2024

  • Min Emma Huang#; Yining Qin#; Yafang Shang#; Qian Hao; Chuanzong Zhan; Chaoyang Lian; Simin Luo; Liu Daisy Liu; Senxin Zhang; Yu Zhang; Yang Wo; Niu Li; Shuheng Wu; Tuantuan Gui; Binbin Wang; Yifeng Luo; Yanni Cai; Xiaojing Liu; Ziye Xu; Pengfei Dai; Simiao Li; Liang Zhang; Junchao Dong; Jian Wang; Xiaoqi Zheng; Yingjie Xu; Yihua Sun; Wei Wu; Leng-Siew Yeap*; Fei-Long Meng*; C- to-G editing generates double-strand breaks causing deletion, transversion and translocation, Nature Cell Biology, 2024, 26: 294-304
  • Wang Y, Meng F L*, and Yeap L S.*, (2024). DNA flexibility can shape the preferential hypermutation of antibody genes.Trends Immunol., 2024,45(3): 2.

2023

  • Wang, Y. #, Zhang, S., Yang, X., Hwang, J.K., Zhan, C., Lian, C., Wang, C., Gui, T., Wang, B., Xie, X., Dai, P., Zhang, L., Tian, Y., Zhang, H., Han, C., Cai, Y., Hao, Q., Ye, X., Liu, X., Liu, J., Cao, Z., Huang, S., Song, J., Pan-Hammarström, Q., Zhao, Y., Alt, F.W., Zheng, X., Da, L.T., Yeap, L.S.*, and Meng, F.L.* (2023). Mesoscale DNA Feature in Antibody-Coding Sequence Facilitates Somatic Hypermutation. Cell. 2023 May 11;186(10):2193-2207.e19.
  • Hao Q.#, Zhan C.Z.#,  Lian C.Y., Luo S.M., Cao W.Y., Wang B.B, Xie X., Ye X.F., Gui T.T.,  Voena C., Pighi C., Wang Y.Y., Tian Y., Wang X., Dai P.F., Cai Y.N., Liu  X.J., Ouyang S.Q., Sun S.Q., Hu Q.W., Liu J., Ye Y.Q., Zhao J.K., Lu  A., Wang J.Y., Huang C.X., Su B., Meng F.L., Chiarle R.*, Pan-Hammarström Q.*, Yeap L.S.* DNA  repair mechanisms that promote insertion-deletion events during  immunoglobulin gene diversification, Sci Immunol, 2023,  8(81): eade1167.

2022

  • Xie X#, Gan T#, Rao B#, Zhang W, Panchakshari RA, Yang D, Ji X, Cao Y, Alt FW, Meng FL*, Hu J*. (2022) C-terminal deletion-induced condensation sequesters AID from IgH targets in immunodeficiency. EMBO J. e109324
  • Gao M, Li Y, Shu X, Dai P, Cao J, An Y, Li T, Huang Y, Wang F, Lu Z, Meng FL, Feng XH, Ma L, Liu J. (2022) New Chromatin Run-On Reaction Enables Global Mapping of Active RNA Polymerase Locations in an Enrichment-free Manner. ACS Chem Biol. 17(4):768-775
  • Jiang L, Yin J, Qian M, Rong S, Zhang S, Chen K, Zhao C, Tan Y, Guo J, Chen H, Gao S, Liu T, Liu Y, Shen B, Yang J, Zhang Y, Meng FL, Hu J, Ma H, Chen YH. (2022) UdgX-Mediated Uracil Sequencing at Single-Nucleotide Resolution. J Am Chem Soc. 144(3):1323-1331
  • Lin K#, Zhou Y#, Ai J#, Wang Y#, Zhang S#, Qiu C#, Lian C, Gao B, Liu T, Wang H, Zhang H, Zhang Y, Fu Z, Li D, Jiang N, Guo J, Wu J, Wang YO, Song S, Li Q, Yin Y, Xia J, Xu Y, Yeap LS, Zheng X, Gu Y, Liu H*, Zhang W*, and Meng FL*. (2022) B cell Receptor Signatures Associating with Strong and Poor SARS-CoV-2 Vaccine Response. Emerging Microbes & Infections 11(1):452-464
  • Tarsalainen A, Maman Y, Meng FL, Kyläniemi MK, Soikkeli A, Budzyńska P, McDonald JJ, Šenigl F, Alt FW, Schatz DG, Alinikula J. (2022) Ig Enhancers Increase RNA Polymerase II Stalling at Somatic Hypermutation Target Sequences. J Immunol. 208(1):143-154

2021

  • Li T#, Cai H#, Zhao Y#, Li Y#, Lai Y#, Yao H#, Liu LD#, Sun Z#, van Vlissingen MF, Kuiken T, GeurtsvanKessel CH, Zhang N, Zhou B, Lu L, Gong Y, Qin W, Mondal M, Duan B, Xu S, Richard AS, Raoul H, Chen J, Xu C, Wu L, Zhou H, Huang Z, Zhang X, Li J, Wang Y, Bi Y, Rockx B, Chen J, Meng FL*, Lavillette D*, Li D*. (2021) Uncovering a conserved vulnerability site in SARS-CoV-2 by a human antibody. EMBO Mol Med. 13(12):e14544
  • Wang X, Wang Y, Fang Z, Wang H, Zhang J, Zhang L, Huang H, Jiang Z, Jin Y, Han X, Hou S, Zhou B, Meng F, Chen L, Wong KK, Liu J, Zhang Z, Zhang X, Chen H, Sun Y, Hu L, Ji H. (2021) Targeting HSPA1A in ARID2-deficient lung adenocarcinoma. Natl Sci Rev. 8(10)
  • Bai W, Zhu G, Xu J, Chen P, Meng F, Xue H, Chen C, Dong J. (2021) The 3'-flap endonuclease XPF-ERCC1 promotes alternative end joining and chromosomal translocation during B cell class switching. Cell Rep. 36(13):109756
  • Liu M, Zhang W, Xin C, Yin J, Shang Y, Ai C, Li J, Meng FL, Hu J. (2021) Global detection of DNA repair outcomes induced by CRISPR-Cas9. Nucleic Acids Res. 49(15):8732-8742
  • Yuan C, Chen H, Tu S, Huang HY, Pan Y, Gui X, Kuang M, Shen X, Zheng Q, Zhang Y, Cheng C, Hong H, Tao X, Peng Y, Yao X, Meng F*, Ji H*, Shao Z*, Sun Y*. (2021) A systematic dissection of the epigenomic heterogeneity of lung adenocarcinoma reveals two different subclasses with distinct prognosis and core regulatory networks. Genome Biol. 22(1):156
  • Tong J, Wang X, Liu Y, Ren X, Wang A, Chen Z, Yao J, Mao K, Liu T, Meng FL, Pan W, Zou Q, Liu J, Zhou Y, Xia Q, Flavell RA, Zhu S, and Li HB. (2021) Pooled CRISPR screening identifies m(6)A as a positive regulator of macrophage activation. Sci Adv 7
  • Jiang Y, Dong Y, Luo Y, Jiang S, Meng FL, Tan M, Li J, Zang Y. (2021) AMPK-mediated phosphorylation on 53BP1 promotes c-NHEJ. Cell Rep. 34(7):108713.
  • Ye X, Ren W, Liu D, Li X, Li W, Wang X, Meng FL, Yeap LS, Hou Y, Zhu S, Casellas R, Zhang H, Wu K, Pan-Hammarström Q. (2021) Genome-wide mutational signatures revealed distinct developmental paths for human B cell lymphomas. J Exp Med. 1;218(2)

2020

  • Liu JC, Li QJ, He MH, Hu C, Dai P, Meng FL, Zhou BO, Zhou JQ. (2020) Swc4 positively regulates telomere length independently of its roles in NuA4 and SWR1 complexes. Nucleic Acids Res. 16;48(22):12792-12803
  • Li J, Shang Y, Wang L, Zhao B, Sun C, Li J, Liu S, Li C, Tang M, Meng FL*, Zheng P*. (2020) Genome integrity and neurogenesis of postnatal hippocampal neural stem/progenitor cells require a unique regulator Filia. Sci Adv. 6(44):eaba0682
  • Liu X, Liu T, Shang Y, Dai P, Zhang W, Lee BJ, Huang M, Yang D, Wu Q, Liu LD, Zheng X, Zhou BO, Dong J, Yeap LS, Hu J, Xiao T, Zha S, Casellas R, Liu XS, and Meng FL*. (2020) ERCC6L2 promotes DNA orientation-specific recombination in mammalian cells. Cell Research. 30(9):732-744
  • Yang D#, Sun Y, Chen J, Zhang Y, Fan S, Huang M, Xie X, Cai Y, Shang Y, Gui T, Sun L, Hu J, Dong J, Yeap LS, Wang X, Xiao W and Meng FL*. (2020) REV7 is required for processing AID initiated DNA lesions in activated B cells. Nat Commun. 11(1):2812

2018

  • Liu LD, Huang M, Dai P, Liu T, Fan S, Cheng X, Zhao Y, Yeap LS and Meng FL*. (2018) Intrinsic Nucleotide Preference of Diversifying Base Editors Guides Antibody Ex Vivo Affinity Maturation. Cell Rep 25, 884-892 e883
  • Xie X, Hu H, Tong X, Li L, Liu X, Chen M, Yuan H, Xie X, Li Q, Zhang Y, Ouyang H, Wei M, Huang J, Liu P, Gan W, Liu Y, Xie A, Kuai X, Chirn GW, Zhou H, Zeng R, Hu R, Qin J, Meng FL, Wei W, Ji H and Gao D. (2018) The mTOR-S6K pathway links growth signalling to DNA damage response by targeting RNF168. Nat Cell Biol 20, 320-331
  • Yao X, Zhang M, Wang X, Ying W, Hu X, Dai P, Meng F, Shi L, Sun Y, Yao N, Zhong W, Li Y, Wu K, Li W, Chen ZJ, Yang H. (2018) Tild-CRISPR Allows for Efficient and Precise Gene Knockin in Mouse and Human Cells. Dev Cell. 21;45(4):526-536.e5

as postdoc

  • Layer JV, Cleary JP, Brown AJ, Stevenson KE, Morrow SN, Van Scoyk A, Blasco RB, Karaca E, Meng FL, Frock RL, Tivey T, Kim S, Fuchs H, Chiarle R, Alt FW, Roberts SA, Weinstock DM, Day TA. (2018) Parp3 promotes long-range end joining in murine cells. Proc Natl Acad Sci 2;115(40):10076-10081
  • Qiao Q, Wang L, Meng FL, Hwang JK, Alt FW, and Wu H. (2017) AID Recognizes Structured DNA for Class Switch Recombination. Mol Cell 67, 361-373 e364
  • Compagno M, Wang Q, Pighi C, Cheong TC, Meng FL, Poggio T, Yeap LS, Karaca E, Blasco RB, Langellotto F, Ambrogio C, Voena C, Wiestner A, Kasar SN, Brown JR, Sun J, Wu CJ, Gostissa M, Alt FW and Chiarle R. (2017) Phosphatidylinositol 3-kinase delta blockade increases genomic instability in B cells. Nature 542, 489-493
  • Liu Y, Chen S, Wang S, Soares F, Fischer M, Meng F, Du Z, Lin C, Meyer C, DeCaprio JA, Brown M, Liu XS, He HH. (2017) Transcriptional landscape of the human cell cycle. Proc Natl Acad Sci U S A. 28;114(13):3473-3478
  • Ba Z#, Meng FL#, Gostissa M#, Huang PY, Ke Q, Wang Z, Dao MN, Fujiwara Y, Rajewsky K*, Zhang B* and Alt FW*. (2015) A Rapid Embryonic Stem Cell-Based Mouse Model for B-cell Lymphomas Driven by Epstein-Barr Virus Protein LMP1. Cancer Immunol Res 3, 641-649
  • Hu J, Zhang Y, Zhao L, Frock RL, Du Z, Meyers RM, Meng FL, Schatz DG, and Alt FW. (2015) Chromosomal Loop Domains Direct the Recombination of Antigen Receptor Genes. Cell 163, 947-959
  • Yeap LS, Hwang JK, Du Z, Meyers RM, Meng FL, Jakubauskaite A, Liu M, Mani V, Neuberg D, Kepler TB, Wang JH and Alt FW. (2015) Sequence-Intrinsic Mechanisms that Target AID Mutational Outcomes on Antibody Genes. Cell 163(5):1124-1137
  • Dong J, Panchakshari RA, Zhang T, Zhang Y, Hu J, Volpi SA, Meyers RM, Ho YJ, Du Z, Robbiani DF, Meng F, Gostissa M, Nussenzweig MC, Manis JP, Alt FW. (2015) Orientation-specific joining of AID-initiated DNA breaks promotes antibody class switching. Nature. 3;525(7567):134-139
  • Meng FL #, Du Z #, Federation A#, Hu J, Wang Q, Kieffer-Kwon KR, Meyers RM, Amor C, Wasserman CR, Neuberg D, Casellas R, Nussenzweig M, Bradner JE*, Liu XS*, Alt FW*. (2014) Convergent transcription at intragenic super-enhancers targets AID-initiated genomic instability. Cell 159, 1538-1548
  • Basu U#, Meng FL#, Keim C#, Grinstein V, Pefanis E, Eccleston J, Zhang T, Myers D, Wasserman CR, Wesemann DR, Januszyk K, Gregory RI, Deng H, Lima CD, Alt FW. (2011) The RNA Exosome Targets Activation Induced Cytidine Deaminase to Both Strands of Transcribed Duplex DNA Substrates. Cell 144(3):353-63
  • Fu XH, Duan YM, Liu YT, Cai C, Meng FL, Zhou JQ. (2014) Telomere Recombination Preferentially Occurs at Short Telomeres in Telomerase-Null Type II Survivors. PLoS One. 2014 Mar 3;9(3):e90644
  • Hu Y, Tang HB, Liu NN, Tong XJ, Dang W, Duan YM, Fu XH, Zhang Y, Peng J, Meng FL, Zhou JQ. (2013) Telomerase-null survivor screening identifies novel telomere recombination regulators. PLoS Genet. 9(1):e1003208
  • Meng FL, Chen XF, Hu Y, Tang HB, Dang W and Zhou JQ. (2010) Sua5p is required for telomere recombination in Saccharomyces cerevisiae. Cell Research 20(4),495-8
  • Zhou BO, Wang SS, Xu LX, Meng FL, Xuan YJ, Duan YM, Wang JY, Hu H, Dong X, Ding J, Zhou JQ. (2010) SWR1 complex poises heterochromatin boundaries for antisilencing activity propagation. Mol Cell Biol. 30(10):2391-400
  • Meng FL, Hu Y, Shen N, Tong XJ, Wang J, Ding J and Zhou JQ. (2009) Sua5p a Single-stranded Telomeric DNA Binding Protein Facilitates Telomere Replication. EMBO Journal 28, 1466-1478
  • Chen, XF, Meng FL, and Zhou, JQ. (2009) Telomere recombination accelerates cellular aging in Saccharomyces cerevisiae. PLoS Genet 5, e1000535
  • Fu XH#, Meng FL#, Hu Y, Zhou JQ. (2008) Candida albicans, a distinctive fungal model for cellular aging study. Aging Cell 7: 746-757 
  • Yang CP, Chen YB, Meng FL, Zhou JQ. (2006) Saccharomyces cerevisiae Est3p dimerizes in vitro and dimerization contributes to efficient telomere replication in vivo. Nucleic Acids Res 34: 407-416

    • ( *: co-corresponding authors; #: co-first authors)