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Archive for the ‘Arthur Spector’ Category

2016 Biochemistry Newsletter now available

Friday, November 4th, 2016

2016_newslettercoverimageThe 2016 Biochemistry @ Iowa newsletter is hot off the presses and available for download. Alumni and friends should receive a hard copy in the mail this week. If you would like to be added to our mailing list, please send your contact information to biochem@uiowa.edu. While you are at it, feel free to send us your news and updates! Previous newsletters are also available online.

2015 Biochemistry Newsletter now available

Tuesday, October 20th, 2015

Cover_2015_newsletterThe 2015 Biochemistry @ Iowa newsletter is hot off the presses and available for download. Alumni and friends should receive a hard copy in the mail this week. If you would like to be added to our mailing list, please send your contact information to biochem@uiowa.edu. While you are at it, feel free to send us your news and updates! Previous newsletters are also available online.

2012 Publications

Thursday, July 25th, 2013

The Department’s 2012 publications are now in print and mostly available online.

Heather L. Bartlett

Malloy LE, Wen KK, Pierick AR, Wedemeyer EW, Bergeron SE, Vanderpool ND, McKane M, Rubenstein PA, Bartlett HL. (2012) Thoracic aortic aneurysm (TAAD)-causing mutation in actin affects formin regulation of polymerization. J Biol Chem. 287(34):28398-408. PMID:22753406

Pietra BA, Kantor PF, Bartlett HL, Chin C, Canter CE, Larsen RL, Edens RE, Colan SD, Towbin JA, Lipshultz SE, Kirklin JK, Naftel DC, Hsu DT. (2012) Early predictors of survival to and after heart transplantation in children with dilated cardiomyopathy. Circulation. 126(9):1079-86. PMID: 22800850

Charles M. Brenner

J. Boylston, C. Brenner. (2012) FHIT. Encyclopedia of Signaling Molecules, S. Choi, ed. 68(7):613-616. DOI: 10.1007/978-1-4419-0461-4_68

Brenner C. (2012) Changes in chemistry and biochemistry education: Creative responses to medical college admissions test revisions in the age of the genome. Biochem Mol Biol Educ. PMID:23281187

Brenner C, Ringe D. (2012) Response to the New MCAT: ASBMB Premedical Curriculum. ASBMB Today. 12-14.

Midtkandal RR, Redpath P, Trammell SA, Macdonald SJ, Brenner C, Migaud ME. (2012) Novel synthetic route to the C-nucleoside, 2-deoxy benzamide riboside. Bioorg Med Chem Lett. 22(16):5204-7. PMID:22795628

John M. Dagle

Bream EN, Leppellere CR, Cooper ME, Dagle JM, Merrill DC, Christensen K, Simhan HN, Fong CT, Hallman M, Muglia LJ, Marazita ML, Murray JC. (2012) Candidate gene linkage approach to Identify DNA variants that predispose to preterm birth. Pediatr Res. PMID:23168575

Dagle JM, Murray JC. (2012) Applying deep DNA sequencing to common, complex pediatric traits. Pediatrics. 130(6):e1677-8. PMID: 23166345

Mann PC, Cooper ME, Ryckman KK, Comas B, Gili J, Crumley S, Bream EN, Byers HM, Piester T, Schaefer A, Christine PJ, Lawrence A, Schaa KL, Kelsey KJ, Berends SK, Momany AM, Gadow E, Cosentino V, Castilla EE, López Camelo J, Saleme C, Day LJ, England SK, Marazita ML, Dagle JM, Murray JC. (2012) Polymorphisms in the fetal progesterone receptor and a calcium-activated potassium channel isoform are associated with preterm birth in an Argentinian population. J Perinatol.  PMID: 23018797

Ryckman KK, Cook DE, Berberich SL, Shchelochkov OA, Berends SK, Busch T, Dagle JM, Murray JC. (2012) Replication of clinical associations with 17-hydroxyprogesterone in preterm newborns. J Pediatr Endocrinol Metab. 25(3-4):301-5. PMID: 22768660

Kyser KL, Morriss FH Jr, Bell EF, Klein JM, Dagle JM. (2012)  Improving survival of extremely preterm infants born between 22 and 25 weeks of gestation. Obstet Gynecol. 119(4):795-800. PMID: 22433343

Hajj H, Dagle JM. (2012) Genetics of patent ductus arteriosus susceptibility and treatment. Semin Perinatol. 36(2):98-104. PMID: 22414880

Byers HM, Dagle JM, Klein JM, Ryckman KK, McDonald EL, Murray JC, Borowski KS. (2012) Variations in CRHR1 are associated with persistent pulmonary hypertension of the newborn. Pediatr Res. 71(2):162-7. PMID: 22258127

Ryckman KK, Dagle JM, Kelsey K, Momany AM, Murray JC. (2012) Genetic associations of surfactant protein D and angiotensin-converting enzyme with lung disease in preterm neonates. J Perinatol. 32(5):349-55. PMID: 21960125

Ryckman KK, Feenstra B, Shaffer JR, Bream EN, Geller F, Feingold E, Weeks DE, Gadow E, Cosentino V, Saleme C, Simhan HN, Merrill D, Fong CT, Busch T, Berends SK, Comas B, Camelo JL, Boyd H, Laurie CC, Crosslin D, Zhang Q, Doheny KF, Pugh E, Melbye M, Marazita ML, Dagle JM, Murray JC. (2012) Replication of a genome-wide association study of birth weight in preterm neonates. J Pediatr. 160(1):19-24.  PMID: 21885063

Brandon Davies

Davies BS, Goulbourne CN, Barnes RH 2nd, Turlo KA, Gin P, Vaughan S, Vaux DJ, Bensadoun A, Beigneux AP, Fong LG, Young SG. (2012) Assessing mechanisms of GPIHBP1 and lipoprotein lipase movement across endothelial cells. J Lipid Res. 53(12):2690-7.  PMID:23008484

Gin P, Goulbourne CN, Adeyo O, Beigneux AP, Davies BS, Tat S, Voss CV, Bensadoun A, Fong LG, Young SG. (2012) Chylomicronemia mutations yield new insights into interactions between lipoprotein lipase and GPIHBP1. Hum Mol Genet. 21(13):2961-72. PMID: 22493000

Jung HJ, Coffinier C, Choe Y, Beigneux AP, Davies BS, Yang SH, Barnes RH 2nd, Hong J, Sun T, Pleasure SJ, Young SG, Fong LG. (2012) Regulation of prelamin A but not lamin C by miR-9, a brain-specific microRNA. Proc Natl Acad Sci U S A. 109(7):E423-31. PMID: 22308344

Weinstein MM, Goulbourne CN, Davies BS, Tu Y, Barnes RH 2nd, Watkins SM, Davis R, Reue K, Tontonoz P, Beigneux AP, Fong LG, Young SG. (2012) Reciprocal metabolic perturbations in the adipose tissue and liver of GPIHBP1-deficient mice. Arterioscler Thromb Vasc Biol. 32(2):230-5. PMID: 22173228

Davies BS, Beigneux AP, Fong LG, Young SG. (2012)  New wrinkles in lipoprotein lipase biology. Curr Opin Lipidol. 23(1):35-42. PMID: 22123668

Kris A. DeMali

Peng X, Maiers JL, Choudhury D, Craig SW, DeMali KA. (2012) α-Catenin uses a novel mechanism to activate vinculin. J Biol Chem. 287(10):7728-37. PMID: 22235119

Sloan CM, Quinn CV, Peters JP, Farley J, Goetzinger C, Wernli M, DeMali KA, Ellerbroek SM. (2012) Divergence of Rho residue 43 impacts GEF activity. Small GTPases. 3(1):15-22. PMID:22673745

DeMali KA, Adams J.  (2012) Cell-cell and cell-matrix interactions. Mol Biol Cell, 23:965. DOI:10.1091/mbc.E11-12-0967

Webb DJ, Brown CM, DeMali KA. (2012) Signals Regulating Adhesion DynamicsJournal of Signal Transduction, 2012:785196. DOI: 10.1155/2012/785196

John E. Donelson

Reiling L, Richards JS, Fowkes FJ, Wilson DW, Chokejindachai W, Barry AE, Tham WH, Stubbs J, Langer C, Donelson J, Michon P, Tavul L, Crabb BS, Siba PM, Cowman AF, Mueller I, Beeson JG. (2012) The Plasmodium falciparum erythrocyte invasion ligand Pfrh4 as a target of functional and protective human antibodies against malaria. PLoS One. 7(9):e45253. DOI: 10.1371/journal.pone.0045253. PMID: 23028883

Weirather JL, Wilson ME, Donelson JE. (2012) Mapping of VSG similarities in Trypanosoma brucei. Mol Biochem Parasitol. 181(2):141-52. PMID: 22079099

Adrian H. Elcock

Reinert ZE, Musselman ED, Elcock AH, Horne WS. (2012) A PEG-based oligomer as a backbone replacement for surface-exposed loops in a protein tertiary structure. Chembiochem. 13(8):1107-11. PMID: 22539233

Lokesh Gakhar

Kohlgraf KG, Ackermann AR, Burnell KK, Srikantha RN, Joly SA, Bartlett JA, Gakhar L, Johnson GK, McCray PB Jr, Guthmiller JM, Brogden KA. (2012) Quantitation of SPLUNC1 in saliva with an xMAP particle-based antibody capture and detection immunoassay. Arch Oral Biol. 57(2):197-204. DOI: 10.1016/j.archoralbio.2011.08.013. PMID: 21925642

Mohanty SK, Yu CL, Das S, Louie TM, Gakhar L, Subramanian M. (2012) Delineation of the caffeine C-8 oxidation pathway in Pseudomonas sp. strain CBB1 via characterization of a new trimethyluric acid monooxygenase and genes involved in trimethyluric acid metabolism. J Bacteriol. 194(15):3872-82. PMID: 22609920

Summers RM, Louie TM, Yu CL, Gakhar L, Louie KC, Subramanian M. (2012) Novel, highly specific N-demethylases enable bacteria to live on caffeine and related purine alkaloids. J Bacteriol. 194(8):2041-9. PMID: 22328667

Pamela K. Geyer

Hohl AM, Thompson M, Soshnev AA, Wu J, Morris J, Hsieh TS, Wu CT, Geyer PK. (2012) Restoration of topoisomerase 2 function by complementation of defective monomers in Drosophila. Genetics. 192(3):843-56. PMID: 22923380

Soshnev AA, He B, Baxley RM, Jiang N, Hart CM, Tan K, Geyer PK. (2012) Genome-wide studies of the multi-zinc finger Drosophila Suppressor of Hairy-wing protein in the ovary. Nucleic Acids Res. 40(12):5415-31. PMID: 22406832

Theresa L. Gioannini

Rallabhandi P, Phillips RL, Boukhvalova MS, Pletneva LM, Shirey KA, Gioannini TL, Weiss JP, Chow JC, Hawkins LD, Vogel SN, Blanco JC. (2012) Respiratory syncytial virus fusion protein-induced toll-like receptor 4 (TLR4) signaling is inhibited by the TLR4 antagonists Rhodobacter sphaeroides lipopolysaccharide and eritoran (E5564) and requires direct interaction with MD-2. MBio. 3(4). PMID: 22872782

Wendlandt EB, Graff JW, Gioannini TL, McCaffrey AP, Wilson ME. (2012) The role of microRNAs miR-200b and miR-200c in TLR4 signaling and NF-κB activation. Innate Immun. 18(6):846-55. PMID: 22522429

Yu L, Phillips RL, Zhang D, Teghanemt A, Weiss JP, Gioannini TL. (2012) NMR studies of hexaacylated endotoxin bound to wild-type and F126A mutant MD-2 and MD-2·TLR4 ectodomain complexes. J Biol Chem. 287(20):16346-55.  PMID: 22433852

Esparza GA, Teghanemt A, Zhang D, Gioannini TL, Weiss JP. (2012) Endotoxin{middle dot}albumin complexes transfer endotoxin monomers to MD-2 resulting in activation of TLR4. Innate Immun. 18(3):478-91. PMID: 21994253

Piazza, M, Calabrese, V, Damore, G, Cighetti, R, Gioannini, T, Weiss, J, Peri, F. (2012) A synthetic Lipid A mimetic modulates human TLR4 activity.  ChemMedChem. 7: 213-217. PMID:22140087

Yang, D, Postnikov, YV, Li, Y, Tewary, P, de la Rosa, G, Wei, F, Klinman, D, Gioannini, T,Weiss, JP, Furusawa, T, Bustin, M, Oppenheim, JJ.  (2012) High-mobility group nucleosome-binding protein 1 acts as an alarmin and is critical for lipopolysaccharide-induced immune responses.  J. Exp. Med. 209: 157-171. PMID:22184635

Andrew Norris

Olivier AK, Yi Y, Sun X, Sui H, Liang B, Hu S, Xie W, Fisher JT, Keiser NW, Lei D, Zhou W, Yan Z, Li G, Evans TI, Meyerholz DK, Wang K, Stewart ZA, Norris AW, Engelhardt JF. (2012) Abnormal endocrine pancreas function at birth in cystic fibrosis ferrets. J Clin Invest. 122(10):3755-68. PMID: 22996690

Katkhuda R, Peterson ES, Roghair RD, Norris AW, Scholz TD, Segar JL. (2012) Sex-specific programming of hypertension in offspring of late-gestation diabetic rats. Pediatr Res. 72(4):352-61. PMID: 22805998

Hu S, Yao J, Howe AA, Menke BM, Sivitz WI, Spector AA, Norris AW. (2012) Peroxisome proliferator-activated receptor γ decouples fatty acid uptake from lipid inhibition of insulin signaling in skeletal muscle. Mol Endocrinol. 26(6):977-88. PMID: 22474127

Norris AW, Sigmund CD. (2012) A second chance for a PPARγ targeted therapy? Circ Res. 110(1):8-11. PMID: 22223206

Bryce V. Plapp

Plapp BV, Ramaswamy S. (2012) Atomic-resolution structures of horse liver alcohol dehydrogenase with NAD(+) and fluoroalcohols define strained Michaelis complexes. Biochemistry. 51(19):4035-48. PMID: 22531044

David H. Price

Van Duyne R, Guendel I, Jaworski E, Sampey G, Klase Z, Chen H, Zeng C, Kovalskyy D, El Kouni MH, Lepene B, Patanarut A, Nekhai S, Price DH, Kashanchi F. (2012) Effect of Mimetic CDK9 Inhibitors on HIV-1-Activated Transcription. J Mol Biol. PMID: 23247501

Kulak MV, Cyr AR, Woodfield GW, Bogachek M, Spanheimer PM, Li T, Price DH, Domann FE, Weigel RJ. (2012) Transcriptional regulation of the GPX1 gene by TFAP2C and aberrant CpG methylation in human breast cancer. Oncogene. PMID: 22964634

Fujinaga K, Barboric M, Li Q, Luo Z, Price DH, Peterlin BM. (2012) PKC phosphorylates HEXIM1 and regulates P-TEFb activity. Nucleic Acids Res. 40(18):9160-70. PMID: 22821562

Zhou Q, Li T, Price DH. (2012) RNA polymerase II elongation control. Annu Rev Biochem. 81:119-43. PMID: 22404626

Nguyen D, Krueger BJ, Sedore SC, Brogie JE, Rogers JT, Rajendra TK, Saunders A, Matera AG, Lis JT, Uguen P, Price DH. (2012) The Drosophila 7SK snRNP and the essential role of dHEXIM in development. Nucleic Acids Res. 40(12):5283-97. PMID: 22379134

Cheng B, Li T, Rahl PB, Adamson TE, Loudas NB, Guo J, Varzavand K, Cooper JJ, Hu X, Gnatt A, Young RA, Price DH. (2012) Functional association of Gdown1 with RNA polymerase II poised on human genes. Mol Cell. 45(1):38-50. PMID: 22244331

Peterlin BM, Brogie JE, Price DH. (2012) 7SK snRNA: a noncoding RNA that plays a major role in regulating eukaryotic transcription. Wiley Interdiscip Rev RNA. 3(1):92-103. PMID: 21853533

Li T and Price DH. (2012) Gdown1 – making a link between Mediator and RNA polymerase II elongation control. Transcription, 3(4):177-180. PMID:22771989

Miles Pufall

Serafimova IM, Pufall MA, Krishnan S, Duda K, Cohen MS, Maglathlin RL, McFarland JM, Miller RM, Frödin M, Taunton J. (2012)  Reversible targeting of noncatalytic cysteines with chemically tuned electrophiles. Nat Chem Biol. 8(5):471-6. DOI: 10.1038/nchembio.925. PMID: 22466421

Peter A. Rubenstein

Rubenstein PA, Mayer EA. (2012) Familial visceral myopathies: from symptom-based syndromes to actin-related diseases. Gastroenterology. 143(6):1420-3. PMID:23085350

Malloy LE, Wen KK, Pierick AR, Wedemeyer EW, Bergeron SE, Vanderpool ND, McKane M, Rubenstein PA, Bartlett HL. (2012) Thoracic Aortic Aneurysm (TAAD)-causing Mutation in Actin Affects Formin Regulation of Polymerization. J Biol Chem. (34):28398-408. PMID: 22753406

Glenn NO, McKane M, Kohli V, Wen KK, Rubenstein PA, Bartman T, Sumanas S. (2012) The W-loop of alpha-cardiac actin is critical for heart function and endocardial cushion morphogenesis in zebrafish. Mol Cell Biol. 32(17):3527-40. PMID: 22751927

Kruth KA, Rubenstein PA. (2012) Two deafness-causing (DFNA20/26) actin mutations affect Arp2/3-dependent actin regulation. J Biol Chem. 287(32):27217-26. PMID: 22718764

Michael Schnieders

Ren P, Chun J, Thomas DG, Schnieders MJ, Marucho M, Zhang J, Baker NA. (2012) Biomolecular electrostatics and solvation: a computational perspective. Q Rev Biophys. 45(4):427-91. PMID: 23217364

Schnieders MJ, Baltrusaitis J, Shi Y, Chattree G, Zheng L, Yang W, Ren P. (2012) The Structure, Thermodynamics and Solubility of Organic Crystals from Simulation with a Polarizable Force Field. J Chem Theory Comput. 8(5):1721-1736. PMID: 22582032

Schnieders MJ, Kaoud TS, Yan C, Dalby KN, Ren P. (2012) Computational insights for the discovery of non-ATP competitive inhibitors of MAP kinases. Curr Pharm Des. 18(9):1173-85. PMID: 22316156

Debra A. Schwinn

Schwinn DA, Mackensen GB, Brown EN. (2012) Understanding the TXA seizure connection. J Clin Invest. 122(12):4339-41. PMID: 23187134

Arthur Spector

Hu S, Yao J, Howe AA, Menke BM, Sivitz WI, Spector AA, Norris AW. (2012) Peroxisome proliferator-activated receptor γ decouples fatty acid uptake from lipid inhibition of insulin signaling in skeletal muscle. Mol Endocrinol. 26(6):977-88. PMID: 22474127

Maria Spies

Spies M. (2012) There and back again: new single-molecule insights in the motion of DNA repair proteins. Curr Opin Struct Biol. PMID: 23260129

Pugh RA, Wu CG, Spies M. (2012) Regulation of translocation polarity by helicase domain 1 in SF2B helicases. The EMBO Journal. 31, 503 – 514. DOI:10.1038/emboj.2011.412. PMCID: PMC3261565

Eric Taylor

Bricker DK, Taylor EB, Schell JC, Orsak T, Boutron A, Chen YC, Cox JE, Cardon CM, Van Vranken JG, Dephoure N, Redin C, Boudina S, Gygi SP, Brivet M, Thummel CS, Rutter J. (2012) A mitochondrial pyruvate carrier required for pyruvate uptake in yeast, Drosophila, and humans.Science. 337(6090):96-100. PMID: 22628558

Chen YC, Taylor EB, Dephoure N, Heo JM, Tonhato A, Papandreou I, Nath N, Denko NC, Gygi SP, Rutter J.(2012) Identification of a protein mediating respiratory supercomplex stability. Cell Metab. 15(3):348-60. DOI:10.1016/j.cmet.2012.02.006. PMID: 22405070; PMCID: PMC3302151.

Lori L. Wallrath

Wallrath LL, Elgin SC. (2012) Enforcing silencing: dynamic HP1 complexes in Neurospora. Nat Struct Mol Biol. 19(5):465-7. PMID: 22551706

Dialynas G, Flannery KM, Zirbel LN, Nagy PL, Mathews KD, Moore SA, Wallrath LL. (2012) LMNA variants cause cytoplasmic distribution of nuclear pore proteins in Drosophila and human muscle. Hum Mol Genet. 21(7):1544-56. PMID: 22186027

M. Todd Washington

Dieckman LM, Freudenthal BD, Washington MT. (2012) PCNA Structure and Function: Insights from Structures of PCNA Complexes and Post-translationally Modified PCNA. Subcell Biochem. 62:281-99. PMID: 22918591

Dan L. Weeks

Li YE, Allen BG, Weeks DL. (2012) Using ΦC31 integrase to mediate insertion of DNA in Xenopus embryos. Methods Mol Biol. 2012;917:219-30. DOI: 10.1007/978-1-61779-992-1_13.  PMID: 22956091

Ronald J. Weigel

O’Malley Y, Lal G, Howe JR, Weigel RJ, Komorowski RA, Shilyansky J, Sugg SL. (2012) Invasion in follicular thyroid cancer cell lines is mediated by EphA2 and pAkt. Surgery. 152(6):1218-24. PMID: 23158188

Kulak MV, Cyr AR, Woodfield GW, Bogachek M, Spanheimer PM, Li T, Price DH, Domann FE, Weigel RJ. (2012) Transcriptional regulation of the GPX1 gene by TFAP2C and aberrant CpG methylation in human breast cancer. Oncogene.  PMID: 22964634

Spanheimer PM, Woodfield GW, Cyr AR, Kulak MV, White-Baer LS, Bair TB, Weigel RJ. (2012) Expression of the RET Proto-oncogene Is Regulated by TFAP2C in Breast Cancer Independent of the Estrogen Receptor. Ann Surg Oncol. PMID:22878616

Larrieux G, Cupp JA, Liao J, Scott-Conner CE, Weigel RJ. (2012) Effect of introducing hematoma ultrasound-guided lumpectomy in a surgical practice. J Am Coll Surg. 215(2):237-43. PMID: 22632911

Spanheimer PM, Weigel RJ. (2012) Management of patients with primary hyperparathyroidism and concurrent thyroid disease: an evolving field. Ann Surg Oncol. 19(5):1428-9. PMID: 22395994

Lal G, Groff M, Howe JR, Weigel RJ, Sugg SL, Lynch CF. (2012) Risk of subsequent primary thyroid cancer after another malignancy: latency trends in a population-based study. Ann Surg Oncol. 19(6):1887-96. PMID: 22227921

Marc S. Wold

Sparks JL, Kumar R, Singh M, Wold MS, Pandita TK, Burgers PM. (2012) Human exonuclease 5 is a novel sliding exonuclease required for genome stability. J Biol Chem. 287(51):42773-83. PMID: 23095756

Hass CS, Chen R, Wold MS. (2012) Detection of posttranslational modifications of replication protein A. Methods Mol Biol. 922:193-204. PMID: 22976188

Lindsey-Boltz LA, Reardon JT, Wold MS, Sancar A. (2012) In vitro analysis of the role of replication protein A (RPA) and RPA phosphorylation in ATR-mediated checkpoint signaling. J Biol Chem. 287(43):36123-31. PMID: 22948311

Hass CS, Lam K, Wold MS. (2012) Repair-specific functions of replication protein A. J Biol Chem. 287(6):3908-18. PMID: 22179778

Meng Wu

Huang F, Zhang H, Wu M, Yang H, Kudo M, Peters CJ, Woodruff PG, Solberg OD, Donne ML, Huang X, Sheppard D, Fahy JV, Wolters PJ, Hogan BL, Finkbeiner WE, Li M, Jan YN, Jan LY, Rock JR. (2012) Calcium-activated chloride channel TMEM16A modulates mucin secretion and airway smooth muscle contraction. Proc Natl Acad Sci U S A. 109(40):16354-9. PMID: 22988107

Mattmann ME, Yu H, Lin Z, Xu K, Huang X, Long S, Wu M, McManus OB, Engers DW, Le UM, Li M, Lindsley CW, Hopkins CR. (2012) Identification of (R)-N-(4-(4-methoxyphenyl)thiazol-2-yl)-1-tosylpiperidine-2-carboxamide, ML277, as a novel, potent and selective K(v)7.1 (KCNQ1) potassium channel activator. Bioorg Med Chem Lett. 22(18):5936-41. PMID: 22910039

Cheung YY, Yu H, Xu K, Zou B, Wu M, McManus OB, Li M, Lindsley CW, Hopkins CR. (2012) Discovery of a series of 2-phenyl-N-(2-(pyrrolidin-1-yl)phenyl)acetamides as novel molecular switches that modulate modes of K(v)7.2 (KCNQ2) channel pharmacology: identification of (S)-2-phenyl-N-(2-(pyrrolidin-1-yl)phenyl)butanamide (ML252) as a potent, brain penetrant K(v)7.2 channel inhibitor. J Med Chem. 55(15):6975-9. PMID: 22793372

Liping Yu

Yu L, Phillips RL, Zhang D, Teghanemt A, Weiss JP, Gioannini TL. (2012) NMR studies of hexaacylated endotoxin bound to wild-type and F126A mutant MD-2 and MD-2·TLR4 ectodomain complexes. J Biol Chem. 287(20):16346-55. PMID: 22433852

Kei-ichiro, I, Yoshida-Moriguchi, T., Hara Y., Anderson, M. E., Yu, L., Campbell K. P. (2012) Dystroglycan function requires xylosyl- and glucuronyltransferase activities of LARGE.  Science. 335: 93-96. PMID: 22223806

Post DM, Yu L, Krasity BC, Choudhury B, Mandel MJ, Brennan CA, Ruby EG, McFall-Ngai MJ, Gibson BW, Apicella MA. (2012) O-antigen and core carbohydrate of Vibrio fischeri lipopolysaccharide: composition and analysis of their role in Euprymna scolopes light organ colonization. J Biol Chem. 287(11):8515-30. DOI: 10.1074/jbc.M111.324012. PMID: 22247546

 

Department reflects on Iowa-Northwestern connections

Friday, October 14th, 2011

As the Hawkeye football team hosts the Northwestern Wildcats this weekend, the department is reminded of several friendly rivalries between the two schools. Adjunct Professor Joseph Walder was a 1975 MD and 1978 PhD from Northwestern before he joined our faculty. Richard McGee, a 1975 PhD with Arthur Spector and 2010 CCOM Distinguished Alumnus, is now a Professor in Medical Education & Faculty Development, as well as an Associate Dean for Faculty Recruitment at  Northwestern’s Feinberg School of Medicine. David Engman, a 1990 MD/PhD with John Donelson and currently a Professor of Pathology and Microbiology-Immunology, directs an active research group at Northwestern and recently stepped down as director of the MSTP program after a 16 year tenure. He was past chair of the Medicine Alumni Society Board of Advisors in CCOM. The Iowa/Northwestern connections do indeed run deep. Go Hawks!

2010 Publications

Friday, February 25th, 2011

The Department’s 2010 publications are now in print and mostly available online. There are papers in Cell, Genes & Development, Human Molecular Genetics, JACS, Journal of Immunology, Molecular Cell, Nature, Nature Medicine, Nature Structural & Molecular Biology, PNAS and, and, of course, JBC and Biochemistry.

SHEILA BAKER
Gospe, S.M. 3rd, Baker, S.A., Arshavsky, V.Y. (2010) Facilitative glucose transporter Glut1 is actively excluded from rod outer segments. J Cell Sci 23: 3639-3644. PMID: 20923839

HEATHER BARTLETT
Bartlett, H.L., Escalera, R.B. 2nd, Patel, S.S., Wedemeyer, E.W., Volk, K.A., Lohr, J.L., Reinking, B.E. (2010) Echocardiographic assessment of cardiac morphology and function in Xenopus. Comp Med. 60:107-113. PMID: 20412684

Bartlett, H., Veenstra, G.J., Weeks, D.L. (2010) Examining the cardiac NK-2 genes in early heart development. Pediatr Cardiol. 31:335-41. PMID: 19967350

CHARLES M. BRENNER
Bogan, K.L., Brenner, C. (2010) 5’-Nucleotidases and their new roles in NAD(+) and phosphate metabolism. New J. Chem. 34:845-853.

Evans, C., Bogan, K.L., Song, P., Burant, C.F., Kennedy, R.T., Brenner, C. (2010) NAD+ metabolite levels as a function of vitamins and calorie restriction: evidence for different mechanisms of longevity. BMC Chem Biol. 10:2. PMID: 20175898

JOHN M. DAGLE
Abu-Maziad, A., Schaa, K., Bell, E.F., Dagle, J.M., Cooper, M., Marazita, M.L., Murray, J.C. (2010) Role of polymorphic variants as genetic modulators of infection in neonatal sepsis. Pediatr. Res. 68:323-329. PMID: 20463618

Waleh, N., Hodnick, R., Jhaveri, N., McConaghy, S., Dagle, J., Seidner, S., McCurnin, D., Murray, J.C., Ohls, R., Clyman, R.I. (2010) Patterns of gene expression in the ductus arteriosus are related to environmental and genetic risk factors for persistent ductus patency. Pediatr. Res. 68:292-297.

KRIS DEMALI
Peng, X., Cuff, L.E, Lawton, C.D., DeMali, K.A. (2010) Vinculin regulates cell-surface E-cadherin expression by binding to beta-catenin. J. Cell Sci. 123:567-77. PMID: 20086044

Shepherd, T.R., Klaus, S.M., Liu, X., Ramaswamy, S., DeMali, K.A., Fuentes, E.J. (2010) The Tiam1 PDZ domain couples to Syndecan1 and promotes cell-matrix adhesion. J Mol Biol. 398:730-746. PMID: 20361982

JOHN E. DONELSON
DebRoy, S., Keenan, A.B., Ueno, N., Jeronim, S.M., Donelson, J.E., Wilson, M.E. (2010) Leishmania infantum chagasi: A genome-based approach to identification of excreted/secreted proteins. Exp Parasitol. 126:582-591. PMID: 20542033

Yao, C., Li, Y., Donelson, J.E., Wilson, M.E. (2010) Proteomic examination of Leishmania chagasi plasma membrane proteins: Contrast between avirulent and virulent (metacyclic) parasite forms. Proteomics Clin. Appl. 4:4-16. PMID: 21137013

ADRIAN ELCOCK
Elcock, A.H. (2010) Models of macromolecular crowding effects and the need for quantitative comparisons with experiment. Curr Opin Struct Biol. 20:196-206. Review. PMID: 20167475

Frembgen-Kesner, T., Elcock, A.H. (2010) Absolute protein-protein association rate constants from flexible, coarse-grained Brownian dynamics simulations: The role of intermolecular hydrodynamic interactions in barnase-barstar association. Biophys. J. 99:L75-77. PMID: 21044566

McGuffee, S.R., Elcock, A.H. (2010) Diffusion, crowding & protein stability in a dynamic molecular model of the bacterial cytoplasm. PLoS Comput. Biol. 6(3):e1000694. PMID: 20221255

Zhu, S., Elcock, A.H. (2010) A complete thermodynamic characterization of electrostatic and hydrophobic associations in the temperature range 0 to 100 °C from explicit-solvent molecular dynamics simulations. J. Chem. Theory Comput. 6:1293-1306.

ERNESTO J. FUENTES
Ramadugu, S.K., Chung, Y.H., Fuentes, E.J., Rice, K.G., Margulis, C.J. (2010) In silico prediction of the 3D structure of trimeric asialoglycoprotein receptor bound to triantennary oligosaccharide. J. Am. Chem. Soc. 132:9087-9095. PMID: 20540518

Shepherd, T.R., Klaus, S.M., Liu, X., Ramaswamy, S., DeMali, K.A., Fuentes, E.J. (2010) The Tiam1 PDZ domain couples to Syndecan1 and promotes cell-matrix adhesion. J. Mol. Biol. 398:730-746. PMID: 20361982

Wen, H., Kim, N., Fuentes, E.J., Mallinger, A., Gonzalez-Alegre, P., Glenn, K. (2010) FBG1 is a promiscuous ubiquitin ligase that sequesters APC2 and causes S-phase arrest. Cell Cycle 9:4506-4517. PMID: 21135578

PAMELA K. GEYER
Dialynas, G., Speese, S., Budnik, V., Geyer, P.K., Wallrath, L.L. (2010) The role of Drosophila Lamin C in muscle function and gene expression. Development 137:3067-3077. PMID: 20702563

THERESA GIOANNINI
Piazza, M., Calabrese, V., Baruffa, C., Gioannini, T., Weiss, J., Peri, F. (2010) The cationic amphiphile 3,4-bis(tetradecyloxy)benzylamine inhibits LPS signaling by competing with endotoxin for CD14 binding. Biochem. Pharmacol. 80:2050-2056. PMID: 20599783

Prohinar, P., Rallabhandi, P., Weiss, J.P., Gioannini, T.L. (2010) Expression of functional D299G.T399I polymorphic variant of TLR4 depends more on coexpression of MD-2 than does wild-type TLR4. J. Immunol. 184:4362-4367. PMID: 20212095

RAMA MALLAMPALLI
Agassandian, M., Chen, B.B., Schuster, C.C., Houtman. J.C., Mallampalli, R.K. (2010) 14-3-3zeta escorts CCTalpha for calcium-activated nuclear import in lung epithelia. FASEB J. 24:1271-1283. PMID: 20007511

Butler, P.L., Mallampalli, R.K. (2010) Cross-talk between remodeling and de novo pathways maintains phospholipid balance through ubiquitination. J. Biol. Chem. 285(9):6246-6258. PMID: 20018880

Gakhar, L., Bartlett, J.A., Penterman, J., Mizrachi, D., Singh, P.K., Mallampalli, R.K., Ramaswamy, S., McCray, P.B. Jr. (2010) PLUNC is a novel airway surfactant protein with anti-biofilm activity. PLoS One 5:e9098. PMID: 20161732

Murthy, S., Ryan, A., He, C., Mallampalli, R.K., Carter, A.B. (2010) Rac1-mediated mitochondrial H2O2 generation regulates MMP-9 gene expression in macrophages via inhibition of SP-1 and AP-1. J. Biol. Chem. 285:25062-25073. PMID: 20529870

Ray, N.B., Durairaj, L., Chen, B.B., McVerry, B.J., Ryan, A.J., Donahoe, M., Waltenbaugh, A,K., O’Donnell, C.P., Henderson, F.C., Etscheidt, C.A., McCoy, D.M., Agassandian, M., Hayes-Rowan, E.C,. Coon, T.A., Butler, P.L., Gakhar, L., Mathur, S.N., Sieren, J.C., Tyurina, Y.Y., Kagan, V.E., McLennan, G., Mallampalli, R.K. (2010) Dynamic regulation of cardiolipin by the lipid pump Atp8b1 determines the severity of lung injury in experimental pneumonia. Nat. Med. 16:1120-1127. PMID: 20852622

PETER L. NAGY
Calva-Cerqueira, D., Dahdaleh, F.S., Woodfield, G., Chinnathambi, S., Nagy, P.L., Larsen-Haidle, J., Weigel, R.J., Howe, J.R. (2010) Discovery of the BMPR1A promoter and germline mutations that cause juvenile polyposis. Hum. Mol. Genet. 19:4654-4662. PMID: 20843829

BRYCE V. PLAPP
Plapp, B.V. (2010) Conformational changes and catalysis by alcohol dehydrogenase. Archives Biochem. & Biophys. 493:3-12. PMID: 19583966

DAVID H. PRICE
Bartkowiak, B., Liu, P., Phatnani, H.P., Fuda, N.J., Cooper, J.J., Price, D.H., Adelman, K., Lis, J.T., Greenleaf, A.L. (2010) CDK12 is a transcription elongation-associated CTD kinase, the metazoan ortholog of yeast Ctk1. Genes Dev. 24:2303-2316. PMID: 20952539

Cojocaru, M., Bouchard, A., Cloutier, P., Cooper, J.J., Varzavand, K., Price, D.H., Coulombe, B. (2010) Transcription factor IIS cooperates with the E3 ligase UBR5 to ubiquitinate the CDK9 subunit of the positive transcription elongation factor B  J. Biol. Chem. 286:5012-5022. PMID: 21127351

Krueger, B.J., Varzavand, K, Cooper, J.J., Price, D.H. (2010) The mechanism of release of P-TEFb and HEXIM1 from the 7SK snRNP by viral and cellular activators includes a conformational change in 7SK. PLoS One 5:e12335. PMID: 20808803

Price, D.H. (2010) Regulation of RNA polymerase II elongation by c-Myc. Cell 141:399-400. PMID: 20434979

Tahirov, T.H., Babayeva, N.D., Varzavand, K., Cooper, J.J., Sedore, S.C., Price, D.H. (2010) Crystal structure of HIV-1 Tat complexed with human P-TEFb. Nature 465:747-751. PMID: 20535204

MILES PUFALL
Shipp, L.E., Lee, J.V., Yu, C.Y., Pufall, M., Zhang, P., Scott, D.K., Wang, J.C. (2010) Transcriptional regulation of human dual specificity protein phosphatase 1 (DUSP1) gene by glucocorticoids. PLoS One 5:e13754. PMID 21060794

S. RAMASWAMY
Freudenthal, B.D., Gakhar, L., Ramaswamy, S., Washington, M.T. (2010) Structure of monoubiquitinated PCNA and implications for translesion synthesis and DNA polymerase exchange. Nat. Struct. Mol. Biol. 17:479-484. PMID: 20305653

Gakhar, L., Bartlett, J.A., Penterman, J., Mizrachi, D., Singh, P.K., Mallampalli, R.K., Ramaswamy, S., McCray, P.B. Jr. (2010) PLUNC is a novel airway surfactant protein with anti-biofilm activity. PLoS One 5:e9098. PMID: 20161732

Pashkova, N., Gakhar, L. Winistorfer, S.C., Yu, L., Ramaswamy, S., Piper, R.C. (2010) WD40 repeat propellers define a ubiquitin-binding domain that regulates turnover of F box proteins. Mol Cell. 40: 433-443. PMID: 21070969

Shepherd, T.R., Klaus, S.M., Liu, X., Ramaswamy, S., DeMali, K.A., Fuentes, E.J. (2010) The Tiam1 PDZ domain couples to Syndecan1 and promotes cell-matrix adhesion. J Mol Biol. 398:730-746. PMID: 20361982

PETER A. RUBENSTEIN
Bergeron, S.E., Zhu, M., Thiem, S.M., Friderici, K.H., Rubenstein, P.A. (2010) Ion-dependent polymerization differences between mammalian beta- and gamma-nonmuscle actin isoforms. J. Biol. Chem. 285:16087-16095. PMID: 20308063

Kudryashov, D.S., Grintsevich, E.E., Rubenstein, P.A., Reisler, E. (2010) A nucleotide state-sensing region on actin. J. Biol. Chem. 285:25591-25601. PMID: 20530485

Wen, K.K., McKane, M., Stokasimov, E., Fields, J., Rubenstein, P.A. (2010) A potential yeast actin allosteric conduit dependent on hydrophobic core residues val-76 and trp-79. J. Biol. Chem. 285:21185-94. PMID: 20442407

MADELINE A. SHEA
Feldkamp, M.D., O’Donnell, S.E., Yu, L., Shea, M.A. (2010) Allosteric effects of the antipsychotic drug trifluoperazine on the energetics of calcium binding by calmodulin. Proteins 78:2265-2282. PMID: 20544963

O’Donnell, S.E., Yu, L., Fowler, C.A., Shea, M.A. (2010) Recognition of β-calcineurin by the domains of calmodulin: Thermodynamic and structural evidence for distinct roles. Proteins 79:765-86. PMID: 21287611

ARTHUR A. SPECTOR
Fiedorowicz, J.G., Hale, N., Spector, A.A., Coryell, W.H. (2010) Neuroticism but not omega-3 fatty acid levels correlate with early responsiveness to escitalopram. Ann. Clin. Psychiatry 22:157-163. PMID: 20680188

NANCY C. STELLWAGEN
Stellwagen, N.C., Lu, Y.J. (2010) Effect of magnesium ions and temperature on the sequence-dependent curvature of DNA restriction fragments. J Phys. Condens. Matter 22: 494110.

LORI L. WALLRATH
Dialynas, G., Speese, S., Budnik, V., Geyer, P.K., Wallrath, L.L. (2010) The role of Drosophila Lamin C in muscle function and gene expression. Development 137:3067-3077. PMID: 20702563

M. TODD WASHINGTON
Dieckman, L.M., Johnson, R.E., Prakash, S., Washington, M.T. (2010) Pre-steady state kinetic studies of the fidelity of nucleotide incorporation by yeast DNA polymerase delta. Biochemistry 49:7344-7350. PMID: 20666462

Freudenthal, B.D., Brogie, J.E., Gakhar, L., Kondratick, C.M., Washington, M.T. (2010) Crystal Structure of SUMO-Modified Proliferating Cell Nuclear Antigen. J. Mol. Biol. 406:9-17. PMID: 21167178

Freudenthal, B.D., Gakhar, L., Ramaswamy, S., Washington, M.T. (2010) Structure of monoubiquitinated PCNA and implications for translesion synthesis and DNA polymerase exchange. Nat. Struct. Mol. Biol. 17:479-484. PMID: 20305653

Washington, M.T., Carlson, K.D., Freudenthal, B.D., Pryor, J.M. (2010) Variations on a theme: Eukaryotic Y-family DNA polymerases. Biochim. Biophys. Acta. 1804:1113-1123. Review. PMID: 19616647

DANIEL L. WEEKS
Bartlett, H., Veenstra, G.J., Weeks, D.L. (2010) Examining the cardiac NK-2 genes in early heart development. Pediatr. Cardiol. 31:335-341. PMID: 19967350

Li, Y., Manaligod, J.M., Weeks, D.L. (2010) EYA1 mutations associated with the branchio-oto-renal syndrome result in defective otic development in Xenopus laevis. Biol. Cell. 102:277-292. PMID: 19951260

RONALD J. WEIGEL
Calva-Cerqueira, D., Dahdaleh, F.S., Woodfield, G., Chinnathambi, S., Nagy, P.L., Larsen-Haidle, J., Weigel, R.J., Howe, J.R. (2010) Discovery of the BMPR1A promoter and germline mutations that cause juvenile polyposis. Hum. Mol. Genet. 19:4654-4662. PMID: 20843829

Fang, S.H., Guidroz, J.A., O’Malley, Y., Lal, G., Sugg, S.L., Howe, J.R., Jensen, C.S., Weigel, R.J. (2010) Expansion of a cell population expressing stem cell markers in parathyroid glands from patients with hyperparathyroidism. Ann. Surg. 251:107-113. PMID: 20009751

Gollapalli, V., Liao, J., Dudakovic, A., Sugg, S.L., Scott-Conner, C.E., Weigel, R.J. (2010) Risk factors for development and recurrence of primary breast abscesses. J. Am. Coll. Surg. 211:41-48. PMID: 20610247

Lal, G., Fairchild, T., Howe, J.R., Weigel, R.J., Sugg, S.L., Menda, Y. (2010) PET-CT scans in recurrent or persistent differentiated thyroid cancer: is there added utility beyond conventional imaging? Surgery 148:1082-1089; discussion 1089-90. Review. PMID: 21134537

Woodfield, G.W., Chen, Y., Bair, T.B., Domann, F.E., Weigel, R.J. (2010) Identification of primary gene targets of TFAP2C in hormone responsive breast carcinoma cells. Genes Chromosomes Cancer 49:948-962. PMID: 20629094

MARC S. WOLD
Choi, J.H., Lindsey-Boltz, L.A., Kemp, M., Mason, A.C., Wold, M.S., Sancar, A. (2010) Reconstitution of RPA-covered single-stranded DNA-activated ATR-Chk1 signaling. Proc. Natl. Acad. Sci. USA 107:13660-13665. PMID: 20616048

Haring, S.J., Humphreys, T.D., Wold, M.S. (2010) A naturally occurring human RPA subunit homolog does not support DNA replication or cell-cycle progression. Nuc. Acids Res. 38:846-858. PMID: 19942684

Hass, C.S., Gakhar, L., Wold, M.S. (2010) Functional characterization of a cancer causing mutation in human replication protein A. Mol. Cancer Res. 8:1017-1026. PMID: 20587534

Humphreys, T.D., Wold, M.S. (2010) Eukaryotic replication protein A. Encyclopedia of Life Sciences. John Wiley & Sons, Ltd: Chichester, 2010.

Kemp, M.G., Mason, A.C., Carreira, A., Reardon, J.T., Haring, S.J., Borgstahl, G.E., Kowalczykowski, S.C., Sancar, A., and Wold, M.S. (2010) An alternative form of RPA (aRPA) expressed in normal human tissues supports DNA repair. J. Biol. Chem. 285:4788-4797. PMID: 19996105

Machwe, A., Lozada, E., Wold, M.S., Li, G.M., Orren, D.K. (2010) Molecular Cooperation between the Werner Syndrome Protein and Replication Protein A in Relation to Replication Fork Blockage. J. Biol. Chem. 286:3497-3508. PMID: 21107010

Mason, A.C, Roy, R., Simmons, D.T., Wold, M.S. (2010) Functions of alternative replication protein A in initiation and elongation. Biochemistry 49:5919-5928. PMID: 20545304

LIPING YU
Feldkamp, M.D., O’Donnell, S.E., Yu, L., Shea, M.A. (2010) Allosteric effects of the antipsychotic drug trifluoperazine on the energetics of calcium binding by calmodulin. Proteins 78:2265-2282. PMID: 20544963

O’Donnell, S.E., Yu, L., Fowler, C.A., Shea, M.A. (2010) Recognition of β-calcineurin by the domains of calmodulin: Thermodynamic and structural evidence for distinct roles. Proteins 79:765-86. PMID: 21287611