Doe Lab

University of Oregon | Institute of Neuroscience | Institute of Molecular Biology | Howard Hughes Medical Institute | Eugene, OR

Recent Publications




Carney TD, Struck AJ, Doe CQ. (2013) midlife crisis encodes a conserved zinc-finger protein required to maintain neuronal differentiation in Drosophila. Development ePress 11 September 2013 | [PDF]

Johnston CA, Manning L, Lu MS, Golub O, Doe CQ, Prehoda KE. (2013) Formin-mediated actin polymerization cooperates with Mud/Dynein during Frizzled/Dishevelled spindle orientation. Journal of Cell Science July 18. (Epub ahead of print). PMID:23868974 | [PDF]

Bayraktar OA, Doe CQ. (2013) Combinatorial temporal patterning in progenitors expands neural diversity. Nature Jun 27;498(7455):449-55. PMID: 23783519 | [PDF]

Kohwi, M., Lupton, J.R., Lai, S-L., Miller, M.R., Doe, C.Q. (2013) Developmentally Regulated Subnuclear Genome Reorganization Restricts Neural Progenitor Competence in Drosophila. Cell January 17, 2013; 152 97-108. PMCID: PMC3670710| [PDF]

Gay, L., Miller, M.R., Ventura, P.B., Devasthali, V., Vue, Z., Thompson, H.L., Temple, S., Zong, H., Cleary, M.D., Stankunas, K., Doe, C.Q. (2013) Mouse TU tagging: a chemical/genetic intersectional method for purifying cell type-specific nascent RNA. Genes & Development January 1, 2013; 27 (1) 98-115. PMCID: PMC3553287 | [PDF]


Lai, S-L, Miller, M.R., Robinson, K.J., Doe, C.Q. (2012) The snail family member worniu is continuously required in neuroblasts to prevent elav-induced premature differentiation. Developmental Cell Oct 16;23(4):849-57. PMCID: PMC3509944 | [PDF]

Manning, L., Heckscher, E.S., Purice, M.D., Roberts, J., Bennett, A.L., Kroll, J.R., Pollard, J.L., Strader, M.E., Lupton, J.R., Dyukareva, A.V., Doan, P.N., Bauer, D.M., Wilbur, A.N., Tanner, S., Kelly, J.J., Lai, S-L, Tran, K.D., Kohwi, M., Laverty, T.R., Pearson, J.C., Crews, S.T., Rubin, G.M., Doe, C.Q. (2012) A Resource for Manipulating Gene Expression and Analyzing cis-Regulatory Modules in the Drosophils CNS. Cell Reports Oct 25;2(4):1002-13 | [PDF]

Heckscher, E.S., Lockery, S.R., Doe, C.Q. (2012) Characterization of Drosophila larval crawling at the level of organism, segment, and somatic body wall musculature. Journal of Neuroscience Sept 5;32(36):12461-71. | [PDF]

Johnston, C.A., Doe, C.Q., Prehoda, K.E. (2012) Structure of an enzyme-derived phosphoprotein recognition domain. PLoS One Vol. 7 (4) e36014. PMCID: PMC3335814 | [PDF]

Miller, M.R., Brunelli, J.P., Wheeler, P.A., Liu, S., Rexroad III, C.E., Palti, Y., Doe, C.Q., Thorgaard, G.H. (2012) A conserved haplotype controls parallel adaptation in geographically distant salmonid populations. Molecular Ecology 21, 237-249. | [PDF]

Andersen, R.O., Turnbull, D.W., Johnson, E.A., Doe, C.Q., (2012) Sgt1 acts via an LKB1/AMPK pathway to establish cortical polarity in larval neuroblasts. Developmental Biology 363, 258-265. | [PDF]

Sun, K., Westholm, J.O., Tsurudome, K., Hagen, J.W., Lu, Y., Kohwi, M., Betel, D., Gao, F-B., Haghighi, A.P., Doe, C.Q., Lai, E.C. (2012) Neurophysiological Defects and Neuronal Gene Deregulation inDrosophila mir-124 Mutants. PLos Genetics V8 (2) e1002515. PMCID: PMC3276548 | [PDF]

Carney, T.D., Miller, M.R., Robinson, K.J., Bayraktar, O.A., Osterhout, J.A., Doe, C.Q. (2012) Functional genomics identifies neural stem cell sub-type expression profiles and genes regulating neuroblast homeostasis. Developmental Biology 361, 137-146. PMCID: PMC3553287 | [PDF]


Connell, M., Cabernard, C., Ricketson, D., Doe, C.Q. Prehoda, K.E. (2011) Asymmetric cortical extension shifts cleavage furrow position in Drosophila neuroblasts. Molecular Biology of the Cell V22, 4220-4226. PMCID: PMC3216648 | [PDF]

Johnston, C.A., Whitney, D.S., Volkman, B.R., Doe, C.Q., Prehoda, K.E. (2011) Conversion of the enzyme guanylate kinase into a mitotic-spindle orienting protein by a single mutation that inhibits GMP-induced closing. PNAS 108 (44), E973-E978. PMCID: PMC3207680 | [PDF]

Wee, B., Johnston, C.A., Prehoda, K.E., Doe, C.Q. (2011) Canoe binds RanGTP to promote PinsTPR/mud-mediated spindle orientation. The Journal of Cell Biology V195 (3), 369-376. PMCID: PMC3206335 | [PDF]

Hirono, K., Margolis, J.S., Posakony, J.W.. Doe, C.Q. (2011) Identification of hunchback cis-regulatory DNA conferring temporal expression in neuroblasts and neurons. Gene Expression Patterns 12, 11-17. PMCID: PMC3272097| [PDF]

Faumont, S., Rondeau, G., Thiele, T.R., Lawton. K., McCormick, K.E., Sottile, M., Griesbeck, O., Heckscher, E.S., Roberts, W.M., Doe, C.Q., Lockery, S.R. (2011) An Image-Free Opto-Mechanical System for Creating Virtual Environments and Imaging Neuronal Activity in Freely Moving Caenorhabditis elegans. PLoS one V6(9) e24666 PMCID: PMC3182168 | [PDF]

Doe, C.Q., Kaibuchi, K., (2011) Neuronal Polarity in 2011. Developmental Neurobiology 71(6), 401-402. | [PDF]

Kohwi, M., Hiebert, L.S., Doe, C.Q., (2011) The pipsqueak-domain proteins Distal antenna and DIstal antenna-related restrict Hunchback neuroblast expression and early-born neuronal identity. Development 138, 1727-1735. PMCID: PMC3074449 | [PDF]


Segalen, M., Johnston, C.A., Martin, C.A., Dumortier, J.G., Prehoda, K.E., David, N.B., Doe, C.Q., Bellaiche, Y., (2010) The Fz-Dsh Planar Cell Polarity Pathway Induces Oriented Cell Division via Mud/NuMA in Drosophila and Zebrafish. Developmental Cell 19, 740-752. | [PDF]

Bayraktar, O.A., Boone, J.Q., Drummond, M.L., Doe, C.Q., (2010) Drosophila type II neuroblast lineages keep Prospero levels low to generate large clones that contribute to the adult brain central complex. Neural Development October 1, 5;26 | [PDF]

Cabernard, C., Prehoda, K.E., Doe, C.Q., (2010) A spindle-indepedent cleavage furrow positioning pathway. Nature Vol 467, 2 September, 91-95. | [PDF]

Callan, MA, Cabrnard C, Heck J, Louis S, Doe CQ, Zarnescu DC., (2010) Fragile X protein controls neural stem cell proliferation in the Drosophila brain. Human Molecular Genetics Aug 1;19(15):3068-79. | [PDF]

Tran, K.D., Miller, M.R., Doe, C.Q., (2010) Recombineering Hunchback identifies two conserved domains required to maintain neuroblast competence and specify early-born neuronal identity. Development 137(9), 1421-1430. | [PDF]


Kohwi, M., Doe, C.Q., (2009) Preview, Stem cell transcriptional loops generate precise temporal identity. Cell Stem Cell Dec. 4;5(6):577-578. | [PDF]

Siller, K.H., Doe, C.Q., (2009) Spindle orientation during asymmetric cell division. Nature Cell Biology April V.11(3): 365-374. | [PDF]

Marcette, J., Hood, I.V., Johnston, C.A., Doe, C.Q., Prehoda, K.E., (2009) Allosteric Control of Regulated Scaffolding in Membrane-Associated Guanylate Kinases. Biochemistry 48, 10014-10019. | [PDF]

Miller, M.R., Robinson, K.J., Cleary, M.D., Doe, C.Q., (2009) TU-tagging: cell type-specific RNA isolation from intact complex tissues. Nature Methods 6, 439-441. | [PDF]

Cabernard, C., Doe, C.Q., (2009) Apical/Basal Spindle Orientation is Required for Neuroblast Homeostasis and Neuronal Differentiation in Drosophila. Developmental Cell 17, 134-141. | [PDF]

Johnston, C.A., Hirono, K., Prehoda, K.E., Doe, C.Q. (2009) Identification of an Aurora-A/PinsLINKER/Dlg Spindle Orientation Pathway using Induced Cell Polarity in S2 Cells. Cell 138, 1150-1163.| [PDF]

Chabu, C, Doe, C.Q., (2009) Twins/PP2A regulates aPKC to control neuroblast cell polarity and self-renewal. Developmental Biology 330, 399-405. | [PDF]


Tran, K.D., Doe, C.Q., (2008) Pdm and Castor close successive temporal identity windows in the NB-3 lineage. Development 135, 3491-3499. | [PDF]

Chabu, C., Doe, C.Q., (2008) Dap160/intersectin binds and activates aPKC to regulate cell polarity an cell cycle progression. Development 135, 2739-2746. | [PDF]

Siller, K.H., Doe, C.Q., (2008) Lis1/dynactin regulates metaphase spindle orientation in Drosophila neuroblasts. Developmental Biology 319, 1-9. | [PDF]

Boone, J.Q., Doe, C.Q., (2008) Identification of Drosophila Type II Neuroblast Lineages Containing Transit Amplifying Ganglion Mother Cells. Developmental Neurobiology 69, 1185-1195. | [PDF]

Doe, C.Q., (2008) Neural stem cells: balancing self-renewal with differentiation. Development 135, 1575-1587. | [PDF]

Zhu, C.C., Boone, J.Q., Jensen, P.A., Hanna, S., Pdemski, L., Locke, J., Doe, C.Q., O'Connor, M., (2008) Drosopila Activin-ß and the Activin-like product Dawdle function redundantly to regulate proliferation in the larvel brain. Development 135, 513-521. | [PDF]

Pfeiffer, B.D., Jennett, A., Hammonds, A.S., Ngo, T.B., Misra, S., Murphy, C., Scully, A., Carlson, J.W., Wan, K.H., Laverty, T.R., Mungall, C., Scirskas, R., Kadonaga, J.T., Doe, C.Q., Eisen, M.B., Celniker, S.E., Rubin, G.M., (2008). Tools for neuroanatomy and neurogenetics in Drosophila. PNAS Vol. 105 (28), 9715-9720. | [PDF]


Atwood, S.X., Chabu, C., Penkert, R.R., Doe, C.Q., Prehoda, K.E., (2007) Cdc42 acts downstream of Bazooka to regulate neuroblast polarity through Par-6-aPKC. Journal of Cell Science 120, 3200-3206. | [PDF]

Nipper, R.W., Siller, K.H., Smith, N.R., Doe, C.Q.. Prehods, K.E., (2007) G alpha i generates multiple Pins activation states to link cortical polarity and spindle orientation in Drosophila neuroblasts. PNAS 104 (36), 14306-14311. | [PDF]

Cabernard, C., Doe, C.Q. (2007) Stem Cell Self-Renewal: Centrsomes on the Move. Current Biology 17: R465-R467. | [PDF]

Rolls, M.M., Satoh, D., Clyne, P.J., Henner, A.L., Uemura, T., Doe, CQ (2007) Polarity and intracellular compartmentalization of Drosophila neurons. Neural Development Apr 30;2(1):7 | [PDF]

Siegrist, S.E., Doe, C.Q. (2007) Microtubule-induced cortical cell polarity. Genes & Development Mar 1;21(5):483-96 | [PDF]

Egger, B.,Boone, J.Q., Stevens, N.R., Brand, A.H., Doe, C.Q. (2007) Regulation of spindle orientation and neural stem cell fate in the Drosophila optic lobe. Neural Development Jan 5;2:1 | [PDF]


Lee, C-Y, Andersen, R.O., Cabernard, C., Manning, L., Tran, K.D., Lanskey, M.J., Bashirullah, A., Doe, C.Q. (2006) Drosophila Aurora-A kinase inhibits neuroblast self-renewal by regulating aPKC/Numb cortical polarity and spindle orientation. Genes & Development 20 (24), 3464-3474 | [PDF]

Doe, C.Q. (2006) Chinmo and neuroblast temporal identity. Cell Oct 20;127(2):254-6 | [PDF]

Grosskortenhaus, R., Robinson, K.J., Doe, C.Q. (2006) Pdm and Castor specify late-born motor neuron identity in the NB7-1 lineage. Genes & Development Sep 15;20(18):2618-27 | [PDF]

Siller, K.H., Cabernard, C., Doe, C.Q. (2006) The NuMA-related Mud protein binds Pins and regulates spindle orientation in Drosophila neuroblasts. Nature Cell Biology Jun;8(6):594-600 | [PDF]

Lee, C-Y., Wilkinson, B.D., Siegrist, S., Wharton, R., Doe, C.Q. (2006) Brat Is a Miranda Cargo Protein that Promotes Neuronal Differentiation and Inhibits Neuroblast Self-Renewal. Developmental Cell 10, 441-449 | [PDF]

Cleary M., Doe C.Q. (2006) Regulation of neuroblast competence: multiple temporal identity factors specify distinct neuronal fates within a single early competence window. Genes & Development 20:429-434 | [PDF]

Layden M.J., Odden J., Schmid A., Garces A., Thor S., Doe CQ, (2006) Zfh1, a somatic motor neuron transcription factor, regulates axon exit from the CNS. Developmental Biology 291:253-263 | [PDF]

Siegrist, S.E., Doe, C.Q. (2006) Extrinsic cues orient the cell division axis in Drosophila embryonic neuroblasts. Development Feb 133(3):529-36 | [PDF]

Lee C-Y., Robinson K., Doe C.Q. (2006) Lgl, Pins and aPKC regulate neuroblast self-renewal versus differentiation. Nature 439(2) 594-598 | [PDF]


Siegrist S., Doe C.Q. (2005) Microtubule-Induced Pins/Gai Cortical Polarity in Drosophila Neuroblasts. Cell 123:1323-1335 | [PDF]

Siller K., Serr M., Steward R., Hays T.S., Doe C.Q. (2005) Live Imaging of Drosophila Brain Neuroblasts Reveals a Role for Lis1/Dynactin in Spindle Assembly and Mitotic Checkpoint Control. Molecular Biology of the Cell 16;5127-5140 | [PDF]

Armstrong, J.A., Sperling, A.S., Deuring, R., Manning, L., Moseley, S.L., Papoulas, O., Piatek, C.I., Doe, C.Q., Tamkun, J.W. (2005) Genetic screens for enhancers of brahma reveal functional interactions between the BRM chromatin-remodeling complex and the delta-notch signal transduction pathway in Drosophila. Genetics Aug 170(4):1761-74 | [PDF]

Grosskortenhaus R, Pearson BJ, Marusich A, Doe C.Q. (2005) Regulation of temporal identity transitions in Drosophila neuroblasts. Developmental Cell. 2005 Feb;8(2):193-202 | [PDF]

Karcavich, R. and Doe, C.Q. (2005) The Drosophila neuroblast 7-3 cell lineage: a model system for studying programmed cell death, Notch/Numb signaling, and sequential specification of GMC identity. The Journal of Comparative Neurology, 481:240-251 | [PDF]


Cheesman, S., Layden, M., von Ohlen, T., Doe, C.Q. and Eisen, J.S. (2004) Zebrafish and fly Nkx6 proteins have similar CNS expression patterns and regulate motoneuron formation. Development 131 5221-5232. | [PDF]

Pearson, B., Doe, C.Q. (2004) Specification of temporal identity in the developing nervous system. Annual Review of Cell and Developmental Biology, Vol. 20, pages 619-647. | [PDF]

Rolls, M.M. and and Doe, C.Q. Baz, (2004) Par-6 and aPKC are polarized in mature neurons, but are not required for in vivo axon specification in Drosophila. Nature Neuroscience., 421, 905-906. | [PDF]

Irion, U., Leptin, M., Siller, K., Fuerstenberg, S., Cai, Y., Doe, C.Q., Chia, W., and Yang, X. (2004) Abstrakt, a DEAD box protein, regulates inscuteable at a post-transcriptional level and is required for asymmetric division of neural and mesodermal progenitors. Current Biology, 14, 138-144. | [PDF]

Isshiki, T. and Doe, C.Q. (2004) Youthfulness of neural progenitors in Drosophila. Cell Cycle, 3, 296-299. | [PDF]


Albertson, R., Chabu, C., Sheehan, A. and Doe, C.Q. (2003) Scribble protein domain mapping reveals a multistep localization mechanism and domains necessary for establishing cortical polarity. Journal of Cell Science 117, 6061-6070. | [PDF]

Pearson, B. and Doe, C.Q. (2003) Regulation of neuroblast competence in Drosophila. Nature, 425, 624-628 | [PDF] [Movie 1] [Movie 2]

Freeman, M., Delrow, J., Kim, J., Johnson, E., Doe, C.Q. (2003) Unwrapping glial biology: Gcm target genes regulating glial development, diversification, and function. Neuron, 38, 567-580 | [PDF] [Movie 1] [Movie 2]

McDonald, J.A. Fujioka, M., Odden, J.P., Jaynes, J.B., Doe, C.Q. (2003) Specification of motoneuron fate in Drosophila: Integration of positive and negative transcription factor inputs by a minimal eve enhancer. Journal of Neurobiology 57(2), 193-203 | [PDF]

Rolls, M.M. and Doe, C.Q. (2003) Cell Polarity: From embryo to axon. Nature 421, 905-906. | [PDF]

Albertson, R. and Doe, C.Q. (2003) Dlg, Scrib and Lgl regulate neuroblast cell size and mitotic spindle asymmetry. Nature Cell Biology 166-170. | [PDF] [Movie]


Ryter, J.M., Doe, C.Q., Matthews, B.M. (2002) Structure of the DNA Binding Region of Prospero Reveals a Novel Homeo-Prospero Domain. Structure10, 1541-1549. | [PDF]

Odden, J., Holbrook, S., and Doe, C.Q. (2002) Drosophila HB9 Is Expressed in a Subset of Motoneurons and Interneurons, Where It Regulates Gene Expression and Axon Pathfinding. The Journal of Neuroscience | [PDF]


Zelhof, A.C., Bao, H., Hardy, R.W., Zhang, B., and Doe, C.Q. (2001) Drosophila Amphiphysin is implicated in protein localization and membrane morphogenesis but not in endocytosis., Development 128, 5005-5015. | [PDF]

Freeman, M. and Doe, C.Q. (2001) Asymmetric Prospero localization is required to generate mixed neuronal/glal lineages in the Drosophila CNS. Development128, 4103-4112. | [PDF]

Isshiki, T., Pearson, B., Holbrook, S., and Doe, C.Q. (2001) Drosophila neuroblasts sequentially express transcription factors which specify the temporal identity of their neuronal progeny. Cell106, 511-521. | [PDF]

Doe, C.Q. and B.B. Bowerman. (2001) Asymmetric cell division: fly neuroblast meets worm Zygote. Current Opinion Cell Biol, 13, 68-75. | [PDF]


Peng, C.-Y., L.M. Manning, R. Albertson and C.Q. Doe. (2000) The tumor suppressor genes lgl and dlg regulate basal protein targeting in Drosophila neuroblast.Nature408, 596-600. | [PDF]

Von Ohlen, T. and Doe, C.Q. (2000) Convergence of Dorsal, Dpp and Egfr signaling pathways subdivides the Drosophila neuroectoderm into three dorsoventral columns. Dev. Biol.224, 362-372. | [PDF]

Schmid, A., Chiba, A., and Doe, C.Q. (1999) Clonal analysis of Drosophila embryonic neuroblasts: neural cell types, axon projections and muscle targets. Development 126, 4653-4689. | [PDF] [Data]

Manning, L. and Doe, C.Q. (1999) Prospero distinguishes sibling cell fate without asymmetric localization in the Drosophila adult external sense organ lineage. Development 126, 2063-2071. | [PDF]

Weiss, J., Von Ohlen, T., Mellerick, D., Dressler, G., Doe, C., and Scott, M. (1998) Dorsal-ventral patterning in the Drosophila central nervous system: The intermediate neuroblasts defective homeobox gene specifies intermediate column identity. Genes & Dev. 12, 3591-3602. | [PDF]

McDonald, J.A., Holbrook, S., Isshiki, T., Weiss, J., Doe, C., and Mellerick, D. (1998) Dorsoventral patterning in the Drosophila CNS: the vnd homeobox gene specifies ventral column identity. Genes & Development. 12, 3603-3612. | [PDF]

Srinivasan, S., Peng, C.-Y., Skeath, J.B., Nair, S., Spana, E.P., Lassy, C., Doe, C.Q. (1998) Biochemical analysis of the Prospero protein during asymmetric cell division: cortical Prospero is highly phosphorylated relative to nuclear Prospero. Developmental Biology 204, 478-487. | [PDF]

Doe, C., Fuerstenberg, S. and Peng, C. (1998) Neural stem cells from fly to vertebrate. Journal of Neurobiology 36, 111-127. | [PDF]

Skeath, J.B., and Doe, C.Q. (1998) Sanpodo and Notch act in opposition to Numb to distinguish sibling neuron fates in the Drosophila CNS. Development 125, 1857-1865. | [PDF]

Broadus, J.B., Fuerstenberg, S. and Doe, C.Q. (1998) Staufen-dependent localization of prospero mRNA contributes to neuroblast daughter cell fate. Nature 391, 792-795. | [PDF]

Ikeshima-Kataoka, H., Skeath, J.B., Nabeshima, Y., Doe, C.Q., and Matsuzaki, F. (1997) Miranda directs Prospero to a daughter cell during Drosophila asymmetric divisions. Nature 390, 625-628. | [PDF]

Broadus, J.B. and Doe, C.Q. (1997) Extrinsic cues, intrinsic cues, and microfilaments regulate asymmetric localization of Prospero, Staufen, and Inscuteable in Drosophila neuroblasts. Current Biology. 7, 827-835. | [PDF]

McDonald, J.A. and Doe, C.Q. (1997) Establishing neuroblast-specific gene expression in the Drosophila CNS: huckebein is activated by wingless and hedgehog and repressed by engrailed and gooseberry. Development 124, 1079-1087. | [PDF]

Skeath, J.B. and Doe, C.Q. (1996) achaete-skute complex proneural genes contribute to neural precursor specification in the Drosophila CNS. Curr. Biol.,9, 1146-1152. | [PDF]

Spana, E.P. and Doe, C.Q. (1996) Numb antagonizes Notch signaling to specify sibling neuron cell fates. Neuron 17, 21-26. | [PDF]

Chu-LaGraff, Q., Schmid, A., Leidel, J., Bronner, G., Jackle, H., and Doe, C.Q. (1995) huckebein specifies aspects of CNS precursor identity required for motoneuron axon pathfinding. Neuron 15, 1041-1051.

Spana, E., Kopczynski, C., Goodman, C.S. and Doe, C.Q. (1995) Asymmetric localization of numb autonomously determines sibling neuron identity in the Drosophila CNS. Development 121, 3489-3494. | [PDF]

Spana, E. and Doe, C.Q. (1995) The prospero transcription factor is asymmetrically localized to the cell cortex during neuroblast mitosis in Drosophila. Development 121, 3187-3195. | [PDF]

Cui, X. and Doe, C.Q. (1995) The role of the cell cycle and cytokinesis in regulating gene expression in the Drosophila CNS. Development 121, 3233-3243. | [PDF]

Skeath, J.B., Zhang, Y., Holmgren, R., Carroll, S.B., and Doe, C.Q. (1995) Specification of neuroblast identity in the Drosophila embryonic central nervous system by gooseberry-distal. Nature 376, 427-430. | [PDF]

Broadus, J., Skeath, J.B., Spana, E.P., Bossing, T., Technau, G., Doe, C.Q. (1995) New neuroblast markers and the origin of the aCC/pCC neurons in the Drosophila central nervous system. Mechanisms of Development 53, 393-402 | [PDF]

Chu-LaGraff, Q., Doe, C.Q. (1993) Neuroblast Specification and Formation Regulated by wingless in the Drosophila CNS. Science 261, 1594-1597. | [PDF]


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