Publications

Original Research Papers
Biochemical Reduction of the Topology of the Diverse WDR76 Protein Interactome
Dayebgadoh G, Sardiu ME, Florens L, Washburn MP.  [published ahead of print July 30 2019]. J Proteome Res. 2019.
Original Data
Ataxin-7 and Non-stop coordinate SCAR protein levels, subcellular localization, and actin cytoskeleton organization
Cloud V, Thapa A, Morales-Sosa P, Miller T, Miller SA, Holsapple D, Gerhart P, Momtahan E, Jack JL, Leiva E, Rapp SR, Shelton LG, Pierce RA, Martin-Brown S, Florens L, Washburn MP, Mohan RD. eLife. 2019;8. doi: 10.7554/eLife.49677.
Original Data
Evolutionary origin and nomenclature of vertebrate Wnt11-family genes
Postlethwait JH, Navajas Acedo J, Piotrowski T. [published ahead of print July 12 2019]. Zebrafish. 2019.
Comprehensive single-cell transcriptome lineages of a proto-vertebrate
Cao C, Lemaire LA, Wang W, Yoon PH, Choi YA, Parsons LR, Matese JC, Wang W, Levine M, Chen K. Nature. 2019;571:349-354.
Original Data
Super-resolution microscopy reveals linkages between ribosomal DNA on heterologous chromosomes
Potapova TA, Unruh JR, Yu Z, Rancati G, Li H, Stampfer MR, Gerton JL. J Cell Biol. 2019;218:2492-2513.
Original Data
Signatures of Divergence, Invasiveness and Terrestralization Revealed by Four Apple Snail Genomes
Sun J, Mu H, Ip JCH, Li R, Xu T, Accorsi A, Sanchez Alvarado A, Ross E, Lan Y, Sun Y, Castro-Vazquez A, Vega IA, Heras H, Ituarte S, Van Bocxlaer B, Hayes KA, Cowie RH, Zhao Z, Zhang Y, Qian PY, Qiu JW. Mol Biol Evol. 2019;36:1507-1520.
Original Data
The Exocyst Functions in Niche Cells to Promote Germline Stem Cell Differentiation by Directly Controlling EGFR Membrane Trafficking​
Mao Y, Tu R, Huang Y, Mao D, Yang Z, Lau PK, Wang J, Ni J, Guo Y, Xie T. [published ahead of print  May 31 2019]. Development. 2019.
Original Data
A Role for FACT in RNA Polymerase II Promoter-Proximal Pausing
Tettey TT, Gao X, Shao W, Story BA, Chitsazan AD, Glaser RL, Seidel CW, Conaway RC, Zeitlinger J, Blanchette M, Conaway JW. Cell Rep. 2019;27:3770-3779 e7.
Original Data
Junctional tumor suppressors interact with 14-3-3 proteins to control planar spindle alignment
Nakajima YI, Lee ZT, McKinney SA, Swanson SK, Florens L, Gibson MC. J Cell Biol. 2019;218:1824-1838.
Original Data
Structure and function of Spc42 coiled-coils in yeast centrosome assembly and duplication
Drennan AC, Krishna S, Seeger MA, Andreas MP, Gardner JM, Sether EKR, Jaspersen SL, Rayment I. Mol Biol Cell. 2019;30:1505-1522.
Original Data
Killer meiotic drive and dynamic evolution of the wtf gene family
Eickbush MT, Young JM, Zanders SE. Mol Biol Evol. 2019;36:1201-1214.
Original Data
Gamete collection and in vitro fertilization of Astyanax mexicanus
Peuss R, Zakibe Z, Krishnan J, Merryman MS, Baumann DP, Rohner N.  J Vis Exp. 2019. doi: 10.3791/59334.
Original Data
Downregulation of FGF signaling by Spry4 over-expression leads to shape impairment, enamel irregularities, and delayed signaling center formation in the mouse molar
Marangoni P, Charles C, Ahn Y, Seidel K, Jheon A, Ganss B, Krumlauf R, Viriot L, Klein OD. [published ahead of print May 23 2019]. JBMR Plus. 2019.
The stoichiometry of the outer kinetochore is modulated by microtubule-proximal regulatory factors
Dhatchinamoorthy K, Unruh JR, lange JJ, Levy M, Slaughter BD, Gerton JL. [published ahead of print May 22 2019]. J Cell Biol. 2019.
Original Data
The E3 ubiquitin ligase SINA regulates the assembly and disassembly of the synaptonemal complex in Drosophila females
Hughes SE, Hemenway E, Guo F, Yi K, Yu Z, Hawley RS. PLoS Genet. 2019;15:e1008161. doi: 10.1371/journal.pgen.1008161.
Original Data
DNA-dependent protein kinase catalytic subunit (DNA-PKcs) contributes to incorporation of histone variant H2A.Z into nucleosomes
Wang LY, He YX, Li M, Ding J, Sui Y, Conaway JW, Conaway RC, Wang F, Jin J, Cai Y. [published ahead of print May 22 2019]. Protein & cell. 2019.
Original Data
Identification of a nuclear localization signal and importin beta members mediating NUAK1 nuclear import inhibited by oxidative stress
Palma M, Riffo EN, Suganuma T, Washburn MP, Workman JL, Pincheira R, Castro AF. [published ahead of print May 16 2019]. J Cell Biochem. 2019.
Original Data
Artificial RNA Polymerase II Elongation Complexes for Dissecting Co-transcriptional RNA Processing Events
Noe Gonzalez M, Conaway JW, Conaway RC. J Vis Exp. 2019;147: doi: 10.3791/59497.
Original Data
p53 and b-Catenin Expression Predict Poorer Prognosis in Patients With Anaplastic Large-Cell Lymphoma
Richardson AI, Yin CC, Cui W, Li N, Medeiros LJ, Li L, Zhang D. [published ahead of print May 13 2019]. Clin Lymphoma Myeloma Leuk. 2019.
An atlas of anterior hox gene expression in the embryonic sea lamprey head: Hox-code evolution in vertebrates
Parker HJ, Bronner ME, Krumlauf R. [published ahead of print May 10 2019]. Dev Biol. 2019.
Original Data
Hypo-osmotic-like stress underlies general cellular defects of aneuploidy
Tsai HJ, Nelliat AR, Choudhury MI, Kucharavy A, Bradford WD, Cook ME, Kim J, Mair DB, Sun SX, Schatz MC, Li R. Nature. 2019;570:117-121.
Yeast centrosome components form a noncanonical LINC complex at the nuclear envelope insertion site.
Chen J, Gardner JM, Yu Z, Smith SE, McKinney S, Slaughter BD, Unruh JR, Jaspersen SL.  J Cell Biol. 2019;218:1478-1490.
Original Data
Dopamine receptor antagonists as potential therapeutic agents for ADPKD
Paul P, Ramachandran S, Xia S, Unruh JR, Conkright-Fincham J, Li R. PLoS One. 2019;14:e0216220.
Original Data
Reporter-ChIP-nexus reveals strong contribution of the Drosophila initiator sequence to RNA Polymerase pausing
Shao W, Alcantara SG, Zeitlinger J. eLife. 2019;8:e41461. doi: 41410.47554/eLife.41461.
Original Data
Translation affects mRNA stability in a codon-dependent manner in human cells
Wu Q, Medina SG, Kushawah G, DeVore ML, Castellano LA, Hand JM, Wright M, Bazzini AA.  eLife. 2019;8:e45396. doi: 45310.47554/eLife.45396.
Original Data
Set1-catalyzed H3K4 trimethylation antagonizes the HIR/Asf1/Rtt106 repressor complex to promote histone gene expression and chronological life span
Mei Q, Xu C, Gogol M, Tang J, Chen W, Yu X, Workman JL, Li S. Nucleic Acids Res. 2019;47:3434-3449.
Filling in the phylogenetic gaps: induction, migration and differentiation of neural crest cells in a squamate reptile, the Veiled Chameleon (Chamaeleo calyptratus)
Diaz RE, Jr., Shylo NA, Roellig D, Bronner M, Trainor PA. [published ahead of print  April 14 2019]. Dev Dyn. 2019.
Original Data
Evaluating Chromatographic Approaches for the Quantitative Analysis of a Human Proteome on Orbitrap-Based Mass Spectrometry Systems
Zhang Y, Wen Z, Washburn MP, Florens L. J Proteome Res. 2019;18:1857-1869.
Original Data
Stable transgenesis in Astyanax mexicanus using the Tol2 transposase system
Stahl BA, Peuss R, McDole B, Kenzior A, Jaggard JB, Gaudenz K, Krishnan J, McGaugh SE, Duboue ER, Keene AC, Rohner N. [published ahead of print April 3 2019]. Dev Dyn. 2019.
Original Data
Distribution of Proteins at the Inner Nuclear Membrane Is Regulated by the Asi1 E3 Ligase in Saccharomyces cerevisiae
Smoyer CJ, Smith SE, Gardner JM, McCroskey S, Unruh JR, Jaspersen SL. Genetics. 2019;211:1269-1282.
Original Data
DYRK1A regulates the recruitment of 53BP1 to the sites of DNA damage in part through interaction with RNF169
Menon VR, Ananthapadmanabhan V, Swanson S, Saini S, Sesay F, Yakovlev V, Florens L, DeCaprio JA, Washburn MP, Dozmorov M, Litovchick L. Cell Cycle. 2019;18:531-551.
Original Data
A Hox-TALE regulatory circuit for neural crest patterning is conserved across vertebrates
Parker HJ, De Kumar B, Green SA, Prummel KD, Hess C, Kaufman CK, Mosimann C, Wiedemann LM, Bronner ME, Krumlauf R. Nat Commun. 2019;10:1189. doi: 1110.1038/s41467-41019-09197-41468.
Original Data
Topological Scoring of Protein Interaction Networks
Sardiu ME, Gilmore JM, Groppe BD, Dutta A, Florens L, Washburn MP.  Nat Commun. 2019;10:1118. doi: 1110.1038/s41467-41019-09123-y.
Original Data
The transcriptome of the Veiled Chameleon (Chamaeleo calyptratus): a resource for studying the evolution and development of vertebrates
Pinto BJ, Card DC, Castoe TA, Diaz RE, Jr., Nielsen SV, Trainor PA, Gamble T. [published ahead of print March 7 2019] Dev Dyn. 2019.
ClusterMap: Compare multiple Single Cell RNA-Seq datasets across different experimental conditions
Porokhovnik L, Gerton JL. Chromosome Res. 2019;27:1-3.
Original Data
Imaging-based assays for investigating functions of the RNA polymerase II elongation factor Elongin and the Elongin ubiquitin ligase
Weems JC, Unruh JR, Slaughter BD, Conaway RC, Conaway JW. [published ahead of print February 15 2019]. Methods. 2019.​
Original Data
RUNX proteins desensitize multiple myeloma to lenalidomide via protecting IKZFs from degradation
Zhou N, Gutierrez-Uzquiza A, Zheng XY, Chang R, Vogl DT, Garfall AL, Bernabei L, Saraf A, Florens L, Washburn MP, Illendula A, Bushweller JH, Busino L. [published ahead of print February 15 2019]. Leukemia. 2019.
Original Data
Characterization of a metazoan ADA acetyltransferase complex
Soffers JHM, Li X, Saraf A, Seidel CW, Florens L, Washburn MP, Abmayr SM, Workman JL. Nucleic Acids Res. 2019;47:3383-3394.
Original Data
A chemoproteomic portrait of the oncometabolite fumarate
Kulkarni RA, Bak DW, Wei D, Bergholtz SE, Briney CA, Shrimp JH, Alpsoy A, Thorpe AL, Bavari AE, Crooks DR, Levy M, Florens L, Washburn MP, Frizzell N, Dykhuizen EC, Weerapana E, Linehan WM, Meier JL. Nat Chem Biol. 2019;15:391-400
Original Data
Host Vesicle Fusion Protein VAPB Is Required for the Nuclear Egress Stage of Herpes Simplex Virus Type-1 (HSV-1) Replication
Saiz-Ros N, Czapiewski R, Epifano I, Stevenson A, Swanson SK, Dixon CR, Zamora DB, McElwee M, Vijayakrishnan S, Richardson CA, Dong L, Kelly DA, Pytowski L, Goldberg MW, Florens L, Graham SV, Schirmer EC. Cells. 2019;8 E120. doi: 110.3390/cells8020120.
Original Data
Defining gene networks controlling the maintenance and function of the differentiation niche by an in vivo systematic RNAi screen
Gao Y, Mao Y, Xu RG, Zhu R, Zhang M, Sun J, Shen D, Peng P, Xie T, Ni JQ. J Genet Genome. 2019;46:19-30.
scRNA-Seq reveals distinct stem cell populations that drive hair cell regeneration after loss of Fgf and Notch signaling
Lush ME, Diaz DC, Koenecke N, Baek S, Boldt H, St Peter MK, Gaitan-Escudero T, Romero-Carvajal A, Busch-Nentwich EM, Perera AG, Hall KE, Peak A, Haug JS, Piotrowski T.  Elife. 2019;8:e44431. doi: 44410.47554/eLife.44431.
Original Data
N-Cadherin-Expressing Bone and Marrow Stromal Progenitor Cells Maintain Reserve Hematopoietic Stem Cells
Zhao M, Tao F, Venkatraman A, Li Z, Smith SE, Unruh J, Chen S, Ward C, Qian P, Perry JM, Marshall H, Wang J, He XC, Li L. Cell Rep. 2019;26:652-669 e656.
Original Data
The Drosophila Dbf4 ortholog Chiffon forms a complex with Gcn5 that is necessary for histone acetylation and viability
Torres-Zelada EF, Stephenson RE, Alpsoy A, Anderson BD, Swanson SK, Florens L, Dykhuizen EC, Washburn MP, Weake VM. J Cell Sci. 2019;132:jcs.214072.
Original Data
Electroporation of short hairpin RNAs for rapid and efficient gene knockdown in the starlet sea anemone, Nematostella vectensis.
Karabulut A, He S, Chen CY, McKinney SA, Gibson MC. Dev Biol. 2019;448:7-15.
Original Data
Oocyte-specific deletion of Hdac8 in mice reveals stage-specific effects on fertility
Singh VP, Yueh WT, Gerton JL, Duncan FE. Reproduction. 2019;157:305-316.
Original Data
Narya, a RING finger domain-containing protein, is required for both meiotic DNA double-strand break formation and crossover maturation in Drosophila melanogaster
Lake CM, Nielsen RJ, Bonner AM, Eche S, White-Brown S, McKim KS, Hawley RS. PLoS Genet. 2019;15:e1007886. doi: 1007810.1001371/journal.pgen.1007886.​
Original Data
Shh plays an inhibitory role in cusp patterning by regulation of Sostdc1
Kim J, Ahn Y, Adasooriya D, Woo EJ, Kim HJ, Hu KS, Krumlauf R, Cho SW.  J Dent Res. 2019;98:98-106.
Original Data
Functional consequences of the evolution of matrimony, a meiosis-specific inhibitor of Polo kinase
Bonner AM, Hawley RS. Mol Biol Evol. 2019;36:69-83.
Original Data
Reviews, Commentaries, Chapters or Books
A family of killers
De Carvalho M, Zanders SE. eLife. 2019;8:e46454. doi: 46410.47554/eLife.46454.
When mothers leave their mark​
Barajas-Azpeleta R, Si K. eLife. 2019;8:e48899. doi: 48810.47554/eLife.48899.
Hematopoietic Stem Cells: Self-renewal and Expansion
Li Z, He XC, Li L. Curr Opin Hematol. 2019;26:258-265.
Fertility costs of Meiotic Drivers
Zanders SE, Unckless RL. Curr Biol. 2019;29:R512-R520.
Cornelia de Lange syndrome, related disorders, and the Cohesin complex: Abstracts from the 8th biennial scientific and educational symposium 2018
Kline AD, Krantz ID, Bando M, Shirahige K, Chea S, Sakata T, Rao S, Dorsett D, Singh VP, Gerton JL, Horsfield JA, Calof AL, Katz O, Grados M, Raible S, Baranano K, Lyon G, Musio A, Carrico CS, Clemens DK, Caudill P, Massa V, McGill BE, Dommestrup A, O'Connor J, Haaland RE. Am J Med Genet A. 2019;179:1030-1090.
Hox genes: Downstream "effectors" of retinoic acid signaling in vertebrate embryogenesis
Nolte C, De Kumar B, Krumlauf R. Genesis. 2019:e23306.
Niche cells rewired to maintain HSCs ex vivo
Venkatraman A, Li L. Nat Cell Biol. 2019;21:540-541.
Patrolling the nucleus: inner nuclear membrane-associated degradation
Smoyer CJ, Jaspersen SL. [published ahead of print April 26 2019]. Curr Genet. 2019.
Commentary on "Regeneration, duplication and transdetermination in fragments of the leg disc of Drosophila melanogaster": Schubiger, G. (1971). Dev Biol. 2019;449:63-82.
Gibson MC. Dev Biol. 2019;449:63-82.
Mouse embryo culture for the study of neural crest cells
Munoz WA, Trainor PA. Methods Mol Biol: Meiosis. 2019;1976:107-119.
In ovo electroporation of plasmid DNA and morpholinos into specific tissues during early embryogenesis
McLennan R, Kulesa PM. Methods Mol Biol. 2019;1976:71-82.
Original Data
Observation of two separate bipolar spindles in the human zygote
Xu, X., Li L, Zhang C, Meng L. J Assist Reprod Genet. 2019;36:601-602. Correction: J Assist Reprod Genet. 2019 Jul 31. pii: 10.1007/s10815-019-01539-1. doi: 10.1007/s10815-019-01539-1.
Sweet fish: Fish models for the study of hyperglycemia and diabetes
Krishnan J, Rohner N. J Diabetes. 2019;11:193-203.
Ribosomal DNA and the nucleolus in the context of genome organization
Potapova TA, Gerton JL. Chromosome Res. 2019;27:109-127.
Ribosomal DNA instability and genome adaptability
Salim D, Gerton JL. Chromosome Res. 2019;27:73-87.
The Society for Craniofacial Genetics and Developmental Biology 41st Annual Meeting
Taneyhill LA, Moody SA, Cox T, Klein OD, Marcucio R, Schneider RA, Trainor PA. Am J Med Genet A. 2019;179:864-869.
Manipulation of developmental function in turtles with notes on alligators
Moustakas-Verho JE, McLennan R, Spengler J, Kulesa PM, Cebra-Thomas JA. Methods Mol Biol. 2019;1920:247-263. Author's Correction: Methods Mol Biol. 2019;1920:C1.
Original Data
Ribosomal DNA-connecting ribosome biogenesis and chromosome biology
Porokhovnik L, Gerton JL. Chromosome Res. 2019;27:1-3.
Recent advances in understanding intestinal stem cell regulation
Hu D, Yan H, He XC, Li L.  F1000Res. 2019;8:F1000 Faculty Rev-72. Published 2019 Jan 18. doi:10.12688/f1000research.16793.1