Cell & Developmental Biology

UPenn Cell & Developmental Biology

Recent Faculty Publications

Marisa  Bartolomei

Genomic imprinting in development, growth, behavior and stem cells. Plasschaert RN, Bartolomei MS. Development. 2014 May;141(9):1805-13. doi: 10.1242/dev.101428.

CTCF Binding to the First Intron of the Major Immediate-Early (MIE) Gene of Human Cytomegalovirus (HCMV) Negatively Regulates MIE Gene Expression and HCMV Replication. Martínez FP, Cruz R, Lu F, Plasschaert R, Deng Z, Rivera-Molina YA, Bartolomei MS, Lieberman PM, Tang Q. J Virol. 2014 Apr 16.

Genomic imprinting in mammals. Barlow DP, Bartolomei MS. Cold Spring Harb Perspect Biol. 2014 Feb 1;6(2). pii: a018382. doi: 10.1101/cshperspect.a018382.

Shelley  Berger

Lamin B1 depletion in senescent cells triggers large-scale changes in gene expression and the chromatin landscape. Shah PP, Donahue G, Otte GL, Capell BC, Nelson DM, Cao K, Aggarwala V, Cruickshanks HA, Rai TS, McBryan T, Gregory BD, Adams PD, Berger SL. Genes Dev. 2013 Aug 15;27(16):1787-99. doi: 10.1101/gad.223834.113. Epub 2013 Aug 9.

Genome-wide epigenetics. Capell BC, Berger SL. J Invest Dermatol. 2013 Jun;133(6):e9. doi: 10.1038/jid.2013.173.

Social insect genomes exhibit dramatic evolution in gene composition and regulation while preserving regulatory features linked to sociality. Simola DF, Wissler L, Donahue G, Waterhouse RM, Helmkampf M, Roux J, Nygaard S, Glastad K, Hagen DE, Viljakainen L, Reese JT, Hunt BG, Graur D, Elhaik E, Kriventseva E, Wen J, Parker BJ, Cash E, Privman E, Childers CP, Munos-Torres MC, Boomsma JJ, Bornberg-Bauer E, Currie C, Elsik CG, Suen G, Goodisman MA, Keller L, Liebig J, Rawls A, Reinberg D, Smith CD, Smith CR, Tsutsui N, Wurm Y, Zdobnov EM, Berger SL, Gadau J. Genome Res. 2013 May 1.

Erfei Bi

Cytokinesis defines a spatial landmark for hepatocyte polarization and apical lumen formation. Wang T, Yanger K, Stanger BZ, Cassio D, Bi E. J Cell Sci. 2014 Apr 4.

Targeting and functional mechanisms of the cytokinesis-related F-BAR protein Hof1 during the cell cycle. Oh Y, Schreiter J, Nishihama R, Wloka C, Bi E. Mol Biol Cell. 2013 May;24(9):1305-20. doi: 10.1091/mbc.E12-11-0804.

Immobile myosin-II plays a scaffolding role during cytokinesis in budding yeast. Wloka C, Vallen EA, Thé L, Fang X, Oh Y, Bi E. J Cell Biol. 2013 Feb 4;200(3):271-86.

Roberto Bonasio

The role of chromatin and epigenetics in the polyphenisms of ant castes. Bonasio R. Brief Funct Genomics. 2014 Jan 24.

Maya Capelson

Nuclear pores as versatile platforms for gene regulation. Pascual-Garcia P, Capelson M. Curr Opin Genet Dev. 2014 Mar 11;25C:110-117.

Stephen DiNardo

Drosophila Dachsous and Fat polarize actin-based protrusions over a restricted domain of the embryonic denticle field. Lawlor KT, Ly DC, DiNardo S. Dev Biol. 2013 Nov 15;383(2):285-94.

magu is required for germline stem cell self-renewal through BMP signaling in the Drosophila testis. Zheng Q, Wang Y, Vargas E, Dinardo SDev Biol. 2011 Sep 1;357(1):202-10

J.A. Epstein

The Notch1 transcriptional activation domain is required for development and reveals a novel role for Notch1 signaling in fetal hematopoietic stem cells. Gerhardt DM, Pajcini KV, D'altri T, Tu L, Jain R, Xu L, Chen MJ, Rentschler S, Shestova O, Wertheim GB, Tobias JW, Kluk M, Wood AW, Aster JC, Gimotty PA, Epstein JA, Speck N, Bigas A, Pear WS. Genes Dev. 2014 Mar 15;28(6):576-93.

Inhibition of TGFβ signaling increases direct conversion of fibroblasts to induced cardiomyocytes. Ifkovits JL, Addis RC, Epstein JA, Gearhart JD. PLoS One. 2014 Feb 26;9(2):e89678.

Genetic dissection of plexin signaling in vivo. Worzfeld T, Swiercz JM, Sentürk A, Genz B, Korostylev A, Deng S, Xia J, Hoshino M, Epstein JA, Chan AM, Vollmar B, Acker-Palmer A, Kuner R, Offermanns S. Proc Natl Acad Sci U S A. 2014 Feb 11;111(6):2194-9.

Shannon Fisher

Distinct enhancers of ptf1a mediate specification and expansion of ventral pancreas in zebrafish. Pashos E, Park JT, Leach S, Fisher S. Dev Biol. 2013 Sep 15;381(2):471-81. doi: 10.1016/j.ydbio.2013.07.011. Epub 2013 Jul 20.

GRG5/AES interacts with T-cell factor 4 (TCF4) and downregulates Wnt signaling in human cells and zebrafish embryos. Costa AM, Pereira-Castro I, Ricardo E, Spencer F, Fisher S, da Costa LT. PLoS One. 2013 Jul 1;8(7):e67694. doi: 10.1371/journal.pone.0067694. Print 2013.

Skeletogenic fate of zebrafish cranial and trunk neural crest. Kague E, Gallagher M, Burke S, Parsons M, Franz-Odendaal T, Fisher S. PLoS One. 2012;7(11):e47394. doi: 10.1371/journal.pone.0047394. Epub 2012 Nov 14.

Clara Franzini-Armstrong

Novel details of calsequestrin gel conformation in situ. Perni S, Close M, Franzini-Armstrong C. J Biol Chem. 2013 Sep 11.

A method for the ultrastructural preservation of tiny percutaneous needle biopsy material from skeletal muscle. Pietrangelo T, Perni S, Di Tano G, Fanò-Illic G, Franzini-Armstrong C. Int J Mol Med. 2013 Oct;32(4):965-70. doi: 10.3892/ijmm.2013.1454. Epub 2013 Jul 23.

Stac3 is a component of the excitation-contraction coupling machinery and mutated in Native American myopathy. Horstick EJ, Linsley JW, Dowling JJ, Hauser MA, McDonald KK, Ashley-Koch A, Saint-Amant L, Satish A, Cui WW, Zhou W, Sprague SM, Stamm DS, Powell CM, Speer MC, Franzini-Armstrong C, Hirata H, Kuwada JY. Nat Commun. 2013;4:1952. doi: 10.1038/ncomms2952.

John Gearhart

Inhibition of TGFβ signaling increases direct conversion of fibroblasts to induced cardiomyocytes. Ifkovits JL, Addis RC, Epstein JA, Gearhart JD. PLoS One. 2014 Feb 26;9(2):e89678.

Optimal Isolation and Xeno-free culture conditions for limbal stem cell function. Stasi K, Goings D, Huang J, Herman L, Pinto F, Addis RC, Klein D, Massaro-Giordano M, Gearhart JD. Invest Ophthalmol Vis Sci. 2013 Sep 12. doi:pii: iovs.13-12517v1. 10.1167/iovs.13-12517.

The Epigenetic Modifier Ubiquitin-specific Protease 22 (USP22) Regulates Embryonic Stem Cell Differentiation via Transcriptional Repression of Sex-determining Region Y-box 2 (SOX2). Sussman RT, Stanek TJ, Esteso P, Gearhart JD, Knudsen KE, McMahon SB. J Biol Chem. 2013 Aug 16;288(33):24234-46. doi: 10.1074/jbc.M113.469783. Epub 2013 Jun 12.

Amin Ghabrial

Focal Defects in Single-Celled Tubes Mutant for Cerebral Cavernous Malformation 3, GCKIII, or NSF2. Song Y, Eng M, Ghabrial AS. Dev Cell. 2013 Jun 10;25(5):507-19. doi: 10.1016/j.devcel.2013.05.002.

Osmotic regulation of seamless tube growth. Schottenfeld-Roames J, Ghabrial AS. Nat Cell Biol. 2013 Feb;15(2):137-9.

Whacked and Rab35 polarize dynein-motor-complex-dependent seamless tube growth. Schottenfeld-Roames J, Ghabrial AS. Nat Cell Biol. 2012 Mar 11. doi: 10.1038/ncb2454. [Epub ahead of print]

Michael Granato

Mirror movement-like defects in startle behavior of zebrafish dcc mutants are caused by aberrant midline guidance of identified descending hindbrain neurons. Jain RA, Bell H, Lim A, Chien CB, Granato M. J Neurosci. 2014 Feb 19;34(8):2898-909.

Temporal requirement for SMN in motoneuron development. Hao LT, Duy PQ, Jontes JD, Wolman M, Granato M, Beattie CE. Hum Mol Genet. 2013 Mar 3.

A novel role for Lh3 dependent ECM modifications during neural crest cell migration in zebrafish. Banerjee S, Isaacman-Beck J, Schneider VA, Granato M. PLoS One. 2013;8(1):e54609. doi: 10.1371/journal.pone.0054609. Epub 2013 Jan 18.

Dan Kessler

Transcriptional integration of Wnt and Nodal pathways in establishment of the Spemann organizer. Reid CD, Zhang Y, Sheets MD, Kessler DS. Dev Biol. 2012 May 22

Mary Mullins

The integrator complex subunit 6 (Ints6) confines the dorsal organizer in vertebrate embryogenesis. Kapp LD, Abrams EW, Marlow FL, Mullins MC. PLoS Genet. 2013 Oct;9(10):e1003822.

The chromosomal passenger protein birc5b organizes microfilaments and germ plasm in the zebrafish embryo. Nair S, Marlow F, Abrams E, Kapp L, Mullins MC, Pelegri F. PLoS Genet. 2013 Apr;9(4):e1003448. doi: 10.1371/journal.pgen.1003448.

Anteroposterior and dorsoventral patterning are coordinated by an identical patterning clock. Hashiguchi M, Mullins MC. Development. 2013 May;140(9):1970-80. doi: 10.1242/dev.088104

Neal Rubinstein

Identification of the neuromuscular junction (NMJ) transcriptome of extraocular muscle (EOM) by laser capture microdissection (LCM).  Ketterer C, Zeiger U, Budak MT, Rubinstein NA, Khurana TS.  Invest Ophthalmol Vis Sci. 2010 Apr 14.

Patrick Seale

Prdm16 is required for the maintenance of brown adipocyte identity and function in adult mice. Harms MJ, Ishibashi J, Wang W, Lim HW, Goyama S, Sato T, Kurokawa M, Won KJ, Seale P. Cell Metab. 2014 Apr 1;19(4):593-604.

p107 Is a Crucial Regulator for Determining the Adipocyte Lineage Fate Choices of Stem Cells. De Sousa M, Porras DP, Perry CG, Seale P, Scimè A. Stem Cells. 2014 May;32(5):1323-36.

Ablation of PRDM16 and beige adipose causes metabolic dysfunction and a subcutaneous to visceral fat switch. Cohen P, Levy JD, Zhang Y, Frontini A, Kolodin DP, Svensson KJ, Lo JC, Zeng X, Ye L, Khandekar MJ, Wu J, Gunawardana SC, Banks AS, Camporez JP, Jurczak MJ, Kajimura S, Piston DW, Mathis D, Cinti S, Shulman GI, Seale P, Spiegelman BM. Cell. 2014 Jan 16;156(1-2):304-16.

Celeste Simon

Inhibition of hypoxia-inducible factors limits tumor progression in a mouse model of colorectal cancer. Shay JE, Imtiyaz HZ, Sivanand S, Durham AC, Skuli N, Hsu S, Mucaj V, Eisinger-Mathason TS, Krock BL, Giannoukos DN, Simon MC. Carcinogenesis. 2014 May;35(5):1067-77.

miR-218 opposes a critical RTK-HIF pathway in mesenchymal glioblastoma. Mathew LK, Skuli N, Mucaj V, Lee SS, Zinn PO, Sathyan P, Imtiyaz HZ, Zhang Z, Davuluri RV, Rao S, Venneti S, Lal P, Lathia JD, Rich JN, Keith B, Minn AJ, Simon MC. Proc Natl Acad Sci U S A. 2014 Jan 7;111(1):291-6.

Hypoxia-inducible factor 2α regulates key neutrophil functions in humans, mice, and zebrafish. Thompson AA, Elks PM, Marriott HM, Eamsamarng S, Higgins KR, Lewis A, Williams L, Parmar S, Shaw G, McGrath EE, Formenti F, Van Eeden FJ, Kinnula VL, Pugh CW, Sabroe I, Dockrell DH, Chilvers ER, Robbins PA, Percy MJ, Simon MC, Johnson RS, Renshaw SA, Whyte MK, Walmsley SR. Blood. 2014 Jan 16;123(3):366-76.

Nancy Speck

Runx1 and Cbfβ regulate the development of Flt3+ dendritic cell progenitors and restrict myeloproliferative disorder. Satpathy AT, Briseño CG, Cai X, Michael DG, Chou C, Hsiung S, Bhattacharya D, Speck NA, Egawa T. Blood. 2014 Mar 27.

Distinct temporal requirements for Runx1 in hematopoietic progenitors and stem cells. Tober J, Yzaguirre AD, Piwarzyk E, Speck NA. Development. 2013 Sep;140(18):3765-76. doi: 10.1242/dev.094961. Epub 2013 Aug 7.

The expression of Sox17 identifies and regulates haemogenic endothelium. Clarke RL, Yzaguirre AD, Yashiro-Ohtani Y, Bondue A, Blanpain C, Pear WS, Speck NA, Keller G. Nat Cell Biol. 2013 May;15(5):502-10. doi: 10.1038/ncb2724.

Phong Tran

Antagonistic spindle motors and MAPs regulate metaphase spindle length and chromosome segregation. Syrovatkina V, Fu C, Tran PT. Curr Biol. 2013 Dec 2;23(23):2423-9.

Imaging individual spindle microtubule dynamics in fission yeast. Costa J, Fu C, Syrovatkina V, Tran PT. Methods Cell Biol. 2013;115:385-94. doi: 10.1016/B978-0-12-407757-7.00024-4.

Common mechanisms regulating cell cortex properties during cell division and cell migration. Roubinet C, Tran PT, Piel M. Cytoskeleton (Hoboken). 2012 Nov;69(11):957-72. doi: 10.1002/cm.21086. Epub 2012 Nov 1.

John Weisel

Enhanced lysis and accelerated establishment of viscoelastic properties of fibrin clots are associated with pulmonary embolism. Martinez MR, Cuker A, Mills AM, Crichlow A, Lightfoot RT, Chernysh IN, Nagaswami C, Weisel JW, Ischiropoulos H. Am J Physiol Lung Cell Mol Physiol. 2014 Mar 1;306(5):L397-404.

Clot contraction: compression of erythrocytes into tightly packed polyhedra and redistribution of platelets and fibrin. Cines DB, Lebedeva T, Nagaswami C, Hayes V, Massefski W, Litvinov RI, Rauova L, Lowery TJ, Weisel JW. Blood. 2014 Mar 6;123(10):1596-603.

Distinct specificity and single-molecule kinetics characterize the interaction of pathogenic and non-pathogenic antibodies against platelet factor 4-heparin complexes with platelet factor 4. Litvinov RI, Yarovoi SV, Rauova L, Barsegov V, Sachais BS, Rux AH, Hinds JL, Arepally GM, Cines DB, Weisel JW. J Biol Chem. 2013 Nov 15;288(46):33060-70.

Ken Zaret

Genome reactivation after the silence in mitosis: recapitulating mechanisms of development? Zaret KS. Dev Cell. 2014 Apr 28;29(2):132-4.

Grg3/TLE3 and Grg1/TLE1 Induce Monohormonal Pancreatic β-Cells While Repressing α-Cell Functions. Metzger DE, Liu C, Ziaie AS, Naji A, Zaret KS. Diabetes. 2014 May;63(5):1804-16.

An iPSC line from human pancreatic ductal adenocarcinoma undergoes early to invasive stages of pancreatic cancer progression. Kim J, Hoffman JP, Alpaugh RK, Rhimm AD, Reichert M, Stanger BZ, Furth EE, Sepulveda AR, Yuan CX, Won KJ, Donahue G, Sands J, Gumbs AA, Zaret KS. Cell Rep. 2013 Jun 27;3(6):2088-99. doi: 10.1016/j.celrep.2013.05.036. Epub 2013 Jun 20.

Dept. of Cell & Developmental Biology
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