DBC publications - 2009

The DM domain protein DMRT1 is a dose-sensitive regulator of fetal germ cell proliferation and pluripotency Anthony D. Krentz, Mark W. Murphy, Shinseog Kim, Matthew S. Cook, Blanche Capel, Rui Zhu, Angabin Matin, Aaron L. Sarver, Keith L. Parker, Michael D. Griswold, Leendert H. J. Looijenga, Vivian J. Bardwell, and David Zarkower Proc Natl Acad Sci U S A. 2009 December 29; 106(52): 22323–22328. Published online 2009 December 10. doi: 10.1073/pnas.0905431106. PMCID: PMC2799724

SLA2 mutations cause SWE1-mediated cell cycle phenotypes in Candida albicans andSaccharomyces cerevisiae Cheryl A. Gale, Michelle D. Leonard, Kenneth R. Finley, Leah Christensen, Mark McClellan, Darren Abbey, Cornelia Kurischko, Eric Bensen, Iris Tzafrir, Sarah Kauffman, Jeff Becker, and Judith Berman Microbiology. Author manuscript; available in PMC 2010 December 1. PMCID: PMC2846636 Published in final edited form as: Microbiology. 2009 December; 155(Pt 12): 3847–3859. Published online 2009 September 24. doi: 10.1099/mic.0.033233-0. Manuscript: | Free in PMC on 2010/12/01 

Evolution of pathogenicity and sexual reproduction in eight Candida genomesGeraldine Butler, Matthew D. Rasmussen, Michael F. Lin, Manuel A.S. Santos, Sharadha Sakthikumar, Carol A. Munro, Esther Rheinbay, Manfred Grabherr, Anja Forche, Jennifer L. Reedy, Ino Agrafioti, Martha B. Arnaud, Steven Bates, Alistair J.P. Brown, Sascha Brunke, Maria C. Costanzo, David A. Fitzpatrick, Piet W. J. de Groot, David Harris, Lois L. Hoyer, Bernhard Hube, Frans M. Klis, Chinnappa Kodira, Nicola Lennard, Mary E. Logue, Ronny Martin, Aaron M. Neiman, Elissavet Nikolaou, Michael A. Quail, Janet Quinn, Maria C. Santos, Florian F. Schmitzberger, Gavin Sherlock, Prachi Shah, Kevin Silverstein, Marek S. Skrzypek, David Soll, Rodney Staggs, Ian Stansfield, Michael P H Stumpf, Peter E. Sudbery, Srikantha Thyagarajan, Qiandong Zeng, Judith Berman, Matthew Berriman, Joseph Heitman, Neil A. R. Gow, Michael C. Lorenz, Bruce W. Birren, Manolis Kellis, and Christina A. Cuomo Nature. Author manuscript; available in PMC 2010 March 8. PMCID: PMC2834264 Published in final edited form as: Nature. 2009 June 4; 459(7247): 657–662. doi: 10.1038/nature08064.

Dancing genomes: fungal nuclear positioning 
Amy Gladfelter and Judith Berman Nat Rev Microbiol. Author manuscript; available in PMC 2010 June 1. PMCID: PMC2794368 Published in final edited form as: Nat Rev Microbiol. 2009 December; 7(12): 875–886. Published online 2009 November 9. doi: 10.1038/nrmicro2249. Manuscript: | Free in PMC on 2010/06/01 | 

Growth and development: eukaryotes Judith Berman Curr Opin Microbiol. Author manuscript; available in PMC 2010 December 1. PMCID: PMC2792713 Published in final edited form as: Curr Opin Microbiol. 2009 December; 12(6): 589–591. Published online 2009 November 2. doi: 10.1016/j.mib.2009.10.001. Manuscript: | Free in PMC on 2010/12/01

Increase in NF-κB Binding Affinity of the Variant C Allele of the Toll-Like Receptor 9 −1237T/C Polymorphism Is Associated with Helicobacter pylori-Induced Gastric Disease Mike Tsz Hin Ng, Rob van't Hof, Julie C. Crockett, Mairi E. Hope, Susan Berry, John Thomson, Mairi H. McLean, Kenneth E. L. McColl, Emad M. El-Omar, and Georgina L. Hold Infect Immun. 2010 March; 78(3): 1345–1352. Published online 2009 December 28. doi: 10.1128/IAI.01226-09. PMCID: PMC2825916

CD14-159C/T and TLR9-1237T/C polymorphisms are not associated with gastric cancer risk in Caucasian populations Georgina L. Hold, Charles S. Rabkin, Marilie D. Gammon, Susan H. Berry, Malcolm G. Smith, Jolanta Lissowska, Harvey A. Risch, Wong-Ho Chow, N. Ashley G. Mowat, Thomas L. Vaughan, and Emad M. El-Omar Eur J Cancer Prev. Author manuscript; available in PMC 2010 April 1. PMCID: PMC2679029 Published in final edited form as: Eur J Cancer Prev. 2009 April; 18(2): 117–119. doi: 10.1097/CEJ.0b013e3283101292

Gene Expression in Lung and Liver After Intravenous Infusion of Polyethylenimine Complexes of Sleeping Beauty Transposons Kelly M. Podetz-Pedersen, Jason B. Bell, Terry W.J. Steele, Andrew Wilber, W. Thomas Shier, Lalitha R. Belur, R. Scott McIvor, and Perry B. Hackett Hum Gene Ther. 2010 February; 21(2): 210–220. Published online 2009 December 30. doi: 10.1089/hum.2009.128. PMCID: PMC2829452

Acquisition of Aneuploidy Provides Increased Fitness during the Evolution of Antifungal Drug Resistance Anna M. Selmecki, Keely Dulmage, Leah E. Cowen, James B. Anderson, and Judith Berman PLoS Genet. 2009 October; 5(10): e1000705. Published online 2009 October 30. doi: 10.1371/journal.pgen.1000705. PMCID: PMC2760147
Aneuploid Chromosomes Are Highly Unstable during DNA Transformation of Candida albicans Kelly Bouchonville, Anja Forche, Karen E. S. Tang, Anna Selmecki, and Judith Berman Eukaryot Cell. 2009 October; 8(10): 1554–1566. Published online 2009 August 21. doi: 10.1128/EC.00209-09. PMCID: PMC2756872

Evolution in Candida albicans Populations During a Single Passage Through a Mouse Host Anja Forche, P. T. Magee, Anna Selmecki, Judith Berman, and Georgiana May Genetics. 2009 July; 182(3): 799–811. doi: 10.1534/genetics.109.103325. PMCID: PMC2710160

Efficient and Rapid identification of Candida albicans allelic status using SNP-RFLPAnja Forche, Musetta Steinbach, and Judith Berman FEMS Yeast Res. Author manuscript; available in PMC 2010 October 1. PMCID: PMC2763041 Published in final edited form as: FEMS Yeast Res. 2009 October; 9(7): 1061–1069. Published online 2009 June 22. doi: 10.1111/j.1567-1364.2009.00542.x. Manuscript: | Free in PMC on 2010/10/01 | 

Neocentromeres Form Efficiently at Multiple Possible Loci in Candida albicans Carrie Ketel, Helen S. W. Wang, Mark McClellan, Kelly Bouchonville, Anna Selmecki, Tamar Lahav, Maryam Gerami-Nejad, and Judith Berman PLoS Genet. 2009 March; 5(3): e1000400. Published online 2009 March 6. doi: 10.1371/journal.pgen.1000400. PMCID: PMC2642679

Calcineurin Activates Cytoglobin Transcription in Hypoxic Myocytes Sarvjeet Singh, Shilpa M. Manda, Devanjan Sikder, Michael J. Birrer, Beverly A. Rothermel, Daniel J. Garry, and Pradeep P. A. Mammen J Biol Chem. 2009 April 17; 284(16): 10409–10421. doi: 10.1074/jbc.M809572200. PMCID: PMC2667728

Nkx2–5 transactivates the Ets-related protein 71 gene and specifies an endothelial/endocardial fate in the developing embryo Anwarul Ferdous, Arianna Caprioli, Michelina Iacovino, Cindy M. Martin, Jesse Morris, James A. Richardson, Shuaib Latif, Robert E. Hammer, Richard P. Harvey, Eric N. Olson, Michael Kyba, and Daniel J. Garry Proc Natl Acad Sci U S A. 2009 January 20; 106(3): 814–819. Published online 2009 January 7. doi: 10.1073/pnas.0807583106. PMCID: PMC2630085

Hypoxia reprograms calcium signaling and regulates myoglobin expression Shane B. Kanatous, Pradeep P. A. Mammen, Paul B. Rosenberg, Cindy M. Martin, Michael D. White, J. Michael DiMaio, Guojin Huang, Shmuel Muallem, and Daniel J. Garry Am J Physiol Cell Physiol. 2009 March; 296(3): C393–C402. Published online 2008 November 12. doi: 10.1152/ajpcell.00428.2008. PMCID: PMC2660263

Neuropilin receptors guide distinct phases of sensory and motor neuronal segmentation Julaine Roffers-Agarwal and Laura S. Gammill Development. 2009 June 1; 136(11): 1879–1888. Published online 2009 April 29. doi: 10.1242/dev.032920. PMCID: PMC2730397

Incidence of Moderate to Severe Cognitive Dysfunction in Patients Having Carotid Artery Stenting John G. Gaudet, Philip M. Meyers, James F. McKinsey, Sean D. Lavine, William Gray, Elizabeth Mitchell, E. Sander Connolly, Jr., and Eric J. Heyer Neurosurgery. Author manuscript; available in PMC 2009 November 1. PMCID: PMC2716040 Published in final edited form as: Neurosurgery. 2009 August; 65(2): 325–330. doi: 10.1227/01.NEU.0000349920.69637.78.

Arabidopsis IAR4 Modulates Auxin Response by Regulating Auxin Homeostasis Marcel Quint, Lana S. Barkawi, Kai-Ting Fan, Jerry D. Cohen, and William M. Gray Plant Physiol. 2009 June; 150(2): 748–758. doi: 10.1104/pp.109.136671. PMCID: PMC2689969

Intravascular Ultrasound of Symptomatic Intracranial Stenosis Demonstrates Atherosclerotic Plaque with Intraplaque Hemorrhage: A Case Report Philip M. Meyers, H. Christian Schumacher, William A. Gray, Johanna Fifi, John G. Gaudet, Eric J. Heyer, and Ji Y. Chong J Neuroimaging. Author manuscript; available in PMC 2009 July 15. PMCID: PMC2710422 Published in final edited form as: J Neuroimaging. 2009 July; 19(3): 266–270. Published online 2008 October 24. doi: 10.1111/j.1552-6569.2008.00278.x.

MSP and GLP-1/Notch signaling coordinately regulate actomyosin-dependent cytoplasmic streaming and oocyte growth in C. elegans Saravanapriah Nadarajan, J. Amaranath Govindan, Marie McGovern, E. Jane Albert Hubbard, and David Greenstein Development. 2009 July 1; 136(13): 2223–2234. Published online 2009 June 5. doi: 10.1242/dev.034603. PMCID: PMC2729341

Somatic cAMP signaling regulates MSP-dependent oocyte growth and meiotic maturation in C. elegans J. Amaranath Govindan, Saravanapriah Nadarajan, Seongseop Kim, Todd A. Starich, and David Greenstein Development. 2009 July 1; 136(13): 2211–2221. Published online 2009 June 5. doi: 10.1242/dev.034595. PMCID: PMC2729340

Systemic Correction of Storage Disease in MPS I NOD/SCID Mice Using the Sleeping Beauty Transposon System Elena L Aronovich, Jason B Bell, Shaukat A Khan, Lalitha R Belur, Roland Gunther, Brenda Koniar, Patricia A Schachern, Josh B Parker, Cathy S Carlson, Chester B Whitley, R Scott McIvor, Pankaj Gupta, and Perry B Hackett Mol Ther. 2009 July; 17(7): 1136–1144. Published online 2009 April 21. doi: 10.1038/mt.2009.87. PMCID: PMC2835207

No effect of cancer-associated SNP rs6983267 in the 8q24 region on co-expression ofMYC and TCF7L2 in normal colon tissue Ludmila Prokunina-Olsson and Jennifer L Hall Mol Cancer. 2009; 8: 96. Published online 2009 November 6. doi: 10.1186/1476-4598-8-96. PMCID: PMC2777153

Tissue-specific alternative splicing of TCF7L2 Ludmila Prokunina-Olsson, Cullan Welch, Ola Hansson, Neeta Adhikari, Laura J. Scott, Nicolle Usher, Maurine Tong, Andrew Sprau, Amy Swift, Lori L. Bonnycastle, Michael R. Erdos, Zhi He, Richa Saxena, Brennan Harmon, Olga Kotova, Eric P. Hoffman, David Altshuler, Leif Groop, Michael Boehnke, Francis S. Collins, and Jennifer L. Hall Hum Mol Genet. 2009 October 15; 18(20): 3795–3804. Published online 2009 July 14. doi: 10.1093/hmg/ddp321. PMCID: PMC2748888

Drug management for hypertension in type 2 diabetes in family practice Wayne Putnam, Farokh Buhariwalla, Kendrick Lacey, Mary Goodfellow, Rose Anne Goodine, Jennifer Hall, Ian MacDonald, Michael Murray, Preston Smith, Fred Burge, Nandini Natarajan, and Beverley Lawson Can Fam Physician. 2009 July; 55(7): 728–734. PMCID: PMC2718608

Biodesign of a renal-protective peptide based on alternative splicing of B-type natriuretic peptide Shuchong Pan, Horng H. Chen, Deborah M. Dickey, Guido Boerrigter, Candace Lee, Laurel S. Kleppe, Jennifer L. Hall, Amir Lerman, Margaret M. Redfield, Lincoln R. Potter, John C. Burnett, Jr, and Robert D. Simari Proc Natl Acad Sci U S A. 2009 July 7; 106(27): 11282–11287. Published online 2009 June 18. doi: 10.1073/pnas.0811851106. PMCID: PMC2708694

Deletion polymorphism upstream of IRGM associated with altered IRGM expression and Crohn’s disease Steven A McCarroll, Alan Huett, Petric Kuballa, Shannon D Chilewski, Aimee Landry, Philippe Goyette, Michael C Zody, Jennifer L Hall, Steven R Brant, Judy H Cho, Richard H Duerr, Mark S Silverberg, Kent D Taylor, John D Rioux, David Altshuler, Mark J Daly, and Ramnik J Xavier Nat Genet. Author manuscript; available in PMC 2009 August 25. PMCID: PMC2731799 Published in final edited form as: Nat Genet. 2008 September; 40(9): 1107–1112. doi: 10.1038/ng.215.

Method for Analysis of Nanoparticle Hemolytic Properties In Vitro Marina A. Dobrovolskaia, Jeffrey D. Clogston, Barry W. Neun, Jennifer B. Hall, Anil K. Patri, and Scott E. McNeil Nano Lett. Author manuscript; available in PMC 2009 August 1. PMCID: PMC2613576 Published in final edited form as: Nano Lett. 2008 August; 8(8): 2180–2187. Published online 2008 July 8. doi: 10.1021/nl0805615.

asunder Is a Critical Regulator of Dynein–Dynactin Localization during DrosophilaSpermatogenesis Michael A. Anderson, Jeanne N. Jodoin, Ethan Lee, Karen G. Hales, Thomas S. Hays, and Laura A. Lee Mol Biol Cell. 2009 June 1; 20(11): 2709–2721. doi: 10.1091/mbc.E08-12-1165. PMCID: PMC2688550

Management of atherothrombotic risk factors in high-risk Canadian outpatients Alan Bell, Michael D Hill, Robert J Herman, Manon Girard, and Eric Cohen Can J Cardiol. 2009 June; 25(6): 345–354. PMCID: PMC2722477

The 2009 Canadian Hypertension Education Program recommendations for the management of hypertension: Part 2 – therapy Nadia A Khan, Brenda Hemmelgarn, Robert J Herman, Chaim M Bell, Jeff L Mahon, Lawrence A Leiter, Simon W Rabkin, Michael D Hill, Raj Padwal, Rhian M Touyz, Pierre Larochelle, Ross D Feldman, Ernesto L Schiffrin, Norman RC Campbell, Gordon Moe, Ramesh Prasad, Malcolm O Arnold, Tavis S Campbell, Alain Milot, James A Stone, Charlotte Jones, Richard I Ogilvie, Pavel Hamet, George Fodor, George Carruthers, Kevin D Burns, Marcel Ruzicka, Jacques deChamplain, George Pylypchuk, Robert Petrella, Jean-Martin Boulanger, Luc Trudeau, Robert A Hegele, Vincent Woo, Phil McFarlane, Michel Vallée, Jonathan Howlett, Simon L Bacon, Patrice Lindsay, Richard E Gilbert, Richard Z Lewanczuk, and Sheldon Tobe Can J Cardiol. 2009 May; 25(5): 287–298. PMCID: PMC270716

A gap junction connexin is required in the vertebrate left-right organizer Hatler JM, Essner JJ, Johnson RG. Dev Biol. 2009 Dec 15;336(2):183-91. Epub 2009 Sep 30.PMID: 19799895 [PubMed - indexed for MEDLINE] 

Autophagy and the functional roles of Atg5 and beclin-1 in the anti-tumor effects of 3beta androstene 17alpha diol neuro-steroid on malignant glioma cells  Graf MR, Jia W, Johnson RS, Dent P, Mitchell C, Loria RM. J Steroid Biochem Mol Biol. 2009 Jul;115(3-5):137-45. Epub 2009 Apr 16.PMID: 19375507 [PubMed - indexed for MEDLINE]

Bilirubin as a determinant for altered neurogenesis, neuritogenesis, and synaptogenesis.  Fernandes A, Falcão AS, Abranches E, Bekman E, Henrique D, Lanier LM, Brites D.  Dev Neurobiol. 2009 Aug;69(9):568-82.PMID: 19449315 [PubMed - indexed for MEDLINE]

Automated analysis of NeuronJ tracing data. Popko J, Fernandes A, Brites D, Lanier LM. Cytometry A. 2009 Apr;75(4):371-6.PMID: 18937344 [PubMed - indexed for MEDLINE] 

Whole-body sleeping beauty mutagenesis can cause penetrant leukemia/lymphoma and rare high-grade glioma without associated embryonic lethality.  Collier LS, Adams DJ, Hackett CS, Bendzick LE, Akagi K, Davies MN, Diers MD, Rodriguez FJ, Bender AM, Tieu C, Matise I, Dupuy AJ, Copeland NG, Jenkins NA, Hodgson JG, Weiss WA, Jenkins RB, Largaespada DA.  Cancer Res. 2009 Nov 1;69(21):8429-37. Epub 2009 Oct 20.PMID: 19843846 [PubMed - indexed for MEDLINE]

A modified sleeping beauty transposon system that can be used to model a wide variety of human cancers in mice.  Dupuy AJ, Rogers LM, Kim J, Nannapaneni K, Starr TK, Liu P, Largaespada DA, Scheetz TE, Jenkins NA, Copeland NG. Cancer Res. 2009 Oct 15;69(20):8150-6. Epub 2009 Oct 6.PMID: 19808965 [PubMed - indexed for MEDLINE]

Efficient transposition of Tol2 in the mouse germline.  Keng VW, Ryan BJ, Wangensteen KJ, Balciunas D, Schmedt C, Ekker SC, Largaespada DA.  Genetics. 2009 Dec;183(4):1565-73. Epub 2009 Oct 5.PMID: 19805821 [PubMed - indexed for MEDLINE] 

Developmental origins of cancer.  Johnson KJ, Springer NM, Bielinsky AK, Largaespada DA, Ross JA.  Cancer Res. 2009 Aug 15;69(16):6375-7. Epub 2009 Aug 4. No abstract available. PMID: 19654290 [PubMed - indexed for MEDLINE] 

Transposon-mediated mutagenesis of somatic cells in the mouse for cancer gene identification  Largaespada DA. Methods. 2009 Nov;49(3):282-6. Epub 2009 Jul 14.PMID: 19607923 [PubMed - indexed for MEDLINE] 

Identification of PDE4D as a proliferation promoting factor in prostate cancer using a Sleeping Beauty transposon-based somatic mutagenesis screen.  Rahrmann EP, Collier LS, Knutson TP, Doyal ME, Kuslak SL, Green LE, Malinowski RL, Roethe L, Akagi K, Waknitz M, Huang W, Largaespada DA, Marker PC.  Cancer Res. 2009 May 15;69(10):4388-97. Epub 2009 Apr 28.PMID: 19401450 [PubMed - indexed for MEDLINE] 

Transposon mutagenesis in mice  Largaespada DA.  Methods Mol Biol. 2009;530:379-90.PMID: 19266336 [PubMed - indexed for MEDLINE]

A transposon-based genetic screen in mice identifies genes altered in colorectal cancer  Starr TK, Allaei R, Silverstein KA, Staggs RA, Sarver AL, Bergemann TL, Gupta M, O'Sullivan MG, Matise I, Dupuy AJ, Collier LS, Powers S, Oberg AL, Asmann YW, Thibodeau SN, Tessarollo L, Copeland NG, Jenkins NA, Cormier RT, Largaespada DA.  Science. 2009 Mar 27;323(5922):1747-50. Epub 2009 Feb 26.PMID: 19251594 [PubMed - indexed for MEDLINE]

A conditional transposon-based insertional mutagenesis screen for genes associated with mouse hepatocellular carcinoma. Keng VW, Villanueva A, Chiang DY, Dupuy AJ, Ryan BJ, Matise I, Silverstein KA, Sarver A, Starr TK, Akagi K, Tessarollo L, Collier LS, Powers S, Lowe SW, Jenkins NA, Copeland NG, Llovet JM, Largaespada DA.  Nat Biotechnol. 2009 Mar;27(3):264-74. Epub 2009 Feb 22.PMID: 19234449 [PubMed - indexed for MEDLINE] 


De novo induction of genetically engineered brain tumors in mice using plasmid DNA. Wiesner SM, Decker SA, Larson JD, Ericson K, Forster C, Gallardo JL, Long C, Demorest ZL, Zamora EA, Low WC, SantaCruz K, Largaespada DA, Ohlfest JR. Cancer Res. 2009 Jan 15;69(2):431-9.PMID: 19147555 [PubMed - indexed for MEDLINE] 

RAS oncogene suppression induces apoptosis followed by more differentiated and less myelosuppressive disease upon relapse of acute myeloid leukemia. Kim WI, Matise I, Diers MD, Largaespada DA. Blood. 2009 Jan 29;113(5):1086-96. Epub 2008 Oct 24.PMID: 18952898 [PubMed - indexed for MEDLINE] 

A retroviral mutagenesis screen reveals strong cooperation between Bcl11a overexpression and loss of the Nf1 tumor suppressor geneYin B, Delwel R, Valk PJ, Wallace MR, Loh ML, Shannon KM, Largaespada DA. Blood. 2009 Jan 29;113(5):1075-85. Epub 2008 Oct 23.PMID: 18948576 [PubMed - indexed for MEDLINE] 

A facile method for somatic, lifelong manipulation of multiple genes in the mouse liver. Wangensteen KJ, Wilber A, Keng VW, He Z, Matise I, Wangensteen L, Carson CM, Chen Y, Steer CJ, McIvor RS, Largaespada DA, Wang X, Ekker SC. Hepatology. 2008 May;47(5):1714-24.PMID: 18435462 [PubMed - indexed for MEDLINE]

Actin in axons: stable scaffolds and dynamic filaments Letourneau PC.  Results Probl Cell Differ. 2009;48:65-90. Review.PMID: 19582412 [PubMed - indexed for MEDLINE]

Protein synthesis in distal axons is not required for growth cone responses to guidance cues  Roche FK, Marsick BM, Letourneau PC. J Neurosci. 2009 Jan 21;29(3):638-52.PMID: 19158291 [PubMed - indexed for MEDLINE]     

rhBMP-2 modulation of gene expression in infected segmental bone defects Brick KE, Chen X, Lohr J, Schmidt AH, Kidder LS, Lew WD.  Clin Orthop Relat Res. 2009 Dec;467(12):3096-103. Epub 2008 Nov 19.PMID: 19018606 [PubMed - indexed for MEDLINE]

Progenitor cell maturation in the developing vertebrate retina. Yang HJ, Silva AO, Koyano-Nakagawa N, McLoon SC. Dev Dyn. 2009 Nov;238(11):2823-36.PMID: 19842182 [PubMed - indexed for MEDLINE]

Feedback regulation of NEUROG2 activity by MTGR1 is required for progression of neurogenesis.  Aaker JD, Patineau AL, Yang HJ, Ewart DT, Gong W, Li T, Nakagawa Y, McLoon SC, Koyano-Nakagawa N.  Mol Cell Neurosci. 2009 Dec;42(4):267-77. Epub 2009 Jul 28.PMID: 19646530 [PubMed - indexed for MEDLINE] 

Drosophila glypicans regulate the germline stem cell niche  Hayashi Y, Kobayashi S, Nakato H.  J Cell Biol. 2009 Nov 16;187(4):473-80. Epub 2009 Nov 9.PMID: 19948496 [PubMed - indexed for MEDLINE]

A genetic screen in Drosophila reveals novel cytoprotective functions of the autophagy-lysosome pathway Arsham AM, Neufeld TP. PLoS One. 2009 Jun 29;4(6):e6068.PMID: 19562034 [PubMed - indexed for MEDLINE] 

 An Atg1/Atg13 complex with multiple roles in TOR-mediated autophagy regulation. Chang YY, Neufeld TP. Mol Biol Cell. 2009 Apr;20(7):2004-14. Epub 2009 Feb 18.PMID: 19225150 [PubMed - indexed for MEDLINE]

Abeta42-induced neurodegeneration via an age-dependent autophagic-lysosomal injury in Drosophila Ling D, Song HJ, Garza D, Neufeld TP, Salvaterra PM. PLoS One. 2009;4(1):e4201. Epub 2009 Jan 15.PMID: 19145255 [PubMed - indexed for MEDLINE] 

Nutrient-dependent regulation of autophagy through the target of rapamycin pathway Chang YY, Juhász G, Goraksha-Hicks P, Arsham AM, Mallin DR, Muller LK, Neufeld TP.   Biochem Soc Trans. 2009 Feb;37(Pt 1):232-6. Review.PMID: 19143638 [PubMed - indexed for MEDLINE]

Control of cyclin D1 and breast tumorigenesis by the EglN2 prolyl hydroxylase  Zhang Q, Gu J, Li L, Liu J, Luo B, Cheung HW, Boehm JS, Ni M, Geisen C, Root DE, Polyak K, Brown M, Richardson AL, Hahn WC, Kaelin WG Jr, Bommi-Reddy A.  Cancer Cell. 2009 Nov 6;16(5):413-24.PMID: 19878873 [PubMed - indexed for MEDLINE] 

Regulation of PERK signaling and leukemic cell survival by a novel cytosolic isoform of the UPR regulator GRP78/BiP.  Ni M, Zhou H, Wey S, Baumeister P, Lee AS.  PLoS One. 2009 Aug 31;4(8):e6868.PMID: 19718440 [PubMed - indexed for MEDLINE]

SHB1 plays dual roles in photoperiodic and autonomous flowering. Zhou Y, Ni M. Dev Biol. 2009 Jul 1;331(1):50-7. Epub 2009 May 3.PMID: 19406114 [PubMed - indexed for MEDLINE]

SHORT HYPOCOTYL UNDER BLUE1 associates with MINISEED3 and HAIKU2 promoters in vivo to regulate Arabidopsis seed development.  Zhou Y, Zhang X, Kang X, Zhao X, Zhang X, Ni M.  Plant Cell. 2009 Jan;21(1):106-17. Epub 2009 Jan 13.PMID: 19141706 [PubMed - indexed for MEDLINE] 

A fat body-derived IGF-like peptide regulates postfeeding growth in DrosophilaOkamoto N, Yamanaka N, Yagi Y, Nishida Y, Kataoka H, O'Connor MB, Mizoguchi A. Dev Cell. 2009 Dec;17(6):885-91.PMID: 20059957 [PubMed - indexed for MEDLINE] 

The insect neuropeptide PTTH activates receptor tyrosine kinase torso to initiate metamorphosis Rewitz KF, Yamanaka N, Gilbert LI, O'Connor MB.  Science. 2009 Dec 4;326(5958):1403-5.PMID: 19965758 [PubMed - indexed for MEDLINE]

The extracellular regulation of bone morphogenetic protein signaling. Umulis D, O'Connor MB, Blair SS. Development. 2009 Nov;136(22):3715-28. Review.PMID: 19855014 [PubMed - indexed for MEDLINE]

The Drosophila Activin-like ligand Dawdle signals preferentially through one isoform of the Type-I receptor Baboon Jensen PA, Zheng X, Lee T, O'Connor MB.  Mech Dev. 2009 Dec;126(11-12):950-7. Epub 2009 Sep 18.PMID: 19766717 [PubMed - indexed for MEDLINE] 

Studies on the Black Box: incorporation of 3-oxo-7-dehydrocholesterol into ecdysteroids by Drosophila melanogaster and Manduca sexta Warren JT, O'Connor MB, Gilbert LI.  Insect Biochem Mol Biol. 2009 Oct;39(10):677-87. Epub 2009 Aug 20.PMID: 19699302 [PubMed - indexed for MEDLINE] 

A phosphoproteomics approach to elucidate neuropeptide signal transduction controlling insect metamorphosis Rewitz KF, Larsen MR, Lobner-Olesen A, Rybczynski R, O'Connor MB, Gilbert LI. Insect Biochem Mol Biol. 2009 Jul;39(7):475-83. Epub 2009 May 5.PMID: 19422916 [PubMed - indexed for MEDLINE]

Iron is essential for neuron development and memory function in mouse hippocampusCarlson ES, Tkac I, Magid R, O'Connor MB, Andrews NC, Schallert T, Gunshin H, Georgieff MK, Petryk A. J Nutr. 2009 Apr;139(4):672-9. Epub 2009 Feb 11.PMID: 19211831 [PubMed - indexed for MEDLINE]

Nemo kinase interacts with Mad to coordinate synaptic growth at the Drosophila neuromuscular junction Merino C, Penney J, González M, Tsurudome K, Moujahidine M, O'Connor MB, Verheyen EM, Haghighi P. J Cell Biol. 2009 May 18;185(4):713-25.PMID: 19451277 [PubMed - indexed for MEDLINE]

The Intersection of Theory and Application in Elucidating Pattern Formation in Developmental Biology Othmer HG, Painter K, Umulis D, Xue C.  Math Model Nat Phenom. 2009 Jan 1;4(4):3-82.PMID: 19844610 [PubMed] 

Spatiotemporal characteristics of calcium dynamics in astrocytes. Kang M, Othmer HG.  Chaos. 2009 Sep;19(3):037116.PMID: 19792041 [PubMed - indexed for MEDLINE]

Multiscale models of taxis-driven patterning in bacterial populations Xue C, Othmer HG.  SIAM J Appl Math. 2009;70(1):133-169.PMID: 19784399 [PubMed] 

Multi-scale models of cell and tissue dynamics Stolarska MA, Kim Y, Othmer HG.  Philos Transact A Math Phys Eng Sci. 2009 Sep 13;367(1902):3525-53.PMID: 19657010 [PubMed - indexed for MEDLINE] 

Cytosolic activity of SPINDLY implies the existence of a DELLA-independent gibberellin-response pathway Maymon I, Greenboim-Wainberg Y, Sagiv S, Kieber JJ, Moshelion M, Olszewski N, Weiss D.  Plant J. 2009 Jun;58(6):979-88. Epub 2009 Feb 18. Erratum in: Plant J. 2009 Dec;60(5):929. PMID: 19228341 [PubMed - indexed for MEDLINE]

O-glycosylation of protein subpopulations in alcohol-extracted rice proteins. Kilcoyne M, Shah M, Gerlach JQ, Bhavanandan V, Nagaraj V, Smith AD, Fujiyama K, Sommer U, Costello CE, Olszewski N, Joshi L.  J Plant Physiol. 2009 Feb 15;166(3):219-32. Epub 2008 Jul 18.PMID: 18639953 [PubMed - indexed for MEDLINE] 

The use of hormonal therapy in pediatric heart disease.  Nathan BM, Sockalosky J, Nelson L, Lai S, Sergi C, Petryk A. Front Biosci (Schol Ed). 2009 Jun 1;1:358-75.PMID: 19482707 [PubMed - in process] 

Enhanced osteoclastogenesis causes osteopenia in twisted gastrulation-deficient mice through increased BMP signaling. Sotillo Rodriguez JE, Mansky KC, Jensen ED, Carlson AE, Schwarz T, Pham L, MacKenzie B, Prasad H, Rohrer MD, Petryk A, Gopalakrishnan R.  J Bone Miner Res. 2009 Nov;24(11):1917-26.PMID: 19419314 [PubMed - indexed for MEDLINE] 

Twisted gastrulation limits apoptosis in the distal region of the mandibular arch in miceMacKenzie B, Wolff R, Lowe N, Billington CJ Jr, Peterson A, Schmidt B, Graf D, Mina M, Gopalakrishnan R, Petryk A.  Dev Biol. 2009 Apr 1;328(1):13-23. Epub 2009 Jan 20.PMID: 19389368 [PubMed - indexed for MEDLINE] 

First phase insulin release and glucose tolerance in children with Fanconi anemia after hematopoietic cell transplantation Polgreen LE, Thomas W, MacMillan ML, Wagner JE, Moran A, Petryk A.  Pediatr Blood Cancer. 2009 Aug;53(2):191-6.PMID: 19353625 [PubMed - indexed for MEDLINE] 

Auxological evaluation and determinants of growth failure at the time of adoption in Eastern European adoptees. Miller BS, Kroupina MG, Iverson SL, Masons P, Narad C, Himes JH, Johnson DE, Petryk A. J Pediatr Endocrinol Metab. 2009 Jan;22(1):31-9.PMID: 19344072 [PubMed - indexed for MEDLINE]

miRNA regulation through ligand occupancy of a nuclear hormone receptor. Rougvie AE.  Sci Signal. 2009 Aug 18;2(84):pe52.PMID: 19690329 [PubMed - indexed for MEDLINE]

Detection of cytomegalovirus DNA in dried blood spots of Minnesota infants who do not pass newborn hearing screening  Choi KY, Schimmenti LA, Jurek AM, Sharon B, Daly K, Khan C, McCann M, Schleiss MR. Pediatr Infect Dis J. 2009 Dec;28(12):1095-8.PMID: 19820425 [PubMed - indexed for MEDLINE]

Parents' perceptions of autism spectrum disorder etiology and recurrence risk and effects of their perceptions on family planning: Recommendations for genetic counselors. Selkirk CG, McCarthy Veach P, Lian F, Schimmenti L, LeRoy BS. J Genet Couns. 2009 Oct;18(5):507-19. Epub 2009 Jun 2.PMID: 19488842 [PubMed - indexed for MEDLINE]

A prospective, longitudinal study of the impact of GJB2/GJB6 genetic testing on the beliefs and attitudes of parents of deaf and hard-of-hearing infants.  Palmer CG, Martinez A, Fox M, Zhou J, Shapiro N, Sininger Y, Grody WW, Schimmenti LA.  Am J Med Genet A. 2009 Jun;149A(6):1169-82.PMID: 19449415 [PubMed - indexed for MEDLINE] 

A primer for morpholino use in zebrafish. Bill BR, Petzold AM, Clark KJ, Schimmenti LA, Ekker SC.  Zebrafish. 2009 Mar;6(1):69-77. Review.PMID: 19374550 [PubMed - indexed for MEDLINE] 

Interactions between innexins UNC-7 and UNC-9 mediate electrical synapse specificity in the Caenorhabditis elegans locomotory nervous system.  Starich TA, Xu J, Skerrett IM, Nicholson BJ, Shaw JE. Neural Dev. 2009 May 11;4:16.PMID: 19432959 [PubMed - indexed for MEDLINE]

Biphasic myopathic phenotype of mouse DUX, an ORF within conserved FSHD-related repeats.   Bosnakovski D, Daughters RS, Xu Z, Slack JM, Kyba M.  PLoS One. 2009 Sep 16;4(9):e7003.PMID: 19756142 [PubMed - indexed for MEDLINE]

Reprogramming of liver to pancreas.  Thowfeequ S, Li WC, Slack JM, Tosh D.  Methods Mol Biol. 2009;482:407-18.PMID: 19089370 [PubMed - indexed for MEDLINE]

Retrovirus vectors.  Lech P, Somia NV.  Contrib Nephrol. 2008;159:30-46. Review.PMID: 18391583 [PubMed - indexed for MEDLINE]  

Motors: unleashing mitochondria.  Titus MA.  Curr Biol. 2009 Dec 15;19(23):R1076-8.PMID: 20064407 [PubMed - indexed for MEDLINE]

Structural dynamics of the myosin relay helix by time-resolved EPR and FRET. Agafonov RV, Negrashov IV, Tkachev YV, Blakely SE, Titus MA, Thomas DD, Nesmelov YE.Proc Natl Acad Sci U S A. 2009 Dec 22;106(51):21625-30. Epub 2009 Dec 4.PMID: 19966224 [PubMed - indexed for MEDLINE]

The Dictyostelium type V myosin MyoJ is responsible for the cortical association and motility of contractile vacuole membranes.  Jung G, Titus MA, Hammer JA 3rd.   J Cell Biol. 2009 Aug 24;186(4):555-70. Epub 2009 Aug 17.PMID: 19687255 [PubMed - indexed for MEDLINE] 

Legume focus: model species sequenced, mutagenesis approaches extended, and debut of a new model. O'Brian MR, Vance CP, Vandenbosch KA.  Plant Physiol. 2009 Nov;151(3):969. No abstract available. PMID: 19887668 [PubMed - indexed for MEDLINE]

Knockdown of CELL DIVISION CYCLE16 reveals an inverse relationship between lateral root and nodule numbers and a link to auxin in Medicago truncatula Kuppusamy KT, Ivashuta S, Bucciarelli B, Vance CP, Gantt JS, Vandenbosch KA.  Plant Physiol. 2009 Nov;151(3):1155-66. Epub 2009 Sep 29.PMID: 19789288 [PubMed - indexed for MEDLINE] 

The DM domain protein DMRT1 is a dose-sensitive regulator of fetal germ cell proliferation and pluripotency  Krentz AD, Murphy MW, Kim S, Cook MS, Capel B, Zhu R, Matin A, Sarver AL, Parker KL, Griswold MD, Looijenga LH, Bardwell VJ, Zarkower D.  Proc Natl Acad Sci U S A. 2009 Dec 29;106(52):22323-8. Epub 2009 Dec 10.PMID: 20007774 [PubMed - indexed for MEDLINE] 

Assaying topoisomerase II checkpoints in yeast  Furniss K, Vas AC, Lane A, Clarke DJ.  Methods Mol Biol. 2009;582:167-87.PMID: 19763950 [PubMed - indexed for MEDLINE]

Introduction: emerging themes in DNA topoisomerase research Clarke DJ, Lane A.  Methods Mol Biol. 2009;582:1-9.PMID: 19763937 [PubMed - indexed for MEDLINE]

 Decatenation: fixing your knots  Clarke DJ.  Blood. 2009 Aug 27;114(9):1721-2.PMID: 19713475 [PubMed]

Strong inducible knockdown of Cdc20 does not cause mitotic arrest in human somatic cells: implications for cancer therapy? Clarke DJ.  Cell Cycle. 2009 Feb 15;8(4):515-6. Epub 2009 Feb 15. No abstract available. PMID: 19221471 [PubMed - indexed for MEDLINE]

A WD40 repeat protein from Medicago truncatula is necessary for tissue-specific anthocyanin and proanthocyanidin biosynthesis but not for trichome development. Pang Y, Wenger JP, Saathoff K, Peel GJ, Wen J, Huhman D, Allen SN, Tang Y, Cheng X, Tadege M, Ratet P, Mysore KS, Sumner LW, Marks MD, Dixon RA.  Plant Physiol. 2009 Nov;151(3):1114-29. Epub 2009 Aug 26.PMID: 19710231 [PubMed - indexed for MEDLINE]

Transcriptome analysis of Arabidopsis wild-type and gl3-sst sim trichomes identifies four additional genes required for trichome development  Marks MD, Wenger JP, Gilding E, Jilk R, Dixon RA.  Mol Plant. 2009 Jul;2(4):803-22. Epub 2009 Jun 19.PMID: 19626137 [PubMed - indexed for MEDLINE]

Identification of candidate genes affecting Delta9-tetrahydrocannabinol biosynthesis in Cannabis sativa  Marks MD, Tian L, Wenger JP, Omburo SN, Soto-Fuentes W, He J, Gang DR, Weiblen GD, Dixon RA.  J Exp Bot. 2009;60(13):3715-26. Epub 2009 Jul 6.PMID: 19581347 [PubMed - indexed for MEDLINE] 

Mechanisms of polycomb gene silencing: knowns and unknowns.  Simon JA, Kingston RE.  Nat Rev Mol Cell Biol. 2009 Oct;10(10):697-708. Epub 2009 Sep 9. Review.PMID: 19738629 [PubMed - indexed for MEDLINE]

Transcription. Sweet silencing.   Simon JA.  Science. 2009 Jul 3;325(5936):45-6. No abstract available. PMID: 19574378 [PubMed - indexed for MEDLINE] 

Differential activity of Wnt/beta-catenin signaling in the embryonic mouse thalamus.Bluske KK, Kawakami Y, Koyano-Nakagawa N, Nakagawa Y. Dev Dyn. 2009 Dec;238(12):3297-309.PMID: 19924825 [PubMed - indexed for MEDLINE]

Progenitor cell maturation in the developing vertebrate retina  Yang HJ, Silva AO, Koyano-Nakagawa N, McLoon SC. Dev Dyn. 2009 Nov;238(11):2823-36.PMID: 19842182 [PubMed - indexed for MEDLINE] 

Feedback regulation of NEUROG2 activity by MTGR1 is required for progression of neurogenesis. Aaker JD, Patineau AL, Yang HJ, Ewart DT, Gong W, Li T, Nakagawa Y, McLoon SC, Koyano-Nakagawa N.  Mol Cell Neurosci. 2009 Dec;42(4):267-77. Epub 2009 Jul 28.PMID: 19646530 [PubMed - indexed for MEDLINE]R

Regional expression of MTG genes in the developing mouse central nervous system.Alishahi A, Koyano-Nakagawa N, Nakagawa Y.  Dev Dyn. 2009 Aug;238(8):2095-102.PMID: 19618476 [PubMed - indexed for MEDLINE]

Sonic hedgehog signaling controls thalamic progenitor identity and nuclei specification in mice Vue TY, Bluske K, Alishahi A, Yang LL, Koyano-Nakagawa N, Novitch B, Nakagawa Y.  J Neurosci. 2009 Apr 8;29(14):4484-97.PMID: 19357274 [PubMed - indexed for MEDLINE]

Sall genes regulate region-specific morphogenesis in the mouse limb by modulating Hox activities.  Kawakami Y, Uchiyama Y, Rodriguez Esteban C, Inenaga T, Koyano-Nakagawa N, Kawakami H, Marti M, Kmita M, Monaghan-Nichols P, Nishinakamura R, Izpisua Belmonte JC.   Development. 2009 Feb;136(4):585-94.PMID: 19168674 [PubMed - indexed for MEDLINE] 

Differential activity of Wnt/beta-catenin signaling in the embryonic mouse thalamus.Bluske KK, Kawakami Y, Koyano-Nakagawa N, Nakagawa Y.  Dev Dyn. 2009 Dec;238(12):3297-309.PMID: 19924825 [PubMed - indexed for MEDLINE]

Chromatin protein HMGB2 regulates articular cartilage surface maintenance via-beta-catenin pathways
Taniguchi N, Carames B., Kawakami Y., Amendt B. A., Komiya S. and Lotz M.  (2009).Proc. Nat. Acad. Sci. U.S.A. 106, 16817-16822, 2009.

Sall genes regulate region-specific morphogenesis in the mouse limb by modulating Hox activities.  Development 136, 585-595.
Kawakami Y., Uchiyama Y., Rodriguez-Esteban C, Inenaga T., Koyano-Nakagawa N., Kawakami H., Marti M., Kmita M., Monaghan-Nichols P., Nishinakamura R, Izpisua Belmonte J.C. (2009) 

Feedback regulation of NEUROG2 activity by MTGR1 is required for progression of neurogenesis. Aaker JD, Patineau AL, Yang  J,  rt DT, Gong W, Li T, Nakagawa Y, McLoon SC, Koyano-Nakagawa N. Mol Cell Neurosci. 2009 Dec;42(4):267-77. Epub 2009 Jul 28.PMID: 19646530 [PubMed - indexed for MEDLINE]

 Regional expression of MTG genes in the developing mouse central nervous system.Alishahi A, Koyano-Nakagawa N, Nakagawa Y.   Dev Dyn. 2009 Aug;238(8):2095-102.PMID: 19618476 [PubMed - indexed for MEDLINE]

Sonic hedgehog signaling controls thalamic progenitor identity and nuclei specification in mice.  Vue TY, Bluske K, Alishahi A, Yang LL, Koyano-Nakagawa N, Novitch B, Nakagawa Y.   J Neurosci. 2009 Apr 8;29(14):4484-97.PMID: 19357274 [PubMed - indexed for MEDLINE]