Representative publications

1.     Zhang N, Liu J, Guo R, Yan L, Yang Y, Shi C, Zhang M, Shan B, Li W, Gu J*, Xu D*. Palmitoylation licenses RIPK1 kinase activity and cytotoxicity in the TNF pathway. Molecular Cell 2024, doi.org/10.1016/j.molcel.2024.10.002.

2.     Yang Y^#, Fang H^#, Xie Z, Ren F, Yan L, Zhang M, Xu G, Song Z, Chen Z, Sun W, Shan B, Zhu Z, Xu D*. Yersinia infection induces glucose depletion and AMPK-dependent inhibition of pyroptosis in mice. Nature Microbiology 2024, 9:2144-2159.

3.     Yang Y^#, Zhang J^#, Lv M, Cui N, Shan B, Sun Q, Yan L, Zhang M, Zou C, Yuan J, Xu D*. Defective prelamin A processing promotes unconventional necroptosis driven by nuclear RIPK1. Nature Cell Biology 2024, 26(4):567-580. (News & views in Nat Cell Biol 2024, 26:508.)

4.     Zhang N^#, Zhang J^#, Yang Y^#, Shan H, Hou S, Fang H, Ma M, Chen Z, Tan L, Xu D*. A palmitoylation-depalmitoylation relay spatiotemporally controls GSDMD activation in pyroptosis. Nature Cell Biology 2024, 26(5):757-769. (Highlighted in Nat Rev Mol Cell Biol 2024, 25:420.)

5.     Hou S^#, Zhang J^#, Jiang X, Yang Y, Shan B, Zhang M, Liu C, Yuan J, Xu D*. PARP5A and RNF146 phase separation restrains RIPK1-dependent necroptosis. Molecular Cell 2024, 84(5):938-954. (Highlighted in Nat Chem Biol 2024, 20:263. Featured in Mol Cell 2024, 84:811.)

6.     Guo R, Liu J, Min X, Zeng W, Shan B, Zhang M, He Z, Zhang Y, He K, Yuan J, Xu D*. Reduction of DHHC5-mediated Beclin 1 S-palmitoylation underlies autophagy decline in aging. Nature Structural Molecular Biology 2024, 31(2):232-245.

7.     Zhang T^#, Xu D^#*, Liu J^#, Wang M^#, et al, Yuan J*, Wei W*. Prolonged hypoxia alleviates prolyl hydroxylation-mediated suppression of RIPK1 to promote necroptosis and inflammation. Nature Cell Biology 2023, 25(7):950-962. (News & views in Nat Cell Biol 2023, 25:921.)

8.     Zhang T^#, Xu D^#*, Trefts E^#, Lv M^#, et al, Pan L*, Shaw R*, Yuan J*, Wei W*. Metabolic orchestration of cell death by AMPK-mediated phosphorylation of RIPK1. Science 2023, 380(6652):1372-1380. (Highlighted in Science 2023, 380:1322.)

9.     Yan L, Zhang T, Wang K, Chen Z, Yang Y, Shan B, Sun Q, Zhang M, Zhang Y, Zhong Y, Liu N, Gu J*, Xu D*. SENP1 prevents steatohepatitis by suppressing RIPK1-driven apoptosis and inflammation. Nature Communications 2022, 13(1):7153.

10.  Xu D^#, Zhao H^#, Jin M, Zhu H, Shan B, Geng J, Dziedzic S, Amin P, Mifflin L, Naito M, Najafov A, Xing J, Yan L, Liu J, Qin Y, Hu X, Wang H, Zhang M, Manuel V, Tan L, He Z, Sun Z, Lee V, Wagner G, Yuan J*. Modulating TRADD to restore cellular homeostasis and inhibit apoptosis. Nature 2020, 587(7832):133-138.

11.  Xu D^#, Jin T^#, Zhu H, Chen H, Ofengeim D, Zou C, Mifflin L, Pan L, Amin P, LiW, Shan B, Naito M G, Meng H, Li Y, Pan H, Aron L, Adiconis X, Levin J, Yankner B, Yuan J*. TBK1 suppresses RIPK1-driven apoptosis and inflammation during development and in aging. Cell 2018, 174(6):1477-1491. (Previewed in Cell 2018, 174:1339. Highlighted in Nat Cell Biol 2018, 20:1330.)

(^#co-first, *corresponding)

First-authored publications

12.  Xu D^#, Liu J^#, Fu T, Shan B, Qian L, Pan L*., Yuan J*. USP25 regulates Wnt signaling by controlling the stability of tankyrases. Genes Development 2017, 31(10):1024-1035.

13.  Xu D, Shan B, Sun H, Xiao J, Zhu K, Xie X, Li X, Liang W, Lu X, Qian L, Yuan J*. USP14 regulates autophagy by suppressing K63 ubiquitination of Beclin 1. Genes Development 2016, 30(15):1718-1730.

14.  Xu D, Shan B, Lee B, Zhu K, Zhang T, Sun H, Liu M, Shi L, Liang W, Qian L, Xiao J, Wang L, Pan L, Finley D, Yuan J*. Phosphorylation and activation of ubiquitin-specific protease-14 by Akt regulates the ubiquitin-proteasome system. eLife 2015, 4:e10510.

15.  Xu D, Zhang T, Xiao J, Zhu K, Wei R, Wu Z, Meng H, Li Y, Yuan J*. Modification of BECN1 by ISG15 plays a crucial role in autophagy regulation by type I IFN/interferon. Autophagy 2015, 11(4):617-628.

16.  Xu D, Lu C, Chen W*. Palladium-catalyzed double arylations of terminal olefins in acetic acid. Tetrahedron 2012, 68(5):1466-1474.

Review papers

17.  Yang Y, Li X, Zhang T, Xu D*. RIP kinases and necroptosis in aging and aging-related diseases. Life Medicine 2022, lnac003. (Invited Review, Most Picked Paper Award 2022)

18.  Xu D^#, Zou C^#, Yuan J*. Genetic regulation of RIPK1 and necroptosis. Annual Review of Genetics 2021, 55:235-263. (Invited Review)

Co-authored publications

19.  Liu R, Cao H, Zhang S, Cai M, Zou T, Wang G, Zhang D, Wang X, Xu J, Deng S, Li T, Xu D, Gu J. ZBP1-mediated apoptosis and inflammation exacerbate steatotic liver ischemia-reperfusion injury. Journal of Clinical Investigation 2024, 14:e180451. doi: 10.1172/JCI180451.

20.  Wei J, Li M, Ye Z, Hu X, He X, Wang J, Chen G, Zou C, Xu D, Zhang H, Yuan J, Zha Y*. Elevated peripheral levels of receptor-interacting protein kinase 1 (RIPK1) and IL-8 as biomarkers of human amyotrophic lateral sclerosis. Signal Transduction and Targeted Therapy 2023, 8(1):451.

21.  Ren J, et al The Aging Biomarker Consortium represents a new era for aging research in China. Nature Medicine 2023, 29(9):2162-2165.

22.  Zhang T, Zhang N, Xing J, Zhang S, Chen Y, Xu D, Gu J*. UDP-glucuronate metabolism controls RIPK1-driven liver damage in nonalcoholic steatohepatitis Nature Communications 2023, 14(1):2715.

23.  Aging Biomarker Consortium. Biomarkers of aging. Science China Life Sciences 2023, 66(5):893-1066.

24.  Li W, Shan B, Zou C, Wang H, Zhang M, Zhu H, Naito M, Xu D, Manuel J, Mifflin L, Hou Z, Ravits J, Yuan J*. Nuclear RIPK1 promotes chromatin remodeling to mediate inflammatory response. Cell Research 2022, 32(7):621-637.

25.  Mei X, Guo Y, Xie Z, Zhong Y, Wu X, Xu D, Li Y, Liu N, Zhu Z*. RIPK1 regulates starvation resistance by modulating aspartate catabolism. Nature Communications 2021, 12(1):6144.

26.  Naito M G, Xu D, Amin P, Lee J, Wang H, Li W, Kelliher M, Pasparakis M, Yuan J*. Sequential activation of necroptosis and apoptosis cooperates to mediate vascular and neural pathology in stroke. PNAS 2020, 117(9):4959-4970.

27.  Li F, Xu D, Wang Y, Zhou Z,Liu J, Hu S, Gong Y, Yuan J, Pan L*. Structural insights into the ubiquitin recognition by OPTN (optineurin) and its regulation by TBK1-mediated phosphorylation. Autophagy 2018, 14 (1):66-79.

28.  Zhu K, Liang W, Ma Z, Xu D, Cao S, Lu X, Liu N, Shan B, Qian L, Yuan J*. Necroptosis promotes cell-autonomous activation of proinflammatory cytokine gene expression. Cell Death Disease 2018, 9(5):500.

29.  Geng J, Ito Y, Shi L, Amin P, Chu J, Ouchida T, Mookhtiar A, Zhao H, Xu D, Shan B, Najafov A, Gao G, Akira S, Yuan J*. Regulation of RIPK1 activation by TAK1-mediated phosphorylation dictates apoptosis and necroptosis. Nature Communications 2017, 8(1):359.

30.  Zhang T, Dong K, Liang W, Xu D, Xia H, Geng J, Najafov A, Liu M, Li Y, Han X, Xiao J, Jin Z,Peng T, Gao Y, Cai Y, Qi C, Zhang Q, Sun A, Lipinski M, Zhu H,Xiong Y, Pandolfi P, Li H, Yu Q, Yuan J*. G-protein-coupled receptors regulate autophagy by ZBTB16-mediated ubiquitination and proteasomal degradation of Atg14L. eLife 2015, 4:e06734.

31.  Xiao J, Zhang T, Xu D, Wang H, Cai Y, Jin T, Liu M, Jin M, Wu K, Yuan J*. FBXL20-mediated Vps34 ubiquitination as a p53 controlled checkpoint in regulating autophagy and receptor degradation. Genes Development 2015, 29(2):184-196.

32.  Liu B, Zhang Y, Xu D, Chen W*. Facile synthesis of metal N-heterocyclic carbene complexes. Chemical Communications 2011 47(10):2883-2885.

33.  Gu S, Xu D, Chen W*. Heterobimetallic complexes containing an N-heterocyclic carbene based multidentate ligand and catalyzed tandem click/Sonogashira reactions. Dalton Transactions 2011, 40(7):1576-1583.