Scientific Research

Zhiping-Xie

Research area:                                                                                                       GroupPro>>  
       Autophagy is a major intracellular degradation pathway critical for the health maintenance of eukaryotes. As it is mediated by vesicular trafficking, the degradation capacity of autophagy far surpasses that of the proteasomal pathway. It is the only known pathway capable of eliminating entire organelles. The current explosion of autophagy research was ignited in the 90s by pioneering works of Daniel J. Klionsky and Yoshinori Ohsumi. The identification of autophagy-related (ATG) genes in yeast greatly facilitated the subsequent expansion of research into multicellular organisms and the exploration of the physiological functions of autophagy.

       The central step in macroautophagy (the best documented form of autophagy) is the formation of autophagosomes, which are double-membrane vesicles responsible for the sequestration and transport of degradation targets. One main focus of our past and current research is the elucidation of the molecular mechanisms underlying the membrane dynamics during autophagosome formation. In addition, we have a general interest in the study of intracellular membrane trafficking and the application of mathematics in biology.

 

Publications (Updated 2020.08)

  1. Zhu J, Xie Z*. Assays for Autophagy III: Observing Dynamic Protein Trafficking. Methods Mol Biol. 2021;2196:211-222. (Book Chapter)
  2. Li D, Yang SG, He CW, Zhang ZT, Liang Y, Li H, Zhu J, Su X*, Gong Q*, Xie Z*. Excess diacylglycerol at the endoplasmic reticulum disrupts endomembrane homeostasis and autophagy. BMC Biol. 2020 Aug 28;18(1):107. 
  3.  Zhu J, Zhang ZT, Tang SW, Zhao BS, Li H, Song JZ, Li D, Xie Z*. A Validated Set of Fluorescent-Protein-Based Markers for Major Organelles in Yeast (Saccharomyces cerevisiae). mBio. 2019 Sep 3;10(5). pii: e01691-19. 
  4. Zhu J, Deng S, Lu P, Bu W, Li T, Yu L*, Xie Z*. The Ccl1-Kin28 kinase complex regulates autophagy under nitrogen starvation. J Cell Sci. 2016 Jan1;129(1):135-44.
  5. Li D, Song JZ, Shan MH, Li SP, Liu W, Li H, Zhu J, Wang Y, Lin J, Xie Z*. A fluorescent tool set for yeast Atg proteins. Autophagy. 2015 Jun 3;11(6):954-60.
  6. Li D, Song JZ, Li H, Shan MH, Liang Y, Zhu J, Xie Z*. Storage lipid synthesis is necessary for autophagy induced by nitrogen starvation. FEBS Lett. 2015 Jan 16;589(2):269-76.  
  7. Chen Y, Zhou F, Zou S, Yu S, Li S, Li D, Song J, Li H, He Z, Hu B, Björn LO, Lipatova Z, Liang Y*, Xie Z*, Segev N*. A Vps21 endocytic module regulates autophagy. Mol Biol Cell. 2014 Oct 15; 25(20):3166-77.  
  8. Huang WP, Shintani T, Xie Z*. Assays for autophagy I: the cvt pathway and nonselective autophagy. Methods Mol Biol. 2014; 1163:153-64. (Book Chapter)
  9. Backues SK, Chen D, Ruan J, Xie Z*, Klionsky DJ*. Estimating the size and number of autophagic bodies by electron microscopy. Autophagy. 2014 Jan 1;10(1):155-64.  
  10. Zou S, Chen Y, Liu Y, Segev N, Yu S, Liu Y, Min G, Ye M, Zeng Y, Zhu X, Hong B, Björn LO, Liang Y*, Li S* and Xie Z*. Trs130 participates in autophagy through GTPases Ypt31/32 in Saccharomyces cerevisiae. Traffic. 2013 Feb;14(2):233-46.   
  11. Yu ZQ, Ni T, Hong B, Wang HY, Jiang FJ, Zou S, Chen Y, Zheng XL, Klionsky DJ, Liang Y, Xie Z*. Dual Roles of Atg8−PE Deconjugation by Atg4 in Autophagy. Autophagy. 2012 Jun;8(6):883-92.  
  12. Yang J, Zhao Y, Ma K, Jiang FJ, Liao W, Zhang P, Zhou J, Tu B, Wang L, Kampinga HH, Xie Z*, Zhu WG*. Deficiency of hepatocystin induces autophagy through an mTOR-dependent pathway. Autophagy. 2011 Jul;7(7):748-59.  
  13. 王海燕,倪涛,谢志平*。“酵母中细胞自噬的研究进展”。中国细胞生物学学报(Chinese Journal of Cell Biology)2010, 32(6):829-39。特约综述。
  14. Xie Z, Nair U, Geng J, Szefler MB, Rothman ED, Klionsky DJ. Indirect estimation of the area density of Atg8 on the phagophore. Autophagy. 2009 Feb;5(2):217-20.   
  15. Xie Z, Nair U, Klionsky DJ. Dissecting autophagosome formation: the missing pieces. Autophagy. 2008 Oct 1;4(7):920-2.   
  16. Xie Z, Nair U, Klionsky DJ. Atg8 controls phagophore expansion during autophagosome formation. Mol Biol Cell. 2008 Aug;19(8):3290-8.   
  17. Xie Z, Klionsky DJ. Autophagosome formation: core machinery and adaptations. Nat Cell Biol. 2007 Oct;9(10):1102-9. Review.  

 

Other publications

  1. Pei TT, Li H, Liang X, Wang ZH, Liu G, Wu LL, Kim H, Xie Z, Yu M, Lin S, Xu P, Dong TG. Intramolecular chaperone-mediated secretion of an Rhs effector toxin by a type VI secretion system. Nat Commun. 2020 Apr 20;11(1):1865.
  2.  Zhou F, Wu Z, Zhao M, Murtazina R, Cai J, Zhang A, Li R, Sun D, Li W, Zhao L, Li Q, Zhu J, Cong X, Zhou Y, Xie Z, Gyurkovska V, Li L, Huang X, Xue Y, Chen L, Xu H, Xu H, Liang Y, Segev N. Rab5-dependent autophagosome closure by ESCRT. J Cell Biol. 2019 Jun 3;218(6):1908-1927.
  3. Zhu X, Cai J, Zhou F, Wu Z, Li D, Li Y, Xie Z, Zhou Y, Liang Y. Genome-wide screening of budding yeast with honokiol to assciate mitochondrial function with lipid metabolism. Traffic. 2018;19:867–878.
  4. Zhou F, Zou S, Chen Y, Lipatova Z, Sun D, Zhu X, Li R, Wu Z, You W, Cong X, Zhou Y, Xie Z, Gyurkovska V, Liu Y, Li Q, Li W, Cheng J, Liang Y, Segev N. A Rab5 GTPase module is important for autophagosome closure. PLoS Genet. 2017 Sep 21;13(9):e1007020.
  5. Wen FP, Guo YS, Hu Y, Liu WX, Wang Q, Wang YT, Yu HY, Tang CM, Yang J, Zhou T, Xie ZP, Sha JH, Guo X, Li W. Distinct temporal requirements for autophagy and the proteasome in yeast meiosis. Autophagy. 2016 Apr 2;12(4):671-88.
  6.  Dong C, Lin Z, Diao W, Li D, Chu X, Wang Z, Zhou H, Xie Z, Shen Y, Long J. The Elp2 Subunit Is Essential for Elongator Complex Assembly and Functional Regulation. Structure. 2015 Jun 2;23(6):1078-86.
  7.  Li H, Li J, Li Y, Singh P, Cao L, Xu L, Li D, Wang Y, Xie Z, Gui Y, Zheng X. Sonic hedgehog promotes autophagy of vascular smooth muscle cells. Am J Physiol Heart Circ Physiol. 2012 Dec;303(11):H1319-31.  
  8.   Bartholomew CR, Suzuki T, Du Z, Backues SK, Jin M, Lynch-Day MA, Umekawa M, Kamath A, Zhao M, Xie Z, Inoki K, Klionsky DJ. Ume6 transcription factor is part of a signaling cascade that regulates autophagy. Proc Natl Acad Sci U S A. 2012 Jul 10;109(28):11206-10.  
  9. Nair U, Yen WL, Mari M, Cao Y, Xie Z, Baba M, Reggiori F, Klionsky DJ. A role for Atg8-PE deconjugation in autophagosome biogenesis. Autophagy. 2012 May 1;8(5):780-93.  
  10. Yi C, Ma M, Ran L, Zheng J, Tong J, Zhu J, Ma C, Sun Y, Zhang S, Feng W, Zhu L, Le Y, Gong X, Yan X, Hong B, Jiang FJ, Xie Z, Miao D, Deng H, Yu L. Function and molecular mechanism of acetylation in autophagy regulation. Science. 2012 Apr 27;336(6080):474-7.  
  11. Nair U, Cao Y, Xie Z, Klionsky DJ. The roles of the lipid-binding motifs of Atg18 and Atg21 in the cytoplasm to vacuole targeting pathway and autophagy. J Biol Chem. 2010 Apr 9;285(15):11476-88.  

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