systems in higher eukaryotic organisms. ..
  6. Light Input Pathway of the Neurospora Circadian Clock
    Yi Liu; Fiscal Year: 2006
    ..the light input mechanism of the Neurospora clock in genetic, biochemical, and molecular terms, and the information we obtain should provide fundamental information relevant to the light input pathway in other organisms ..
  7. MOLECULAR MECHANISMS OF THE NEUROSPORA CIRCADIAN CLOCK
    Yi Liu; Fiscal Year: 2005
    ..Together, these studies will allow us to describe the framework of the Neurospora clock in genetic and molecular terms. ..
  8. MOLECULAR MECHANISMS OF THE NEUROSPORA CIRCADIAN CLOCK
    Yi Liu; Fiscal Year: 2010
    ..A better understanding of circadian clocks will potentially lead to new therapeutic approaches for treating human diseases. ..