Publications

Selected high impact collaborative publications

Krishnamoorthy V, Foglizzo M, Dilley RL, Wu A, Datta A, Dutta P, Campbell LJ, Degtjarik O, Musgrove LJ, Calabrese AN, Zeqiraj E, Greenberg RA. The SPATA5-SPATA5L1 ATPase complex directs replisome proteostasis to ensure genome integrity. Cell 2024 Mar 22;S0092-8674(24)00250-2.doi: 10.1016/j.cell.2024.03.002. Online ahead of print.
Zhang T, Rawal Y, Jiang H, Kwon Y, Sung P, Greenberg RA. Break-Induced Replication Orchestrates resection dependent template switching. Nature June 2023. Online ahead of print.
Das A, Iwata-Otsubo A, Destouni A, Dawicki-McKenna JD, Goese KG, Black BE*, Lampson MA*. Epigenetic, genetic and maternal effects enable stable centromere inheritance. Nat Cell Biol. 2022 May;24(5):748-756. (*corresponding authors)
Cao Z, Budinich KA, Huang H, Ren D, Lu B, Zhang Z, Chen Q, Zhou Y, Huang Y-H, Alikarami F, Kingsley MC, Lenard AK, Wakabayashi A, Khandros E, Bailis W, Qi J, Carroll MP, Blobel GA, Faryabi RB, Kathrin M. Bernt, Shelley L. Berger, Shi J. ZMYND8-regulated IRF8 transcription axis is an acute myeloid leukemia dependency. Mol Cell 2021 Jul 28 ;S1097-2765(21)00587-6.
Kumon T, Ma J, Akins RB, Stefanik D, Nordgren CE, Kim J, Levine MT, Lampson MA. Parrallel pathways for recruiting effector proteins determine centromere drive and suppression. Cell 2021 Aug 20;S0092-8674(21)00940-5.
Verma P, Zhou Y, Cao Z, Deraska PV, Deb M, Arai E, Li W, Shao Y, Puentes L, Li Y, Patanka S, Mach RH, Faryabi RB, Shi J*, Greenberg RA*. ALC1 links chromatin accessibility to PARP inhibitor response in homologous recombination-deficient cells. Nat Cell Biol. 2021 Jan 18. Notes: *co-corresponding authors doi: 10.1038/s41556-020-00624-3.
Chen J, Harding SM, Natesan R, Tian L, Benci JL, Li W, Minn AJ, Asangani IA, Greenberg RA. Cell Cycle Checkpoints Cooperate to Suppress DNA- and RNA-Associated Molecular Pattern Recognition and Anti-Tumor Immune Responses. Cell Rep. 2020 Sep 1;32(9):108080.
Zhang H, Zhao R, Tones J, Liu M, Dilley RL, Chenoweth DM, Greenberg RA, Lampson MA. Nuclear body phase separation drives telomere clustering in ALT cancer cells. Mol Biol Cell 2020 Aug 15;31(18):2048-2056. doi: 10.1091/mbc.E19-10-0589. Epub 2020 Jun 24.
Walden M*, Tian L*, Ross R, Sykora UM, Byrne DP, Hesketh EL, Masandi SK, Cassel J, Geirge R, Ault JR, Oualid FE, Pawlowski K, Salvino JM, Eyers PA, Ranson NA, Del Galdo F, Greenberg RA#, Zeqiraj E#. Metabolic control of BRISC-SHMT2 complex assembly regulates immune signaling. Nature Jun;570(7760):194-199 2019. Notes: *co-first authors and # co-corresponding authors
Harding SM, Benci JL, Irianto J, Discher DE, Minn AJ, Greenberg RA. Mitotic progression following DNA damage enables pattern recognition within micronuclei. Nature 548: 466-470, 2017.
Cho NW, Dilley RL, Lampson MA, Greenberg RA: Interchromosomal Homology Searches Drive Directional ALT Telomere Movement and Synapsis. Cell 159(1): 108-21, 2014.
Balcerek J, Jiang J, Li Y, Jiang Q, Holdreith N, Singh B, Chandra V, Lv K, Ren JG, Rozenova K, Li W, Greenberg RA, Tong W: Lnk/Sh2b3 deficiency restores hematopoietic stem cell function and genome integrity in Fancd2 deficient Fanconi anemia. Nature Comm 9: 3915, 2018.
Falk SJ, Guo LY, Sekulic N, Smoak EM, Mani T, Logsdon GA, Gupta K, Jansen LE, Van Duyne GD, Vinogradov SA, Lampson MA, Black BE. Chromosomes. CENP-C reshapes and stabilizes CENP-A nucleosomes at the centromere. Science 2015 May 8;348(6235):699-703.
Iwata-Otsubo A, Dawicki-McKenna JM, Akera T, Falk SJ, Chmátal L, Yang K, Sullivan BA, Schultz RM, Lampson MA, Black BE. Expanded satellite repeats amplify a discrete CENP-A nucleosome site on chromosomes that drive in female meiosis. Curr Biol. 2017 Aug 7;27(15):2365-2373.e8.
Cho S, Vashisth M, Abbas A, Majkut S, Vogel K, Xia Y, Ivanovska IL, Irianto J, Tewari M, Zhu K, Tichy ED, Mourkioti F, Tang HY, Greenberg RA, Prosser BL, Discher DE. Mechanosensing by the lamina protects against nuclear rupture, DNA damage, and cell cycle arrest. Dev Cell. 2019 49(6):920-935.
Irianto J, Xia Y, Pfeifer CR, Athirasala A, Ji J, Alvey C, Tewari M, Bennett RR, Harding SM, Liu AJ, Greenberg RA, Discher DE. DNA Damage Follows Repair Factor Depletion and Portends Genome Variation in Cancer Cells after Pore Migration. Curr Biol S0960-9822(16): 31403-8, 2016.
Petrovic J, Zhou Y, Fasolino M, Goldman N, Schwartz GW, Mumbach MR, Nguyen SC, Rome KS, Sela Y, Zapataro Z, Blacklow SC, Kruhlak MJ, Shi J, Aster JC, Joyce EF, Little SC, Vahedi G, Pear WS, Faryabi RB. Oncogenic Notch provides long-range regulatory interactions within hypoerconnected 3D cliques. Mol Cell 2019 Mar 21;73(6):1174-1190.
Makvandi M, Pantel A, Schwartz L, Schubert E, Xu K, Hsieh CJ, Hou C, Kim H, Weng CC, Winters H, Doot R, Farwell MD, Pryma DA, Greenberg RA, Mankoff DA, Simpkins F, Mach RH, Lin LL. A PET imaging agent for evaluating PARP-1 expression in ovarian cancer. J Clin Invest 128(5): 2116-2126, 2018.
Shin S, Brodsky IE. The inflammasome: Learning from bacterial evasion strategies. Semin Immunol. 2015 Mar;27(2):102-10.
Philip NH, Dillon CP, Snyder AG, Fitzgerald P, Wynosky-Dolfi MA, Zwack EE, Hu B, Fitzgerald L, Mauldin EA, Copenhaver AM, Shin S, Wei L, Parker M, Zhang J, Oberst A, Green DR, Brodsky IE. Caspase-8 mediates caspase-1 processing and innate immune defense in response to bacterial blockade of NF-kB and MAPK signaling. Proc Natl Acad Sci U S A. 2014 May 20;111(20):7385-90.

From the Black Lab

Gambogi CW, Birchak GJ, Mer E, Brown DM, Yankson G, Kixmoeller K, Gavade JN, Espinoza JL, Kashyap P, Dupont CL, Logsdon GA, Heun P, Glass JI, Black BE. Efficient formation of single-copy human artificial chromosomes. Science 2024 Mar 22;383(6689):1344-1349. doi: 10.1126/science.adj3566. Epub 2024 Mar 21.
Tarasovetc EV, Allu PK, Wimbish RT, DeLuca JG, Cheeseman IM, Black BE, Grishchuk EL. Permitted and restricted steps of human kinetochore assembly in mitotic cell extracts. Mol Biol Cell. 2021 Jun 15;32(13):1241-1255.
Pandey N and Black BE. Rapid Detection and Signaling of DNA Damage by PARP-1. Trends Biochem Sci 2021 Mar 2;S0968-0004(21)00028-1. doi: 10.1016/j.tibs.2021.01.014.
Zandarashvili L, Langelier, M-F, Velagapudi UK, Hancock MA, Steffen JD, Billur R, Hannan ZM, Wicks AJ, Krastev DB, Pettitt SJ, Lord CJ, Talele TT, Pascal JM, Black BE. Structural basis for allosteric PARP-1 retention on DNA breaks. Science 2020 Apr 3;368(6486):eaax6367. Press release here.
Logsdon, GL, Gambogi CW, Liskovykh MA, Barrey EJ, Larionov V, Miga KH, Heun P, and Black BE*. Human artificial chromosomes that bypass centromeric DNA. Cell, 178:624-639, 2019. (*corresponding author)
Allu PK, Dawicki-McKenna JM, Van Eeuwen T, Slavin M, Braitbard M, Xu C, Kalisman N, Murakami K, Black BE. Structure of the Human Core Centromeric Nucleosome Complex. Curr Biol. 2019 Aug 19;29(16):2625-2639.e5.
Barra V, Logsdon GA, Scelfo A, Hoffmann S, Hervé S, Aslanian A, Nechemia-Arbely Y, Cleveland DW, Black BE, Fachinetti D. Phosphorylation of CENP-A on serine 7 does not control centromere function. Nat Commun. 2019 Jan 11;10(1):175.
Dawicki-McKenna JM, Black BE. Chromosomes: Keeping Centromeric Chromatin Tidy through S Phase. Curr Biol. 2019 Jan 7;29(1):R35-R37.
Zasadzińska E, Huang J, Bailey AO, Guo LY, Lee NS, Srivastava S, Wong KA, French BT, Black BE, Foltz DR. Inheritance of CENP-A Nucleosomes during DNA Replication Requires HJURP. Dev Cell. 2018 Nov 5;47(3):348-362.e7.
Logsdon GA, Black BE. The new normal of structure/function studies in the era of CRISPR/Cas9. Biochem J. 2018 May 15;475(9):1635-1642.
Langelier MF, Zandarashvili L, Aguiar PM, Black BE, Pascal JM. NAD+ analog reveals PARP-1 substrate-blocking mechanism and allosteric communication from catalytic center to DNA-binding domains. Nat Commun. 2018 Feb 27;9(1):844.

From the Brodsky Lab

Fischer NL, Shin S, Brodsky IE. Jack-of-all-trades: itaconate tolerizes NLRP3 inflammasome activation. Cell Rep 2021 Mar 9;34(10):108855. doi: 10.1016/j.celrep.2021.108855.
Fischer NL, Naseer N, Shin S, Brodsky IE. Effector-triggered immunity and pathogen sensing in metazoans. Nat Microbiol 2020 Jan;5(1):14-26.
Wynosky-Dolfi MA, Snyder AG, Philip NH, Doonan PJ, Poffenberger MC, Avizonis D, Zwack EE, Riblett AM, Hu B, Strowig T, Flavell RA, Jones RG, Freedman BD, Brodsky IE. Oxidative metabolism enables Salmonella evasion of the NLRP3 inflammasome. J. Exp. Med. 2014 Apr 7;211(4):653-668.
Philip NH, Dillon CP, Snyder AG, Fitzgerald P, Wynosky-Dolfi MA, Zwack EE, Hu B, Fitzgerald L, Mauldin EA, Copenhaver AM, Shin S, Wei L, Parker M, Zhang J, Oberst A, Green DR, Brodsky IE. Caspase-8 mediates caspase-1 processing and innate immune defense in response to bacterial blockade of NF-κB and MAPK signaling. PNAS 2014 May 20;111(20):7385-90.
Fonseca DM, Hand TW, Han SJ, Gerner MY, Glatman Zaretsky A, Byrd AL, Harrison OJ, Ortiz AM, Quinones M, Trinchieri G, Brenchley JM, Brodsky IE, Germain RN, Randolph GJ, Belkaid Y. Microbiota-Dependent Sequelae of Acute Infection Compromise Tissue-Specific Immunity. Cell 2015 Oct 8;163(2):354-66.
Philip NH, DeLaney A, Peterson LW, Santos-Marrero M, Grier JT, Sun Y, Wynosky-Dolfi MA, Zwack EE, Hu B, Olsen TM, Rongvaux A, Pope SD, López CB Oberst A, Beiting DP, Henao-Mejia J, Brodsky IE. Activity of Uncleaved Caspase-8 Controls Anti-bacterial Immune Defense and TLR-Induced Cytokine Production Independent of Cell Death. PLoS Pathogens 2016 Oct 13;12(10):e1005910.
Peterson LW1,2, Philip NH1,2, Dillon CP3, Bertin J4, Gough PJ4, Green DR3, Brodsky IE. Cell-Extrinsic TNF Collaborates with TRIF Signaling To Promote Yersinia-Induced Apoptosis. J Immunol. 2016 Nov 15;197(10):4110-4117.
Feeley EM, Pilla-Moffett DM, Zwack EE, Piro AS, Finethy R, Kolb JP, Martinez J, Brodsky IE, Coers J. Galectin-3 directs antimicrobial guanylate binding proteins to vacuoles furnished with bacterial secretion systems. PNAS 2017 Feb 28;114(9):E1698-E1706.
Rauch I, Deets KA, Ji DX, von Moltke J, Tenthorey JL, Lee AY, Philip NH, Ayres JS, Brodsky IE, Gronert K, Vance RE. NAIP-NLRC4 Inflammasomes Coordinate Intestinal Epithelial Cell Expulsion with Eicosanoid and IL-18 Release via Activation of Caspase-1 and -8. Immunity 2017 Apr 18;46(4):649-659.
Peterson LW, Philip NH, DeLaney A, Wynosky-Dolfi MA, Asklof K, Gray F, Choa R, Bjanes E, Buza EL, Hu B, Dillon CP, Green DR, Berger SB, Gough PJ, Bertin J, Brodsky IE. RIPK1-dependent apoptosis bypasses pathogen blockade of innate signaling to promote immune defense. J Exp Med 2017 Nov 6;214(11):3171-3182.
Han SJ, Glatman Zaretsky A, Andrade-Oliveira V, Collins N, Dzutsev A, Shaik J, Morais da Fonseca D, Harrison OJ, Tamoutounour S, Byrd AL, Smelkinson M, Bouladoux N, Bliska JB, Brenchley JM, Brodsky IE, Belkaid Y. White Adipose Tissue Is a Reservoir for Memory T Cells and Promotes Protective Memory Responses to Infection. Immunity 2017 Dec 19;47(6):1154-1168.e6.
Mantegazza AR, Wynosky-Dolfi MA, Casson CN, Lefkovith AJ, Shin S, Brodsky IE, Marks MS. Increased autophagic sequestration in adaptor protein-3 deficient dendritic cells limits inflammasome activity and impairs antibacterial immunity. PLoS Pathog. 2017 Dec 18;13(12):e1006785.
Dondelinger Y, Delanghe T, Priem D, Wynosky-Dolfi MA, Sorobetea D, Rojas-Rivera D, Giansanti P, Roelandt R, Gropengiesser J, Ruckdeschel K, Savvides SN, Heck AJR, Vandenabeele P, Brodsky IE, Bertrand MJM. Serine 25 phosphorylation inhibits RIPK1 kinase-dependent cell death in models of infection and inflammation. Nat Commun. 2019 Apr 15;10(1):1729.
DeLaney AA, Berry CT, Christian DA, Hart A, Bjanes E, Wynosky-Dolfi MA, Li X, Tummers B, Udalova IA, Chen YH, Hershberg U, Freedman BD, Hunter CA, Brodsky IE. Caspase-8 promotes c-Rel-dependent inflammatory cytokine expression and resistance against Toxoplasma gondii. PNAS 116(24):11926-11935.

From the Chenoweth Lab

Zhao R, Chenoweth DM, Zhang H. Chemical Dimerization-Induced Protein Condensates on Telomeres. J Vis Exp. 2021 Apr 12;(170):10.3791/62173.
Chen G-Y, Renda F, Zhang H, Gokden A, Wu DZ, Chenoweth DM, Khodjakov A, Lampson MA. Tension promotes kinetochore-microtubule release in response to Aurora B activity. CSHL bioRxiv, June 2020.

From the Discher Lab

Xia Y#, Pfeifer CR#, Zhu K, Irianto J, Liu D, Pannell K, Chen EJ, Dooling LJ, Tobin MP, Wang M, Ivanovska IL, Smith LR, Greenberg RA, Discher DE. Rescue of DNA damage after constricted migration reveals a mechano-regulated threshold for cell cycle. J Cell Biol. 2019 Aug 5;218(8):2545-2563. #Contributed Equally.
Discher DE. From DNA damage to epithelial integrity: new roles for cell forces. Mol Biol Cell. 2019 Jul 22;30(16):1879-1881.
Xia Y, Ivanovska IL, Zhu K, Smith L, Irianto J, Pfeifer CR, Alvey CM, Ji J, Liu D, Cho S, Bennett RR, Liu AJ, Greenberg RA, Discher DE. Nuclear rupture at sites of high curvature compromises retention of DNA repair factors. J Cell Biol. 2018 Nov 5;217(11):3796-3808.
Smith LR, Irianto J, Xia Y, Pfeifer CR, Discher DE. Constricted migration modulates stem cell differentiation. Mol Biol Cell. 2019 Jul 22;30(16):1985-1999.
Pfeifer CR, Xia Y, Zhu K, Liu D, Irianto J, García VMM, Millán LMS, Niese B, Harding S, Deviri D, Greenberg RA, Discher DE. Constricted migration increases DNA damage and independently represses cell cycle. Mol Biol Cell. 2018 Aug 8;29(16):1948-1962.
Irianto J, Xia Y, Pfeifer CR, Athirasala A, Ji J, Alvey C, Tewari M, Bennett RR, Harding SM, Liu AJ, Greenberg RA, Discher DE. DNA Damage Follows Repair Factor Depletion and Portends Genome Variation in Cancer Cells after Pore Migration. Curr Biol. 2017 Jan 23;27(2):210-223.
Cho S, Irianto J, Discher DE. Mechanosensing by the nucleus: From pathways to scaling relationships. J Cell Biol. 2017 Feb;216(2):305-315.
Irianto J, Pfeifer CR, Xia Y, Discher DE. SnapShot: Mechanosensing Matrix. Cell. 2016 Jun 16;165(7):1820-1820.e1.

From the Faryabi Lab

Cao Z, Budinich KA, Huang H, Ren D, Lu B, Zhang Z, Chen Q, Zhou Y, Huang Y-H, Alikarami F, Kingsley MC, Lenard AK, Wakabayashi A, Khandros E, Bailis W, Qi J, Carroll MP, Blobel GA, Faryabi RB, Kathrin M. Bernt, Shelley L. Berger, Shi J. ZMYND8-regulated IRF8 transcription axis is an acute myeloid leukemia dependency. Mol Cell 2021 Jul 28 ;S1097-2765(21)00587-6.

From the Greenberg Lab

Krishnamoorthy V, Foglizzo M, Dilley RL, Wu A, Datta A, Dutta P, Campbell LJ, Degtjarik O, Musgrove LJ, Calabrese AN, Zeqiraj E, Greenberg RA. The SPATA5-SPATA5L1 ATPase complex directs replisome proteostasis to ensure genome integrity. Cell 2024 Mar 22;S0092-8674(24)00250-2.doi: 10.1016/j.cell.2024.03.002. Online ahead of print.
Jiang H, Zhang T, Kaur H, Shi T, Krishnan A, Kwon Y, Sung P, and Greenberg RA. BLM helicase unwinds lagging strand substrates to assemble the ALT telomere damage response. Molecular Cell 2024 in press.
Zhang T, Rawal Y, Jiang H, Kwon Y, Sung P, Greenberg RA. Break-Induced Replication Orchestrates resection dependent template switching. Nature June 2023. Online ahead of print.
Jiang Q, Foglizzo M, Morozov YI, Yang X, Datta A, Tian L, Thada V, Li W, Zeqiraj E, Greenberg RA. Autologous K63 deubiquitylation within the BRCA1-A complex licenses DNA damage recognition. J Cell Biol. 2022 Sep 5;221(9):e202111050.
Verma P, Greenberg RA. Communication between chromatin and homologous recombination. Curr Opin Genet Dev. 2021 Jun 4;71:1-9.
Vessoni AT, Zhang T, Quinet A, Jeong H-C, Munroe M, Wood M, Tedone E, Vindigni A, Shay JW, Greenberg RA, Batista L FZ. Telomere erosion in human pluripotent stem cells leads to ATR-mediated mitotic catastrophe. J Cell Biol. 2021 Jun 7;220(6):e202011014.
Lippert TP, Greenberg RA. The abscopal effect: a sense of DNA damage is in the air. J Clin Invest. 2021 May 3;131(9):e148274.
Jiang H and Greenberg RA. Morning for Irofulven; What could be fiNER? Clinical Cancer Research 2021 Apr 1;27(7):1833-1835. doi: 10.1158/1078-0432.CCR-20-4708.
Verma P, Zhou Y, Cao Z, Deraska PV, Deb M, Arai E, Li W, Shao Y, Puentes L, Li Y, Patanka S, Mach RH, Faryabi RB, Shi J*, Greenberg RA*. ALC1 links chromatin accessibility to PARP inhibitor response in homologous recombination-deficient cells. Nat Cell Biol. 2021 Jan 18. Notes: *co-corresponding authors doi: 10.1038/s41556-020-00624-3.
Jalil AAR, Hayes BH, Andrechak JC, Xia Y, Chenoweth DM, Discher DE. Multivalent, Soluble Nano-Self Peptides Increase Phagocytosis of Antibody-Opsonized Targets while Suppressing "Self" Signaling. ACS Nano 2020 Nov 24;14(11):15083-15093. doi: 10.1021/acsnano.0c05091. Epub 2020 Nov 13.
Chen J, Harding SM, Natesan R, Tian L, Benci JL, Li W, Minn AJ, Asangani IA, Greenberg RA. Cell Cycle Checkpoints Cooperate to Suppress DNA- and RNA-Associated Molecular Pattern Recognition and Anti-Tumor Immune Responses. Cell Rep. 2020 Sep 1;32(9):108080.
Walden M*, Tian L*, Ross R, Sykora UM, Byrne DP, Hesketh EL, Masandi SK, Cassel J, Geirge R, Ault JR, Oualid FE, Pawlowski K, Salvino JM, Eyers PA, Ranson NA, Del Galdo F, Greenberg RA#, Zeqiraj E#. Metabolic control of BRISC-SHMT2 complex assembly regulates immune signaling. Nature Jun;570(7760):194-199 2019. Notes: *co-first authors and # co-corresponding authors
Verma P, Dilley RL, Zhang T, Gyparaki MT, Li Y, Greenberg RA. RAD52 and SLX4 act nonepistatically to ensure telomere stability during alternative telomere lengthening. Genes Dev. 2019 Feb 1;33(3-4):221-235.
Greenberg RA. Assembling a protective shield. Nat Cell Biol. 2018 Aug;20(8):862-863.
Li ML, Jiang Q, Bhanu NV, Wu J, Li W, Garcia BA, Greenberg RA. Phosphorylation of TIP60 Suppresses 53BP1 Localization at DNA Damage Sites. Mol Cell Biol. 2018 Dec 11;39(1). pii: e00209-18.
Harding SM, Benci JL, Irianto J, Discher DE, Minn AJ, Greenberg RA. Mitotic progression following DNA damage enables pattern recognition within micronuclei. Nature 2017 Aug 24;548(7668):466-470.
Dilley RL, Verma P, Cho NW, Winters HD, Wondisford AR, Greenberg RA. Break-induced telomere synthesis underlies alternative telomere maintenance. Nature 2016 Nov 3;539(7627):54-58. Notes: Comment in Nature: DNA Repair: Telomere-lengthening mechanism revealed. Roake CM, Artandi SE. Nature 2016 Oct 19. doi: 10.1038/nature19483.
Cho NW, Dilley RL, Lampson MA, Greenberg RA. Interchromosomal homology searches drive directional ALT telomere movement and synapsis. Cell 2014 Sep 25;159(1):108-121.
Sawyer SL, Tian L, Kähkönen M, Schwartzentruber J, Kircher M; University of Washington Centre for Mendelian Genomics; FORGE Canada Consortium, Majewski J, Dyment DA, Innes AM, Boycott KM, Moreau LA, Moilanen JS, Greenberg RA. Biallelic mutations in BRCA1 cause a new Fanconi anemia subtype. Cancer Discov. 2015 Feb;5(2):135-42.
Verma P, Greenberg RA. Noncanonical views of homology-directed DNA repair. Genes Dev. 2016 May 15;30(10):1138-54.
Sobhian B, Shao G, Lilli DR, Culhane AC, Moreau LA, Xia B, Livingston DM, Greenberg RA. RAP80 targets BRCA1 to specific ubiquitin structures at DNA damage sites. Science 2007 May 25;316(5828):1198-202.
Shao G, Patterson-Fortin J, Messick TE, Feng D, Shanbhag N, Wang Y, Greenberg RA. MERIT40 controls BRCA1-Rap80 complex integrity and recruitment to DNA double-strand breaks. Genes Dev. 2009 Mar 15;23(6):740-54.
Shanbhag NM, Rafalska-Metcalf IU, Balane-Bolivar C, Janicki SM, Greenberg RA. ATM-dependent chromatin changes silence transcription in cis to DNA double-strand breaks. Cell 2010 Jun 11;141(6):970-81.
Greenberg RA. BRCA1, Everything but the ring? Science 2011 Oct 28;334(6055):459-60.
Tang J, Cho NW, Cui G, Manion EM, Shanbhag NM, Botuyan MV, Mer G, Greenberg RA. Acetylation limits 53BP1 association with damaged chromatin to promote homologous recombination. Nat Struct Mol Biol. 2013 Mar;20(3):317-25.
Zheng H#, Gupta V#, Patterson-Fortin J#, Bhattacharya S#, Katlinski K, Wu J, Varghese B, Carbone CJ, Aressy B, Fuchs SY*, Greenberg RA*. A BRISC-SHMT complex deubiquitinates IFNAR1 and regulates interferon responses. Cell Rep. 2013 Oct 17;5(1):180-93. Notes: # co-first author * co-corresponding author.
Cho NW, Greenberg RA. DNA repair: Familiar ends with alternative endings. Nature 2015 Feb 12;518(7538):174-6.
Zeqiraj E, Tian L, Piggott CA, Pillon MC, Duffy NM, Ceccarelli DF, Keszei AF, Lorenzen K, Kurinov I, Orlicky S, Gish GD, Heck AJ, Guarné A, Greenberg RA*, Sicheri F*. Higher-Order Assembly of BRCC36-KIAA0157 Is Required for DUB Activity and Biological Function. Mol Cell 2015 Sep 17;59(6):970-83. Notes: *co-corresponding authorship.
Jiang Q, Paramasivam M, Aressy B, Wu J, Bellani M, Tong W, Seidman MM, Greenberg RA. MERIT40 cooperates with BRCA2 to resolve DNA interstrand cross-links. Genes Dev. 2015 Sep 15;29(18):1955-68.

From the Joyce Lab

Alexander KA, Cote A, Nguyen SC, Zhang L, Gholamalamdari O, Agudelo-Garcia P, Lin-Shiao E, Tanim KMA, Lim J, Biddle N, Dunagin MC, Good CR, Mendoza MR, Little SC, Belmont A, Joyce EF, Raj A, Berger SL. p53 mediates target gene association with nuclear speckles for amplified RNA expression. Mol Cell 2021 Apr 15;81(8):1666-1681.

From the Lampson Lab

Maier NK, Ma J, Lampson MA, Cheeseman IM. Separase cleaves the kinetochore protein Meikin at the meiosis I/II transition. Dev Cell 2021 Aug 9;56(15):2192-2206.e8.
Kumon T, Ma J, Akins RB, Stefanik D, Nordgren CE, Kim J, Levine MT, Lampson MA. Parrallel pathways for recruiting effector proteins determine centromere drive and suppression. Cell 2021 Aug 20;S0092-8674(21)00940-5.
Chen G-Y, Lampson MA. Chemical tools for dissecting cell division. Nat Chem Biol. 2021 Jun;17(6):632-640.
Zhang H, Zhao R, Tones J, Liu M, Dilley RL, Chenoweth DM, Greenberg RA, Lampson MA. Nuclear body phase separation drives telomere clustering in ALT cancer cells. Mol Biol Cell 2020 Aug 15;31(18):2048-2056. doi: 10.1091/mbc.E19-10-0589. Epub 2020 Jun 24.
Chen G-Y, Renda F, Zhang H, Gokden A, Wu DZ, Chenoweth DM, Khodjakov A, Lampson MA. Tension promotes kinetochore-microtubule release in response to Aurora B activity. CSHL bioRxiv, June 2020.
Kumon T, Ma J, Stefanik D, Nordgren EC, Akins RB, Kim J, Levine MT, Lampson MA. Centromere drive and suppression by parallel pathways for recruiting microtubule destabilizers. Cold Spring Harbor Laboratory preprint. doi: https://doi.org/10.1101/2020.11.26.400515.
Cho NW, Dilley RL, Lampson MA, Greenberg RA: Interchromosomal Homology Searches Drive Directional ALT Telomere Movement and Synapsis. Cell 159(1): 108-21, 2014.

From the Levine Lab

Kumon T, Ma J, Akins RB, Stefanik D, Nordgren CE, Kim J, Levine MT, Lampson MA. Parrallel pathways for recruiting effector proteins determine centromere drive and suppression. Cell 2021 Aug 20;S0092-8674(21)00940-5.
Saint-Leandre B, Christopher C, Levine MT. Adaptive evolution of an essential telomere protein restricts telomeric retrotransposons. Elife 2020 Dec 22;9:e60987.
Saint-Leandre B, Nguyen SC, Levine MT. Diversification and collapse of a telomere elongation mechanism. Genome Res. 2019 Jun;29(6):920-931.

From the McDonald Lab

*McDonald ES, Pantel AR, Shah PD, Farwell MD, Clark AS, Doot RK, Pryma DA, Carlin SD. In vivo visualization of PARP inhibitor pharmacodynamics. JCI Insight 2021 Apr 22;6(8):e146592. *Cover Feature

From the Shi Lab

Cao Z, Budinich KA, Huang H, Ren D, Lu B, Zhang Z, Chen Q, Zhou Y, Huang Y-H, Alikarami F, Kingsley MC, Lenard AK, Wakabayashi A, Khandros E, Bailis W, Qi J, Carroll MP, Blobel GA, Faryabi RB, Kathrin M. Bernt, Shelley L. Berger, Shi J. ZMYND8-regulated IRF8 transcription axis is an acute myeloid leukemia dependency. Mol Cell 2021 Jul 28 ;S1097-2765(21)00587-6.

From the Shin Lab

Fischer NL, Shin S, Brodsky IE. Jack-of-all-trades: itaconate tolerizes NLRP3 inflammasome activation. Cell Rep 2021 Mar 9;34(10):108855. doi: 10.1016/j.celrep.2021.108855.
Liu X, Boyer MA, Holmgren AM, Shin S. Legionella-Infected Macrophages Engage the Alveolar Epithelium to Metabolically Reprogram Myeloid Cells and Promote Antibacterial Inflammation. Cell Host Microbe 2020 Nov 11;28(5):683-698.e6.
Fischer NL, Naseer N, Shin S, Brodsky IE. Effector-triggered immunity and pathogen sensing in metazoans. Nat Microbiol 2020 Jan;5(1):14-26.
Reyes Ruiz VM, Ramirez J, Naseer N, Palacio NM, Siddarthan IJ, Yan BM, Boyer MA, Pensinger DA, Sauer JD, Shin S. Broad detection of bacterial type III secretion system and flagellin proteins by the human NAIP/NLRC4 inflammasome. PNAS 2017 Dec 12;114(50):13242-13247.
Holmgren AM, McConkey CA, Shin S. Outrunning the Red Queen: bystander activation as a means of outpacing innate immune subversion by intracellular pathogens. Cell Mol Immunol. 2017 Jan;14(1):14-21.
Bradley WP, Boyer MA, Nguyen HT, Birdwell LD, Yu J, Ribeiro JM, Weiss SR, Zamboni DS, Roy CR, Shin S. Primary Role for Toll-Like Receptor-Driven Tumor Necrosis Factor Rather than Cytosolic Immune Detection in Restricting Coxiella burnetii Phase II Replication within Mouse Macrophages. Infect Immun. 2016 Mar 24;84(4):998-1015.
Copenhaver AM, Casson CN, Nguyen HT, Duda MM, Shin S. IL-1R signaling enables bystander cells to overcome bacterial blockade of host protein synthesis. PNAS 2015 Jun 16;112(24):7557-62.
Copenhaver AM, Casson CN, Nguyen HT, Fung TC, Duda MM, Roy CR, Shin S. Alveolar macrophages and neutrophils are the primary reservoirs for Legionella pneumophila and mediate cytosolic surveillance of type IV secretion. Infect Immun. 2014 Oct;82(10):4325-36.

From the Tong Lab

Donaghy R, Han X, Rozenova K, Lv K, Jiang Q, Doepner M, Greenberg RA, Tong W. The BRISC deubiquitinating enzyme complex limits hematopoietic stem cell expansion by regulating JAK2 K63-ubiquitination. Blood. 2019 Apr 4;133(14):1560-1571.
Balcerek J, Jiang J, Li Y, Jiang Q, Holdreith N, Singh B, Chandra V, Lv K, Ren JG, Rozenova K, Li W, Greenberg RA, Tong W. Lnk/Sh2b3 deficiency restores hematopoietic stem cell function and genome integrity in Fancd2 deficient Fanconi anemia. Nat Commun. 2018 Sep 25;9(1):3915.
Lv K, Jiang J, Donaghy R, Riling CR, Cheng Y, Chandra V, Rozenova K, An W, Mohapatra BC, Goetz BT, Pillai V, Han X, Todd EA, Jeschke GR, Langdon WY, Kumar S, Hexner EO, Band H, Tong W. CBL family E3 ubiquitin ligases control JAK2 ubiquitination and stability in hematopoietic stem cells and myeloid malignancies. Genes Dev. 2017 May 15;31(10):1007-1023.
Rozenova K, Jiang J, Donaghy R, Aressy B, Greenberg RA, Tong W. MERIT40 deficiency expands hematopoietic stem cell pools by regulating thrombopoietin receptor signaling. Blood 2015 Mar 12;125(11):1730-8.
Jiang J, Balcerek J, Rozenova K, Cheng Y, Bersenev A, Wu C, Song Y, Tong W. 14-3-3 regulates the LNK/JAK2 pathway in mouse hematopoietic stem and progenitor cells. J Clin Invest. 2012 Jun;122(6):2079-91.
Bersenev A, Wu C, Balcerek J, Jing J, Kundu M, Blobel GA, Chikwava KR, Tong W. Lnk constrains myeloproliferative diseases in mice. J Clin Invest. 2010 Jun;120(6):2058-69.

From the Wetizman Lab

Petljak M Green AM, Maciejowski J, Weitzman MD. Addressing the benefits of inhibiting APOBEC3-dependent mutagenesis in cancer. Nat Genet. 2022 Nov;54(11):1599-1608.
Price AM, Steinbock RT, Lauman R, Charman M, Hayer KE, Kumar N, Halko E, Lum KK, Wei M, Wilson AC, Garcia BA, Depledge DP, Weitzman, MD. Novel viral splicing events and open reading frames revealed by long-read direct RNA sequencing of adenovirus transcripts. PLoS Pathog. 2022 Sep 12;18(9): e1010797.
Heard A, Landmann JH, Hansen A, Papadopolou A, Selli ME, Warrington JM, Lattin J, Chang J, Ha H, Doray B, Guruprasad P, Ruella M, Gill S, Schuster S, Hayer K, Weitzman MD, Green A, Fluhrer R, Singh N. Antigen glycosylation regulates efficacy of CAR T cells targeting CD19. Nat Commun. 2022 May 16;13(1):2693.
Price AM, Steinbock RT, Chao D, Hayer KE, Li Y, Herrmann C, Parenti NA, Whelan JN, Weiss SR, Weitzman MD. Adenovirus prevents dsRNA formation by promoting efficient splicing of viral RNA. Nucleic Acids Res. 2022 Feb 22;50(3):1201-1220.
Kim ET, Weitzman MD. Schlafens Can Put Viruses to Sleep. Viruses 2022 Feb 21;14(2):442.
Green AM, DeWeerd RA, O’Leary DR, Hansen AR, Hayer KE, Kulej K, Dineen AS, Szeto JH, Garcia BA, Weitzman MD. Interaction with the CCT chaperonin complex limits APOBEC3A cytidine deaminase cytotoxiticy. EMBO Rep. 2021 Aug 4;e52145.
Dybas JM, Lum KK, Kulej K, Reyes ED, Lauman R, Charman M, Purman CE, Steinbock RT, Grams N, Price AM, Mendoza L, Garcia BA, Weitzman MD. Adenovirus Remodeling of the Host Proteome and Host Factors Associated with Viral Genomes. mSystems. 2021 Aug 31;e0046821.
Maurer AC, Weitzman MD. Adeno-Associated Virus Genome Interactions Important for Vector Production and Transduction. Hum Gene Ther. 2020 May;31(9-10):499-511.
Porter SS, Liddle JC, Browne K, Pastrana DV, Garcia BA, Buck CB, Wetizman MD, McBride AA. Histone Modifications in Papillomavirus Virion Minichromosomes. mBIo 2021 Feb 16;12(1):e03274-20. doi: 10.1128/mBio.03274-20.
Kim ET, Dybas JM, Kulej K, Reyes ED, Price AM, Akhtar LN, Orr A, Garcia BA, Boutell C, Weitzman MD. Comparative proteomics identifies Schlafen 5 (SLFN5) as a herpes simplex virus restriction factor that suppresses viral transcription. Nat Microbiol 2021 Feb;6(2):234-245. doi: 10.1038/s41564-020-00826-3. Epub 2021 Jan 11. Former Weitzman Lab member, and current Nature Microbiology Contributor, Christine Hermann, wrote a commentary on the paper here.
Price AM, Hayer KE, McIntyre ABR, Gokhale NA, Abebe JS, Della Fera AN, Mason CE, Horner SM, Wilson AC, Depledge DP, Weitzman MD. Direct RNA sequencing reveals m 6 A modifications on adenovirus RNA are necessary for efficient splicing. Nat Commun 2020 Nov 26;11(1):6016. doi: 10.1038/s41467-020-19787-6.
Charman M, Herrmann C, Weitzman MD. Viral and cellular interactions during adenovirus DNA replication. FEBS Lett. 2019 Dec;593(24):3531-3550.
Green AM, Weitzman MD. The spectrum of APOBEC3 activity: From anti-viral agents to anti-cancer opportunities. DNA Repair (Amst). 2019 Nov;83:102700.
Lamarche BJ, Orazio NI, Goben B, Meisenhelder J, You Z, Weitzman MD, Hunter T. Repair of protein-linked DNA double strand breaks: Using the adenovirus genome as a model substrate in cell-based assays. DNA Repair (Amst). 2019 Feb;74:80-90.
Dybas JM, Herrmann C, Weitzman MD. Ubiquitination at the interface of tumor viruses and DNA damage responses. Curr Opin Virol. 2018 Oct;32:40-47.
Weitzman MD, Fradet-Turcotte A. Virus DNA Replication and the Host DNA Damage Response. Annu Rev Virol. 2018 Sep 29;5(1):141-164.
Avgousti DC, Della Fera AN, Otter CJ, Herrmann C, Pancholi NJ, Weitzman MD. Adenovirus Core Protein VII Downregulates the DNA Damage Response on the Host Genome. J Virol. 2017 Sep 27;91(20). pii: e01089-17.
Avgousti DC, Herrmann C, Kulej K, Pancholi NJ, Sekulic N, Petrescu J, Molden RC, Blumenthal D, Paris AJ, Reyes ED, Ostapchuk P, Hearing P, Seeholzer SH, Worthen GS, Black BE, Garcia BA, Weitzman MD. A core viral protein binds host nucleosomes to sequester immune danger signals. Nature 2016 Jul 7;535(7610):173-7.