Selected Publications

  1. Pessoa Rodrigues, C., Collins, J. Yang, S., Martinez, C., Kim, J. W., Lama, C., Nam, A., Alt, C., Lin, C., Zon, L. I. . "Transcripts of repetitive DNA elements signal to block phagocytosis of hematopoietic stem cells." Science 2024 Sep.

  2. Sporrij, A., Choudhuri, A., Prasad, M., Muhire, B., Fast, E. M., Manning, M. E., ... & Zon, L. I. PGE2 alters chromatin through H2A. Z-variant enhancer nucleosome modification to promote hematopoietic stem cell fate. PNAS 2023 May.

  3. Hagedorn, E. J., Perlin, J. R., Freeman, R. J., Wattrus, S. J., Han, T., Mao, C., ... & Zon, L. I. Transcription factor induction of vascular blood stem cell niches in vivo. Dev Cell 2023 Apr.

  4. Insco, M. L., Abraham, B. J., Dubbury, S. J., Kaltheuner, I. H., Dust, S., Wu, C., ... & Zon, L. I. Oncogenic CDK13 mutations impede nuclear RNA surveillance. Science, 2023 Apr.

  5. Tavakoli, S., Garcia, V., Gähwiler, E., Adatto, I., Rangan, A., Messemer, K. A., ... & Zon, L. I. Transplantation-based screen identifies inducers of muscle progenitor cell engraftment across vertebrate species. Cell Reports, 2023 Apr.

  6. Ablain, J., Al Mahi, A., Rothschild, H., Prasad, M., Aires, S., Yang, S., ... & Zon, L. I. (2022). Loss of NECTIN1 triggers melanoma dissemination upon local IGF1 depletion. Nature Genetics, 2022 Dec.

  7. Sankaran, V.G., Weissman, J.S. and Zon, L.I. Cellular barcoding to decipher clonal dynamics in disease. Science, 2022 Oct.

  8. Wattrus, S.J., Smith, M.L., Rodrigues, C.P., Hagedorn, E.J., Budnik, B. and Zon, L.I., 2022. Quality assurance of hematopoietic stem cells by macrophages determines stem cell clonality. Science. 2022 Sep.

  9. Mito, J. K., Weber, M. C., Corbin, A., Murphy, G. F., & Zon, L. I. (2022). Modeling Spitz melanoma in zebrafish using sequential mutagenesis. Disease Models & Mechanisms, 2022 Aug.

  10. Rubin, S.A., Baron, C.S., Pessoa Rodrigues, C., Duran, M., Corbin, A.F., Yang, S.P., Trapnell, C. and Zon, L.I. Single-cell analyses reveal early thymic progenitors and pre-B cells in zebrafish. J Exp Med. 2022 Aug 08.

  11. Fast, E. M., Sporrij, A., Manning, M., Rocha, E. L., Yang, S., Zhou, Y., ... & Zon, L. I. External signals regulate continuous transcriptional states in hematopoietic stem cells. Elife. 2021 Dec 23.

  12. Avagyan S, Henninger JE, Mannherz WP, Mistry M, Yoon J, Yang S, Weber MC, Moore JL, Zon LI. Resistance to inflammation underlies enhanced fitness in clonal hematopoiesis. Science. 2021 Nov 05.

  13. Avagyan S, Weber MC, Ma S, Prasad M, Mannherz WP, Yang S, Buenrostro JD, Zon LI. Single-cell ATAC-seq reveals GATA2-dependent priming defect in myeloid and a maturation bottleneck in lymphoid lineages. Blood Adv. 2021 Jul 13.

  14. Rossmann MP, Hoi K, Chan V, Abraham BJ, Yang S, Mullahoo J, Papanastasiou M, Wang Y, Elia I, Perlin JR, Hagedorn EJ, Hetzel S, Weigert R, Vyas S, Nag PP, Sullivan LB, Warren CR, Dorjsuren B, Greig EC, Adatto I, Cowan CA, Schreiber SL, Young RA, Meissner A, Haigis MC, Hekimi S, Carr SA, Zon LI. Cell-specific transcriptional control of mitochondrial metabolism by TIF1γ drives erythropoiesis. Science. 2021 May 14.

  15. Fazio M, van Rooijen E, Dang M, van de Hoek G, Ablain J, Mito JK, Yang S, Thomas A, Michael J, Fabo T, Modhurima R, Pessina P, Kaufman CK, Zhou Y, White RM, Zon LI. SATB2 induction of a neural crest mesenchyme-like program drives melanoma invasion and drug resistance. Elife. 2021 Feb 2.

  16. Ablain J, Liu S, Moriceau G, Lo RS, Zon LI. SPRED1 deletion confers resistance to MAPK inhibition in melanoma. J Exp Med. 2021 Mar 1.

  17. Choudhuri A, Trompouki E, Abraham BJ, Colli LM, Kock KH, Mallard W, Yang ML, Vinjamur DS, Ghamari A, Sporrij A, Hoi K, Hummel B, Boatman S, Chan V, Tseng S, Nandakumar SK, Yang S, Lichtig A, Superdock M, Grimes SN, Bowman TV, Zhou Y, Takahashi S, Joehanes R, Cantor AB, Bauer DE, Ganesh SK, Rinn J, Albert PS, Bulyk ML, Chanock SJ, Young RA, Zon LI. Common variants in signaling transcription-factor-binding sites drive phenotypic variability in red blood cell traits. Nat Genet. 2020 Nov 23.

  18. Taylor AM, Macari ER, Chan IT, Blair MC, Doulatov S, Vo LT, Raiser DM, Siva K, Basak A, Pirouz M, Shah AN, McGrath K, Humphries JM, Stillman E, Alter BP, Calo E, Gregory RI, Sankaran VG, Flygare J, Ebert BL, Zhou Y, Daley GQ, Zon LI. Calmodulin inhibitors improve erythropoiesis in Diamond-Blackfan anemia. Sci Transl Med. 2020 Oct 21.

  19. Fazio M, van Rooijen E, Mito JK, Modhurima R, Weiskopf E, Yang S, Zon LI. Recurrent co-alteration of HDGF and SETDB1 on chromosome 1q drives cutaneous melanoma progression and poor prognosis. Pigment Cell Melanoma Res. 2020 Oct.

  20. Santoriello C, Sporrij A, Yang S, Flynn RA, Henriques T, Dorjsuren B, Custo Greig E, McCall W, Stanhope ME, Fazio M, Superdock M, Lichtig A, Adatto I, Abraham BJ, Kalocsay M, Jurynec M, Zhou Y, Adelman K, Calo E, Zon LI. RNA helicase DDX21 mediates nucleotide stress responses in neural crest and melanoma cells. Nat Cell Biol. 2020 Apr.

  21. Ablain J, Xu M, Rothschild H, Jordan RC, Mito JK, Daniels BH, Bell CF, Joseph NM, Wu H, Bastian BC, Zon LI, Yeh I. Human tumor genomics and zebrafish modeling identify SPRED1 loss as a driver of mucosal melanoma. Science. 2018 Nov 30.

  22. Mandelbaum J, Shestopalov IA, Henderson RE, Chau NG, Knoechel B, Wick MJ, Zon LI. Zebrafish blastomere screen identifies retinoic acid suppression of MYB in adenoid cystic carcinoma. J Exp Med. 2018 Sep 12.

  23. Lahvic JL, Ammerman M, Li P, Blair MC, Stillman ER, Fast EM, Robertson AL, Christodoulou C, Perlin JR, Yang S, Chiang N, Norris PC, Daily ML, Redfield SE, Chan IT, Chatrizeh M, Chase ME, Weis O, Zhou Y, Serhan CN, Zon LI. Specific oxylipins enhance vertebrate hematopoiesis via the receptor GPR132. Proc Natl Acad Sci U S A. 2018 Sep 11;115(37):9252-9257.

  24. Kapp FG, Perlin JR, Hagedorn EJ, Gansner JM, Schwarz DE, O’Connell LA, Johnson NS, Amemiya C, Fisher DE, Wölfle U, Trompouki E, Niemeyer CM, Driever W, Zon LI. Protection from UV light is an evolutionarily conserved feature of the haematopoietic niche. Nature. 2018 Jun;558(7710): 445-448.

  25. McConnell AM, Mito JK, Ablain J, Dang M, Formichella L, Fisher DE, Zon LI. Neural crest state activation in NRAS driven melanoma, but not in NRAS-driven melanocyte expansion. Dev Biol. 2018 May 15.

  26. Ciarlo C, Kaufman CK, Kinikoglu B, Michael J, Yang S, D Amato C, Blokzijl-Franke S, den Hertog J, Schlaeger TM, Zhou Y, Liao E, Zon LI. A chemical screen in zebrafish embryonic cells establishes that Akt activation is required for neural crest development. Elife. 2017 Aug 23.

  27. Blaser BW, Moore JL, Hagedorn EJ, Li B, Riquelme R, Lichtig A, Yang S, Zhou Y, Tamplin OJ, Binder V, Zon LI. CXCR1 remodels the vascular niche to promote hematopoietic stem and progenitor cell engraftment. J Exp Med. 2017 Apr 3;214(4):1011-1027.

  28. Henninger J, Santoso B, Hans S, Durand E, Moore J, Mosimann C, Brand M, Traver D, Zon L. Clonal fate mapping quantifies the number of haematopoietic stem cells that arise during development. Nature Cell Biology. 2017 Jan;19(1):17-27.

  29. Tan JL, Fogley RD, Flynn RA, Ablain J, Yang S, Saint-André V, Fan ZP, Do BT, Laga AC, Fujinaga K, Santoriello C, Greer CB, Kim YJ, Clohessy JG, Bothmer A, Pandell N, Avagyan S, Brogie JE, van Rooijen E, Hagedorn EJ, Shyh-Chang N, White RM, Price DH, Pandolfi PP, Peterlin BM, Zhou Y, Kim TH, Asara JM, Chang HY, Young RA, Zon LI. Stress from Nucleotide Depletion Activates the Transcriptional Regulator HEXIM1 to Suppress Melanoma. Mol Cell. 2016 Apr 7;62(1):34-46.

  30. Kaufman CK, Mosimann C, Fan ZP, Yang S, Thomas AJ, Ablain J, Tan JL, Fogley RD, van Rooijen E, Hagedorn EJ, Ciarlo C, White RM, Matos DA, Puller AC, Santoriello C, Liao EC, Young RA, Zon LI. A zebrafish melanoma model reveals emergence of neural crest identity during melanoma initiation. Science. 2016 Jan 29;351(6272):aad2197.

  31. Mosimann C, Panáková D, Werdich AA, Musso G, Burger A, Lawson KL, Carr LA, Nevis KR, Sabeh MK, Zhou Y, Davidson AJ, DiBiase A, Burns CE, Burns CG, MacRae CA, Zon LI. Chamber identity programs drive early functional partitioning of the heart. Nat Commun. 2015 Aug 26;6:8146.

  32. Li P, Lahvic JL, Binder V, Pugach EK, Riley EB, Tamplin OJ, Panigrahy D, Bowman TV, Barrett FG, Heffner GC, McKinney-Freeman S, Schlaeger TM, Daley GQ, Zeldin DC, Zon LI. Epoxyeicosatrienoic acids enhance embryonic haematopoiesis and adult marrow engraftment. Nature. 2015 Jul 23;523(7561):468-71.

  33. Ablain J, Durand EM, Yang S, Zhou Y, Zon LI. A CRISPR/Cas9 vector system for tissue-specific gene disruption in zebrafish. Dev Cell. 2015 Mar 23;32(6):756-64.

  34. Tamplin OJ, Durand EM, Carr LA, Childs SJ, Hagedorn EJ, Li P, Yzaguirre AD, Speck NA, Zon LI. Hematopoietic stem cell arrival triggers dynamic remodeling of the perivascular niche. Cell. 2015 Jan 15;160(1-2):241-52.

  35. Huang HT, Kathrein KL, Barton A, Gitlin Z, Huang YH, Ward TP, Hofmann O, Dibiase A, Song A, Tyekucheva S, Hide W, Zhou Y, Zon LI. A network of epigenetic regulators guides developmental haematopoiesis in vivo. Nat Cell Biol. 2013 Dec;15(12):1516-25.

  36. Xu C, Tabebordbar M, Iovino S, Ciarlo C, Liu J, Castiglioni A, Price E, Liu M, Barton ER, Kahn CR, Wagers AJ, Zon LI. A zebrafish embryo culture system defines factors that promote vertebrate myogenesis across species. Cell. 2013 Nov 7;155(4):909-21.

  37. Albacker CE, Storer NY, Langdon EM, DiBiase A, Zhou Y, Langenau DM, and Zon LI. The histone methyltransferase SUV39H1 suppresses embryonal rhabdomyosarcoma formation in zebrafish. PLoS ONE, 2013; 8(5): e64969.

  38. Storer NY, White RM, Uong A, Price E, Nielsen GP, Langenau DM, and Zon LI. Zebrafish rhabdomyosarcoma reflects the developmental stage of oncogene expression during myogenesis. Develop 2013:140, 3040-3050.

  39. Le X, Pugach EK, Hettmer S, Storer NY, Liu J, Wills A, Dibiase A, Chen EY, Ignatius MS, Poss KD, Wagers AJ, Langenau DM, and Zon LI. A novel chemical screening strategy in zebrafish identifies common pathways in embryogenesis and rhabdomyosarcoma development. Development. 2013 Apr 24: 140, 2354-2364.

  40. Ganis JJ, Hsia N, Trompouki E, de Jong JLO, DiBiase A, Lambert JS, Jia Z, Sabo PJ, Weaver M, Sandstrom R, Stamatoyannopoulos JA, Zhou Y, and Zon LI. Zebrafish globin switching occurs in two developmental stages and is controlled by the LCR. Dev Biol, 2012, June 15. Volume 366, Issue 2:185-194.

  41. Taylor AM, Humphries JM, White RM, Murphey RD, Burns CE, and Zon LI. Hematopoietic defects in rps29 mutant zebrafish depend upon p53 activation. Experimental Hematology, 2012 March; 40(3):228-237.e5.

  42. Trompouki E*, Bowman TV*, Lawton LN, Fan ZP, Wu D-C, DiBiase A, Martin CS, Cech JN, Sessa AK, Leblanc JL, Li P, Durand E, Mosimann C, Heffner GC, Daley GQ, Paulson RF, YoungRA and Zon LI. Lineage regulators direct BMP and Wnt pathways to cell-specific programs during differentiation and regeneration. Cell, 2011, October 28:147 (3);577-589.

  43. White RM, Cech J, Ratanasirintrawoot S, Lin CY, Rahls PB, Burke CJ, Langdon E, Tomlinson ML, Mosher J, Kaufman C, Chen F, Long HK, Kramer M, Datta S, Neuberg D, Granter S, Young RA, Morrison S, Wheeler GN, and Zon LI. DHODH modulates transcriptional elongation in the neural crest and melanoma. Nature. 2011, Mar 24:471, 518-522.

  44. Ceol CJ, Houvras Y, Jane-Valbuena J, Bilodeau S, Orlando DA, Battisti V, Fritsch L, Lin WM, Hollmann TJ, Ferre F, Bourque C, Burke C, Turner L, Uong A, Johnson LA, Beroukhim R, Mermel CH, Loda M, Slimane A-S-A, Garraway L, Young RA, and Zon LI. The SETDB1 histone methyltransferase is recurrently amplified in and accelerates melanoma. Nature, 2011, Mar 24:471, 513-517.

  45. Mosimann C, Kaufman CK, Li P, Pugach EK, Tamplin OJ, and Zon LI. Ubiquitous transgene expression and Cre-based recombination driven by the ubiquitin promoter in zebrafish. Development, 2010, 138:169-177. 212.

  46. de Jong J, Zon LI. Characterization of immune-matched hematopoietic transplantation in zebrafish. Blood. 2011. Apr 21;117(16):4234-42.

  47. Bai X, Kim J, Yang Z, Jurynec M, Lee J, LeBlanc J, Sessa A, Jiang H, Grunwald DJ, Lin S, Orkin SH, Zon LI. TIF1g controls erythroid cell fate by regulating transcriptional elongation. Cell, 2010 Jul 9;142(1):133-143.

  48. de Jong JLO, Davidson AJ, Wang Y, Palis J, Opara P, Pugach E, Daley GQ, and Zon LI. Interaction of retinoic acid and scl controls primitive blood development. Blood, 2010 Apr 21.

  49. North TE, Goessling W, Peeters M, Li P, Lord AM, Dzierzak E, and Zon LI. Hematopoietic stem cell development is dependent on blood flow. Cell, 2009, 137(4):736-748.

  50. Goessling W, North TE, Loewer S, Lord AM, Sang L, Stoick-Cooper C, Weidinger G, Puder M, Daley GQ, Moon RT, and Zon LI. Genetic interaction between PGE2 and wnt signaling regulates developmental specification of stem cells and regeneration. 2009, Cell, March 20;136:1136-1146.