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Archive for the ‘Daniel Weeks’ Category

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.

7th Annual FUTURE in Biomedicine Program

Tuesday, August 18th, 2015

FUTURE2015_GroupShot_withDeanSchwinn

The FUTURE in Biomedicine program, founded in 2009 by Madeline Shea, is developing a statewide network of scientist-educators and a pipeline of prospective students for our graduate and clinical program. The 7th annual program brought 25 faculty Fellows and students from primarily undergraduate institutions in Iowa to conduct research and pursue collaborations with UI faculty through summer laboratory work and weekly professional development activities. The Fellows also received support to use our state-of-the-art research core facilities such as those in genomics, crystallography and NMR.

Honts_Drake_SheaLab_2015Of the 13 Faculty Fellows, four worked with host professors in Biochemistry. Dr. Gary Coombs from Waldorf College worked on the role of lamins in regulating muscle function and metabolism with Professor Lori Wallrath. Dr. Heriberto Hernandez from Grinnell College worked on the role of thermodynamics in the formulation of pharmaceuticals with Assistant Professor Mike Schnieders. Dr. Hernandez was supported by the Ruth Ann Henriksen Fellowship that honors Dr. Henriksen, a Ph.D. graduate of our department who pursued her academic career at East Carolina University. Two Fellows from Drake University – Adina Kilpatrick in Physics and Jerry Honts in Biology – pursued a joint collaboration on Tetrahymena calcium-binding proteins with Professor Madeline Shea.

Hernandez_Grinnell_Schnieders_2015Two additional Faculty Fellows are Biochemistry Alumni – Dr. Ugur Akgun, now on the Physics faculty at Coe College had been a postdoctoral fellow with Shahram Khademi, and Dr. Heidi Sleister in Biology at Drake University was a former BSURF student.

Coombs_Waldorf_Wallrath_2015In addition, Ms. Dulce Chavez from St. Mary-of-the-Woods was the first recipient of the Gioannini Summer Undergraduate Research Fellowship honoring our former colleague Dr. Theresa L. Gioannini, who held a joint appointment in Biochemistry. Mr. Adam Page, of Kirkwood Community College, conducted research with Professor E. Dale Abel, a joint appointee in Biochemistry, and Adam’s participation in the activities of the FUTURE in Biomedicine program were arranged by Ms. Juanita Limas, the faculty Director of the LSAMP program at Kirkwood who earned her B.S. in Biochemistry doing research with Professor Lori Wallrath.

2015_0720_3DPrinting_Pufall_Honts_008Members of the Department of Biochemistry featured prominently in the weekly activities of the FUTURE in Biomedicine program. These included a session when Professor Dan Weeks described preparation for our Ph.D. programs, a workshop on “3-D Printing in Research and Education” presented jointly by UI Biochemistry Assistant Professor Miles Pufall and Jerry Honts of Drake University, and a Career Panel on making the transition from postdoctoral fellow to teaching faculty, including two Biochemistry postdocs – Dr. Lynne Dieckman formerly in the Musselman laboratory and Dr. Casey Andrews in the Elcock laboratory. In the prior academic year, Dr. Andrews had a mentored semester-long teaching experience at Loras College with 2014 FUTURE Fellow Adam Moser.

Kilpatrick_Drake_Shea_2015The research being conducted in partnerships developed through the FUTURE in Biomedicine program is being published in peer-reviewed journals, and presented at national conferences. This reciprocal network is encouraging excellent candidates to apply to our training opportunities and openings for research assistants and postbac internships. The FUTURE program is committed to advancing closer ties with our alumni in the years ahead.

2014 Publications

Monday, February 16th, 2015

The Department’s 2014 publications are now in print and mostly available online.

E. Dale Abel

Riehle C, Abel ED. (2014) Insulin regulation of myocardial autophagy. Circ J. 78(11):2569-76. PMID: 25327953

Pereira RO, Wende AR, Olsen C, Soto J, Rawlings T, Zhu Y, Riehle C, Abel ED. (2014) GLUT1 deficiency in cardiomyocytes does not accelerate the transition from compensated hypertrophy to heart failure. J Mol Cell Cardiol. 72:95-103. DOI: 10.1016/j.yjmcc.2014.02.011. PMID: 24583251

Riehle C, Wende AR, Zhu Y, Oliveira KJ, Pereira RO, Jaishy BP, Bevins J, Valdez S, Noh J, Kim BJ, Moreira AB, Weatherford ET, Manivel R, Rawlings TA, Rech M, White MF, Abel ED. (2014) Insulin receptor substrates are essential for the bioenergetic and hypertrophic response of the heart to exercise training. Mol Cell Biol. 34(18):3450-60. DOI: 10.1128/MCB.00426-14. PMID: 25002528

Wende AR, O’Neill BT, Bugger H, Riehle C, Tuinei J, Buchanan J, Tsushima K, Wang L, Caro P, Guo A, Sloan C, Kim BJ, Wang X, Pereira RO, McCrory MA, Nye BG, Benavides GA, Darley-Usmar VM, Shioi T, Weimer BC, Abel ED. (2014) Enhanced Cardiac Akt/PKB Signaling Contributes to Pathological Cardiac Hypertrophy in Part by Impairing Mitochondrial Function Via Transcriptional Repression of Nuclear-Encoded Mitochondrial Genes. Mol Cell Biol. 35(5):831-46. DOI: 10.1128/MCB.01109-14. PMID: 25535334

Pereira RO, Wende AR, Crum A, Hunter D, Olsen CD, Rawlings T, Riehle C, Ward WF, Abel ED. (2014) Maintaining PGC-1α expression following pressure overload-induced cardiac hypertrophy preserves angiogenesis but not contractile or mitochondrial function. FASEB J. 28(8):3691-702. DOI: 10.1096/fj.14-253823. PMID: 24776744

Fu Q, Xu B, Liu Y, Parikh D, Li J, Li Y, Zhang Y, Riehle C, Zhu Y, Rawlings T, Shi Q, Clark RB, Chen X, Abel ED, Xiang YK. (2014) Insulin inhibits cardiac contractility by inducing a Gi-biased β2-adrenergic signaling in hearts. Diabetes. 63(8):2676-89. DOI: 10.2337/db13-1763. PMID: 24677713

Dai J, Matsui T, Abel ED, Dedhar S, Gerszten RE, Seidman CE, Seidman JG, Rosenzweig A. (2014) Deep sequence analysis of gene expression identifies osteopontin as a downstream effector of integrin-linked kinase (ILK) in cardiac-specific ILK knockout mice. Circ Heart Fail. 7(1):184-93. DOI: 10.1161/CIRCHEARTFAILURE.113.000649. PMID: 24319095

Parra V, Verdejo HE, Iglewski M, Del Campo A, Troncoso R, Jones D, Zhu Y, Kuzmicic J, Pennanen C, Lopez-Crisosto C, Jaña F, Ferreira J, Noguera E, Chiong M, Bernlohr DA, Klip A, Hill JA, Rothermel BA, Abel ED, Zorzano A, Lavandero S. (2014) Insulin stimulates mitochondrial fusion and function in cardiomyocytes via the Akt-mTOR-NFκB-Opa-1 signaling pathway. Diabetes. 63(1):75-88. DOI: 10.2337/db13-0340. PMID: 24009260

Lopez-Izquierdo A, Pereira RO, Wende AR, Punske BB, Abel ED, Tristani-Firouzi M. (2014) The absence of insulin signaling in the heart induces changes in potassium channel expression and ventricular repolarization. Am J Physiol Heart Circ Physiol. 306(5):H747-54. DOI: 10.1152/ajpheart.00849.2013. PMID: 24375641

Caro-Maldonado A, Wang R, Nichols AG, Kuraoka M, Milasta S, Sun LD, Gavin AL, Abel ED, Kelsoe G, Green DR, Rathmell JC. (2014) Metabolic reprogramming is required for antibody production that is suppressed in anergic but exaggerated in chronically BAFF-exposed B cells. J Immunol. 192(8):3626-36. DOI: 10.4049/jimmunol.1302062. PMID: 24616478

Macintyre AN, Gerriets VA, Nichols AG, Michalek RD, Rudolph MC, Deoliveira D, Anderson SM, Abel ED, Chen BJ, Hale LP, Rathmell JC. (2014) The glucose transporter Glut1 is selectively essential for CD4 T cell activation and effector function. Cell Metab. 20(1):61-72. DOI: 10.1016/j.cmet.2014.05.004. PMID: 24930970

Liu T, Kishton RJ, Macintyre AN, Gerriets VA, Xiang H, Liu X, Abel ED, Rizzieri D, Locasale JW, Rathmell JC. (2014) Glucose transporter 1-mediated glucose uptake is limiting for B-cell acute lymphoblastic leukemia anabolic metabolism and resistance to apoptosis. Cell Death Dis. 5:e1470. DOI: 10.1038/cddis.2014.431. PMID: 25321477

Sheila A. Baker

Pan Y, Laird JG, Yamaguchi DM, Baker SA. (2014) A di-arginine ER retention signal regulates trafficking of HCN1 channels from the early secretory pathway to the plasma membrane. Cell Mol Life Sci. PMID: 25142030

Pearring JN, Lieu EC, Winter JR, Baker SA, Arshavsky VY. (2014) R9AP targeting to rod outer segments is independent of rhodopsin and is guided by the SNARE homology domain. Mol Biol Cell. 25(17):2644-9. DOI: 10.1091/mbc.E14-02-0747. PMID: 25009288

Pan Y, Bhattarai S, Modestou M, Drack AV, Chetkovich DM, Baker SA. (2014) TRIP8b is required for maximal expression of HCN1 in the mouse retina. PLoS One. 9(1):e85850. DOI: 10.1371/journal.pone.0085850. PMID: 24409334

Heather L. Bartlett

Pierick AR, McKane M, Wen KK, Bartlett HL. (2014) Aip1p dynamics are altered by the R256H mutation in actin. J Vis Exp. (89):e51551. DOI: 10.3791/51551. PMID: 25146730

Charles M. Brenner

Brenner C. Boosting NAD to Spare Hearing. Cell Metab. 20(6):926-7. DOI: 10.1016/j.cmet.2014.11.015. PMID: 25470539

Wu BK, Brenner C. Suppression of TET1-Dependent DNA Demethylation Is Essential for KRAS-Mediated Transformation. Cell Rep. 9(5):1827-40. DOI: 10.1016/j.celrep.2014.10.063. PMID: 25466250

Mei SC, Brenner C. (2014) Quantification of protein copy number in yeast: the NAD+ metabolome. PLoS One. 9(9):e106496. DOI: 10.1371/journal.pone.0106496. PMID: 25188219

Wu BK, Mei SC, Brenner C. (2014) RFTS-deleted DNMT1 enhances tumorigenicity with focal hypermethylation and global hypomethylation. Cell Cycle. 13(20):3222-31. DOI: 10.4161/15384101.2014.950886. PMID: 25485502

Boylston JA, Brenner C. (2014) A knockdown with smoke model reveals FHIT as a repressor of Heme oxygenase 1. Cell Cycle. 13(18):2913-30. DOI: 10.4161/15384101.2014.946858. PMID: 25486479

Brenner C. (2014) Histidine Triad Superfamily. Encyclopedia of Life Sciences, John Wiley & Sons Ltd: Chichester.  DOI: 10.1002/9780470015902.a0020545.pub2.

Brenner C. (2014) Metabolism: Targeting a fat-accumulation gene. Nature. 508(7495):194-5. DOI: 10.1038/508194a. PMID: 24717510

Brenner C. (2014) Understanding Faculty Salaries. ASBMB Today, 3(1):28-29.

Huang J, Stewart A, Maity B, Hagen J, Fagan RL, Yang J, Quelle DE, Brenner C, Fisher RA. (2014) RGS6 suppresses Ras-induced cellular transformation by facilitating Tip60-mediated Dnmt1 degradation and promoting apoptosis. Oncogene. 33(27):3604-11. DOI: 10.1038/onc.2013.324. PMID: 23995786

John M. Dagle

Fuller TD, Spracklen CN, Ryckman KK, Knake LA, Busch TD, Momany AM, Murray JC, Dagle JM. (2014) Genetic Variation in CYB5R3 is Associated with Methemoglobin Levels in Preterm Infants Receiving Nitric Oxide Therapy. Pediatr Res. DOI: 10.1038/pr.2014.206. PMID: 25521918

Sampath V, Garland JS, Helbling D, Dimmock D, Mulrooney NP, Simpson PM, Murray JC, Dagle JM. (2014) Anti-Oxidant Response Genes sequence variants and BPD susceptibility in VLBW infants. Pediatr Res. DOI: 10.1038/pr.2014.200. PMID: 25518008

Naderi HM, Murray JC, Dagle JM. (2014) Single mutations in ABCA3 increase the risk for neonatal respiratory distress syndrome in late preterm infants (gestational age 34-36 weeks). Am J Med Genet A. 164A(10):2676-8. DOI: 10.1002/ajmg.a.36660. PMID: 25073622

Ryckman KK, Spracklen CN, Dagle JM, Murray JC. (2014) Maternal factors and complications of preterm birth associated with neonatal thyroid stimulating hormone. J Pediatr Endocrinol Metab. 27(9-10):929-38. DOI: 10.1515/jpem-2013-0366. PMID: 24854527

Hartnett ME, Morrison MA, Smith S, Yanovitch TL, Young TL, Colaizy T, Momany A, Dagle J, Carlo WA, Clark EA, Page G, Murray J, DeAngelis MM, Cotten CM; Genomics Subcommittee. (2014) Genetic variants associated with severe retinopathy of prematurity in extremely low birth weight infants. Invest Ophthalmol Vis Sci. 55(10):6194-203. DOI: 10.1167/iovs.14-14841.PMID: 25118269

Kris A. DeMali

Mahauad-Fernandez WD, DeMali KA, Olivier AK, Okeoma CM. (2014) Bone marrow stromal antigen 2 expressed in cancer cells promotes mammary tumor growth and metastasis. Breast Cancer Res. 16(6):493. PMID: 25499888

DeMali KA, Sun X, Bui GA. (2014) Force transmission at cell-cell and cell-matrix adhesions. Biochemistry. 53(49):7706-17. DOI: 10.1021/bi501181p. PMID: 25474123

Biggs LC, Naridze RL, DeMali KA, Lusche DF, Kuhl S, Soll DR, Schutte BC, Dunnwald M. (2014) Interferon regulatory factor 6 regulates keratinocyte migration. J Cell Sci. 127(Pt 13):2840-8. DOI: 10.1242/jcs.139246. PMID: 24777480

Bays JL, Peng X, Tolbert CE, Guilluy C, Angell AE, Pan Y, Superfine R, Burridge K, DeMali KA. (2014) Vinculin phosphorylation differentially regulates mechanotransduction at cell-cell and cell-matrix adhesions. J Cell Biol. 205(2):251-63. DOI: 10.1083/jcb.201309092. PMID: 24751539

Adrian H. Elcock

Andrews CT, Elcock AH. (2014) COFFDROP: A Coarse-Grained Nonbonded Force Field for Proteins Derived from All-Atom Explicit-Solvent Molecular Dynamics Simulations of Amino Acids. J Chem Theory Comput. 10(11):5178-5194. PMID: 25400526

Theillet FX, Binolfi A, Frembgen-Kesner T, Hingorani K, Sarkar M, Kyne C, Li C, Crowley PB, Gierasch L, Pielak GJ, Elcock AH, Gershenson A, Selenko P. (2014) Physicochemical properties of cells and their effects on intrinsically disordered proteins (IDPs). Chem Rev. 114(13):6661-714. DOI: 10.1021/cr400695p. PMID: 24901537

Azzaz AM, Vitalini MW, Thomas AS, Price JP, Blacketer MJ, Cryderman DE, Zirbel LN, Woodcock CL, Elcock AH, Wallrath LL, Shogren-Knaak MA. (2014) Human heterochromatin protein 1α promotes nucleosome associations that drive chromatin condensation. J Biol Chem. 289(10):6850-61. DOI: 10.1074/jbc.M113.512137. PMID: 24415761

Ernesto J. Fuentes

Darnell CL, Wilson JM, Tiwari N, Fuentes EJ, Kirby JR. (2014) Chemosensory regulation of a HEAT-repeat protein couples aggregation and sporulation in Myxococcus xanthus. J Bacteriol. 196(17):3160-8. DOI: 10.1128/JB.01866-14. PMID: 24957622

Lokesh Gakhar

Cheguru P, Majumder A, Yadav R, Gopalakrishna KN, Gakhar L, Artemyev NO. (2014) The solution structure of the transducin-α-uncoordinated 119 protein complex suggests occlusion of the Gβ1 γ1 -binding sites. FEBS J. 282(3):550-61. DOI: 10.1111/febs.13161. PMID: 25425538

Streeter J, Schickling BM, Jiang S, Stanic B, Thiel WH, Gakhar L, Houtman JC, Miller FJ Jr. (2014) Phosphorylation of Nox1 regulates association with NoxA1 activation domain. Circ Res. 115(11):911-8. DOI: 10.1161/CIRCRESAHA.115.304267. PMID: 25228390

Ver Heul AM, Gakhar L, Piper RC, Subramanian R. (2014) Crystal structure of a complex of NOD1 CARD and ubiquitin. PLoS One. 9(8):e104017. DOI: 10.1371/journal.pone.0104017. PMID: 25127239

Doron D, Stojković V, Gakhar L, Vardi-Kilshtain A, Kohen A, Major DT. (2014) Free Energy Simulations of Active-Site Mutants of Dihydrofolate Reductase. J Phys Chem B. 119(3):906-16. DOI: 10.1021/jp5059963.PMID: 25382260

Pamela K. Geyer

Barton LJ, Wilmington SR, Martin MJ, Skopec HM, Lovander KE, Pinto BS, Geyer PK. (2014) Unique and shared functions of nuclear lamina LEM domain proteins in Drosophila. Genetics. 197(2):653-65. DOI: 10.1534/genetics.114.162941. PMID: 24700158

Theresa L. Gioannini

Gioannini TL, Teghanemt A, Zhang D, Esparza G, Yu L, Weiss J. (2014) Purified monomeric ligand.MD-2 complexes reveal molecular and structural requirements for activation and antagonism of TLR4 by Gram-negative bacterial endotoxins. Immunol Res. 59(1-3):3-11. DOI: 10.1007/s12026-014-8543-y. PMID: 24895101

Resman N, Oblak A, Gioannini TL, Weiss JP, Jerala R. (2014) Tetraacylated lipid A and paclitaxel-selective activation of TLR4/MD-2 conferred through hydrophobic interactions. J Immunol. 192(4):1887-95. DOI: 10.4049/jimmunol.1302119. PMID: 24420921

Catherine A. Musselman

Wang C, Chen Z, Hong X, Ning F, Liu H, Zang J, Yan X, Kemp J, Musselman CA, Kutateladze TG, Zhao R, Jiang C, Zhang G. (2014) The structural basis of urea-induced protein unfolding in β-catenin. Acta Crystallogr D Biol Crystallogr. 70(Pt 11):2840-7. DOI: 10.1107/S1399004714018094. PMID: 25372676

Ezhov RN, Metzel GA, Mukhina OA, Musselman CA, Kutateladze TG, Gustafson TP, Kutateladze AG. (2014) Photoactive Spatial Proximity Probes for Binding Pairs with Epigenetic Marks. J Photochem Photobiol A Chem. 290:101-108. PMID: 25197204

Musselman CA, Khorasanizadeh S, Kutateladze TG. (2014) Towards understanding methyllysine readout. Biochim Biophys Acta. 1839(8):686-93. DOI: 10.1016/j.bbagrm.2014.04.001. PMID: 24727128

Allen HF, Daze KD, Shimbo T, Lai A, Musselman CA, Sims JK, Wade PA, Hof F, Kutateladze TG.(2014) Inhibition of histone binding by supramolecular hosts. Biochem J. 459(3):505-12. DOI: 10.1042/BJ20140145. PMID: 24576085

Andrew W. Norris

Mark AL, Norris AW, Rahmouni K. (2014) Sympathetic inhibition after bariatric surgery. Hypertension. 64(2):235-6. DOI: 10.1161/HYPERTENSIONAHA.114.03183. PMID: 24866141

Baack ML, Wang C, Hu S, Segar JL, Norris AW. (2014) Hyperglycemia induces embryopathy, even in the absence of systemic maternal diabetes: an in vivo test of the fuel mediated teratogenesis hypothesis. Reprod Toxicol. 46:129-36. DOI: 10.1016/j.reprotox.2014.03.013. PMID: 24721120

Norris AW, Bahr TM, Scholz TD, Peterson ES, Volk KA, Segar JL. (2014) Angiotensin II-induced cardiovascular load regulates cardiac remodeling and related gene expression in late-gestation fetal sheep. Pediatr Res. 75(6):689-96. DOI: 10.1038/pr.2014.37. PMID: 24614802

Sui H, Yi Y, Yao J, Liang B, Sun X, Hu S, Uc A, Nelson DJ, Ode KL, Philipson LH, Engelhardt JF, Norris AW. (2014) Quantifying insulin sensitivity and entero-insular responsiveness to hyper- and hypoglycemia in ferrets. PLoS One. 9(3):e90519. DOI: 10.1371/journal.pone.0090519. PMID: 24594704

Bryce V. Plapp

Baskar Raj S, Ramaswamy S, Plapp BV. (2014) Yeast alcohol dehydrogenase structure and catalysis. Biochemistry. 53(36):5791-803. DOI: 10.1021/bi5006442. PMID: 25157460

Yahashiri A, Rubach JK, Plapp BV. (2014) Effects of cavities at the nicotinamide binding site of liver alcohol dehydrogenase on structure, dynamics and catalysis. Biochemistry. 53(5):881-94. DOI: 10.1021/bi401583f. PMID: 24437493

David H. Price

Guo J, Li T, Schipper J, Nilson KA, Fordjour FK, Cooper JJ, Gordân R, Price DH. (2014) Sequence specificity incompletely defines the genome-wide occupancy of Myc. Genome Biol. 15(10):482. PMID: 25287278

Gu J, Babayeva ND, Suwa Y, Baranovskiy AG, Price DH, Tahirov TH. (2014) Crystal structure of HIV-1 Tat complexed with human P-TEFb and AFF4. Cell Cycle. 13(11):1788-97. DOI: 10.4161/cc.28756. PMID: 24727379

Guo J, Turek ME, Price DH. (2014) Regulation of RNA polymerase II termination by phosphorylation of Gdown1. J Biol Chem. 289(18):12657-65. DOI: 10.1074/jbc.M113.537662. PMID: 24634214

Mullen Davis MA, Guo J, Price DH, Luse DS. (2014) Functional interactions of the RNA polymerase II-interacting proteins Gdown1 and TFIIF. J Biol Chem. 289(16):11143-52. DOI: 10.1074/jbc.M113.544395. PMID: 24596085

Liu P, Xiang Y, Fujinaga K, Bartholomeeusen K, Nilson KA, Price DH, Peterlin BM. (2014) Release of positive transcription elongation factor b (P-TEFb) from 7SK small nuclear ribonucleoprotein (snRNP) activates hexamethylene bisacetamide-inducible protein (HEXIM1) transcription. J Biol Chem. 289(14):9918-25. DOI: 10.1074/jbc.M113.539015. PMID: 24515107

Fowler T, Ghatak P, Price DH, Conaway R, Conaway J, Chiang CM, Bradner JE, Shilatifard A, Roy AL. (2014) Regulation of MYC expression and differential JQ1 sensitivity in cancer cells. PLoS One. 9(1):e87003. DOI: 10.1371/journal.pone.0087003. PMID: 24466310

Miles A. Pufall

Bongers KS, Fox DK, Kunkel SD, Stebounova LV, Murry DJ, Pufall MA, Ebert SM, Dyle MC, Bullard SA, Dierdorff JM, Adams CM. (2014) Spermine Oxidase Maintains Basal Skeletal Muscle Gene Expression and Fiber Size, and Is Strongly Repressed by Conditions that Cause Skeletal Muscle Atrophy. Am J Physiol Endocrinol Metab. 308(2):E144-58. DOI: 10.1152/ajpendo.00472.2014. PMID: 25406264

Peter A. Rubenstein

Bai F, Caster HM, Rubenstein PA, Dawson JF, Kawai M. (2014) Using baculovirus/insect cell expressed recombinant actin to study the molecular pathogenesis of HCM caused by actin mutation A331P. J Mol Cell Cardiol. 74:64-75. DOI: 10.1016/j.yjmcc.2014.04.014. PMID: 24793351

Yamashiro S, Gokhin DS, Sui Z, Bergeron SE, Rubenstein PA, Fowler VM. (2014) Differential actin-regulatory activities of Tropomodulin1 and Tropomodulin3 with diverse tropomyosin and actin isoforms. J Biol Chem. 289(17):11616-29. DOI: 10.1074/jbc.M114.555128. PMID: 24644292

Rubenstein PA, Wen KK. (2014) Insights into the effects of disease-causing mutations in human actins. Cytoskeleton (Hoboken). 71(4):211-29. DOI: 10.1002/cm.21169. PMID: 24574087

Michael J. Schnieders

Park J, Nessler I, McClain B, Macikenas D, Baltrusaitis J, Schnieders MJ. (2014) Absolute Organic Crystal Thermodynamics: Growth of the Asymmetric Unit into a Crystal via Alchemy. J. Chem. Theory Comput. 10 (7): 2781-2791.

Lipparini F, Lagardère L, Stamm B, Cancès E, Schnieders MJ, Ren P, Maday Y, Piquemal J-P. (2014) Scalable Evaluation of Polarization Energy and Associated Forces in Polarizable Molecular Dynamics: I. Toward Massively Parallel Direct Space Computations. J. Chem. Theory Comput. 10 (4): 1638-1651.

Debra A. Schwinn

Schwinn DA. (2014) Team-based patient care. Learning the delicate dance. Iowa Med. 104(3):19. PMID: 25174086

Schwinn DA. (2014) Unlocking the great GME bottleneck. Iowa Med. 104(1):22. PMID: 25167620

Shields RK, Pizzimenti MA, Dudley-Javoroski S, Schwinn DA. (2014) Fostering interprofessional teamwork in an academic medical center: Near-peer education for students during gross medical anatomy. Anat Sci Educ. DOI: 10.1002/ase.1466. PMID: 24888728

Kleine-Brueggeney M, Gradinaru I, Babaeva E, Schwinn DA, Oganesian A. (2014) Alpha1a-adrenoceptor genetic variant induces cardiomyoblast-to-fibroblast-like cell transition via distinct signaling pathways. Cell Signal. 26(9):1985-97. DOI: 10.1016/j.cellsig.2014.05.007. PMID: 24835978

Madeline A. Shea

Newman RA, Sorensen BR, Kilpatrick AM, Shea MA. (2014) Calcium-dependent energetics of calmodulin domain interactions with regulatory regions of the Ryanodine Receptor Type 1 (RyR1). Biophys Chem. 193-194:35-49. DOI: 10.1016/j.bpc.2014.07.004. PMID: 25145833

Wang X, Boyken SE, Hu J, Xu X, Rimer RP, Shea MA, Shaw AS, Andreotti AH, Huang YH. (2014) Calmodulin and PI(3,4,5)P₃ cooperatively bind to the Itk pleckstrin homology domain to promote efficient calcium signaling and IL-17A production. Sci Signal. 7(337):ra74. DOI: 10.1126/scisignal.2005147. PMID: 25097034

Maria Spies

Ghoneim M, Spies M. (2014) Direct correlation of DNA binding and single protein domain motion via dual illumination fluorescence microscopy. Nano Lett. 14(10):5920-31. DOI: 10.1021/nl502890g. PMID: 25204359

Spies M. (2014) Fulfilling the dream of a perfect genome editing tool. Proc Natl Acad Sci U S A. 111(28):10029-30. DOI: 10.1073/pnas.1408985111. PMID: 24989506

Spies M. (2014) Two steps forward, one step back: determining XPD helicase mechanism by single-molecule fluorescence and high-resolution optical tweezers. DNA Repair (Amst). 20:58-70. DOI: 10.1016/j.dnarep.2014.01.013. PMID: 24560558

Honda M, Okuno Y, Hengel SR, Martín-López JV, Cook CP, Amunugama R, Soukup RJ, Subramanyam S, Fishel R, Spies M. (2014) Mismatch repair protein hMSH2-hMSH6 recognizes mismatches and forms sliding clamps within a D-loop recombination intermediate. Proc Natl Acad Sci U S A. 111(3):E316-25. DOI: 10.1073/pnas.1312988111. PMID: 24395779

Earle Stellwagen

Stellwagen NC, Peters JP, Dong Q, Maher LJ 3rd, Stellwagen E. (2014) The free solution mobility of DNA and other analytes varies as the logarithm of the fractional negative charge. Electrophoresis. 35(12-13):1855-63. DOI: 10.1002/elps.201400040. PMID: 24648187

Nancy C. Stellwagen

Stellwagen NC, Peters JP, Dong Q, Maher LJ 3rd, Stellwagen E. (2014) The free solution mobility of DNA and other analytes varies as the logarithm of the fractional negative charge. Electrophoresis. 35(12-13):1855-63. DOI: 10.1002/elps.201400040. PMID: 24648187

Eric B. Taylor

Gray LR, Tompkins SC, Taylor EB. (2014) Regulation of pyruvate metabolism and human disease. Cell Mol Life Sci. 71(14):2577-604. DOI: 10.1007/s00018-013-1539-2. PMID: 24363178

Lori L. Wallrath

Wallrath LL, Vitalini MW, Elgin SCR. (2014) Heterochromatin: A Critical Part of the Genome. Fundamentals of Chromatin. 529-552.

Azzaz AM, Vitalini MW, Thomas AS, Price JP, Blacketer MJ, Cryderman DE, Zirbel LN, Woodcock CL, Elcock AH, Wallrath LL, Shogren-Knaak MA. (2014) Human heterochromatin protein 1α promotes nucleosome associations that drive chromatin condensation. J Biol Chem. 289(10):6850-61. DOI: 10.1074/jbc.M113.512137. PMID: 24415761

M. Todd Washington

Pryor JM, Dieckman LM, Boehm EM, Washington TM. (2014) Eukaryotic Y-Family Polymerases: A Biochemical and Structural Perspective. Nucleic Acid Polymerases: Nucleic Acids and Molecular Biology. 30: 5-10.

Ronald J. Weigel

Bogachek MV, De Andrade JP, Weigel RJ. (2014) Regulation of Epithelial-Mesenchymal Transition through SUMOylation of Transcription Factors. Cancer Res. 75(1):11-15. PMID: 25524900

Bogachek MV, Park JM, De Andrade JP, Kulak MV, White JR, Wu T, Spanheimer PM, Bair TB, Olivier AK, Weigel RJ. (2014) A Novel Animal Model for Locally Advanced Breast Cancer. Ann Surg Oncol. PMID: 25326397

Xia C, Schroeder MC, Weigel RJ, Sugg SL, Thomas A. (2014) Rate of contralateral prophylactic mastectomy is influenced by preoperative MRI recommendations. Ann Surg Oncol. 21(13):4133-8. DOI: 10.1245/s10434-014-3852-x. PMID: 24934585

Bogachek MV, Chen Y, Kulak MV, Woodfield GW, Cyr AR, Park JM, Spanheimer PM, Li Y, Li T, Weigel RJ. (2014) Sumoylation pathway is required to maintain the basal breast cancer subtype. Cancer Cell. 25(6):748-61. DOI: 10.1016/j.ccr.2014.04.008. PMID: 24835590

Spanheimer PM, Park JM, Askeland RW, Kulak MV, Woodfield GW, De Andrade JP, Cyr AR, Sugg SL, Thomas A, Weigel RJ. (2014) Inhibition of RET increases the efficacy of antiestrogen and is a novel treatment strategy for luminal breast cancer. Clin Cancer Res. 20(8):2115-25. DOI: 10.1158/1078-0432.CCR-13-2221. PMID: 24526731

Cyr AR, Kulak MV, Park JM, Bogachek MV, Spanheimer PM, Woodfield GW, White-Baer LS, O’Malley YQ, Sugg SL, Olivier AK, Zhang W, Domann FE, Weigel RJ. (2014) TFAP2C governs the luminal epithelial phenotype in mammary development and carcinogenesis. Oncogene. 34(4):436-44. DOI: 10.1038/onc.2013.569. PMID: 24469049

Marc S. Wold

Chen R, Wold MS. (2014) Replication protein A: single-stranded DNA’s first responder: dynamic DNA-interactions allow replication protein A to direct single-strand DNA intermediates into different pathways for synthesis or repair. Bioessays. 36(12):1156-61. DOI: 10.1002/bies.201400107. PMID: 25171654

Nguyen B, Sokoloski J, Galletto R, Elson EL, Wold MS, Lohman TM. (2014) Diffusion of human replication protein A along single-stranded DNA. J Mol Biol. 426(19):3246-61. DOI: 10.1016/j.jmb.2014.07.014. PMID: 25058683

Sommers JA, Banerjee T, Hinds T, Wan B, Wold MS, Lei M, Brosh RM Jr. (2014) Novel function of the Fanconi anemia group J or RECQ1 helicase to disrupt protein-DNA complexes in a replication protein A-stimulated manner. J Biol Chem. 289(29):19928-41. DOI: 10.1074/jbc.M113.542456. PMID: 24895130

Meng Wu

Wen W, Wang Y, Li Z, Tseng PY, McManus OB, Wu M, Li M, Lindsley CW, Dong X, Hopkins CR. (2014) Discovery and Characterization of 2-(Cyclopropanesulfonamido)-N-(2-ethoxyphenyl)benzamide, ML382: a Potent and Selective Positive Allosteric Modulator of MrgX1. ChemMedChem. 10(1):57-61. DOI: 10.1002/cmdc.201402277. PMID: 25209672

Flaherty DP, Simpson DS, Miller M, Maki BE, Zou B, Shi J, Wu M, McManus OB, Aubé J, Li M, Golden JE. (2014) Potent and selective inhibitors of the TASK-1 potassium channel through chemical optimization of a bis-amide scaffold. Bioorg Med Chem Lett. 24(16):3968-73. DOI: 10.1016/j.bmcl.2014.06.032. PMID: 25017033

Liping Yu

Willer T, Inamori K, Venzke D, Harvey C, Morgensen G, Hara Y, Beltrán Valero de Bernabé D, Yu L, Wright KM, Campbell KP. (2014) The glucuronyltransferase B4GAT1 is required for initiation of LARGE-mediated α-dystroglycan functional glycosylation. Elife. 3. DOI: 10.7554/eLife.03941. PMID: 25279699

Gioannini TL, Teghanemt A, Zhang D, Esparza G, Yu L, Weiss J. (2014) Purified monomeric ligand.MD-2 complexes reveal molecular and structural requirements for activation and antagonism of TLR4 by Gram-negative bacterial endotoxins. Immunol Res. 59(1-3):3-11. DOI: 10.1007/s12026-014-8543-y. PMID: 24895101

Yu L, Fink BD, Herlein JA, Oltman CL, Lamping KG, Sivitz WI. (2014) Dietary fat, fatty acid saturation and mitochondrial bioenergetics. J Bioenerg Biomembr. 46(1):33-44. PMID: 24121995

Fink BD, Herlein JA, Guo DF, Kulkarni C, Weidemann BJ, Yu L, Grobe JL, Rahmouni K, Kerns RJ, Sivitz WI. (2014) A mitochondrial-targeted coenzyme q analog prevents weight gain and ameliorates hepatic dysfunction in high-fat-fed mice. J Pharmacol Exp Ther. 351(3):699-708. DOI: 10.1124/jpet.114.219329. PMID: 25301169

2014 Biochemistry Newsletter now available

Friday, October 31st, 2014

The 2014 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.

10th Annual Spring Undergraduate Research Festival Awards

Tuesday, April 15th, 2014

Two Biochemistry undergraduate researchers won awards at The 10th Annual Spring Undergraduate Research Festival that took place at the University Capitol Centre on April 9, 2014.  Winners included Gabriel Baccam (Wallrath laboratory) for her poster titled “Modeling Skin Blistering in Drosophila” and Kyle Strouse (Weeks laboratory) for his poster titled “Characterization of the fibroblast growth factor 10 alleles in Xenopus laevis.”  Both researchers are using model organisms to understand biological pathways altered in human disease. Congratulations to Gabriel and Kyle!

Weeks honored as an Outstanding Educator in Medical Education

Friday, November 8th, 2013

Dan Weeks was honored as an Outstanding Educator in the Department of Biochemistry on Medical Education Celebration Day on November 7, 2013.

Weeks Med Ed Day

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

 

Ninth Annual Gene F. Lata Undergraduate Honors Symposium

Thursday, May 2nd, 2013

A record 13 students presented at this year’s Undergraduate Honors Program. This year marks the ninth year for the Gene F. Lata Undergraduate Research Symposium. Please join Professor Marc Wold, Director of Undergraduate Studies and Honors Advisor, in congratulating these 2013 graduates and their research mentors for a job well done:

  • James Bullard
    Mentor: Pam Geyer
    Diversity in function: understanding how a polydactyl zinc-finger protein confers multiple functional outputs
  • Alexander Crider
    Mentor: Atish Dey (Chemistry)
    A novel DMSP lyase
  • Atish Dey
    Mentor: David Soll (Biology)
    Identification of genes involved in candida albicans biofilm synthesis under the control of BCR1
  • Johnathan Fagg
    Mentor: Peter Rubenstein
    Molecular effects of two Baraitser Winter causing mutations
  • Bhavatharini Kasinathan
    Mentor: Sarit Smolikove (Biology)
    The relationship between proteolysis and the akirin pathway in synaptonemal complex disassembly during C. elegans meiosis
  • Irtaza Khalid
    Mentor: David Price
    Deregulation of P-TEFb through microsatellite instability-induced mutations in LARP7 as a potential cause of cancer
  • Ryan Marling
    Mentor: Dan Weeks
    The role of cardiac NK2 genes in early heart development of Xenopus laevis
  • Allyson Mayer
    Mentor: Charles Brenner
    Computational and experimental determination of protein acetylation as a function of nutrition
  • Clayton Oakley
    Mentor: Beverly Davidson (Internal Medicine)
    The validation of several candidate genes predicted to have gained microRNA binding sites through transposable elements
  • Stephen Siemonsma
    Mentor: Adrian Elcock
    Course-grained BD simulations of type III secretion system needle in salmonella
  • David Simoens
    Mentor: Lori Wallrath
    A drosophila model for lamin-associated heart disease
  • Kyle Strouse
    Mentor: Dan Weeks
    Expression of the MiR183 cluster: is there a differential expression of these micro-RNAs in early development?
  • Johanna Uribe
    Mentor: Kris DeMali
    Vinculin phosphorylation regulates epithelial phenotypes

The symposium also included the presentation of two new undergraduate awards, made possible by a gift from Alap Subramanian. The H.G. Wittmann Scholar Award was presented to Stephen Siemonsma (Elcock lab) and the H.G. Khorana Scholar Award was presented to Allyson Mayer (Brenner lab), recognizing their exceptional understanding of biochemistry and its value to society.

Congratulations to everyone named above and all of our 2013 graduates!

Rubenstein and Weeks selected as Directors in new curriculum

Monday, December 31st, 2012

Professor Peter Rubenstein has been named Co-Director of the Mechanisms of Health and Disease Strand of the new Carver College of Medicine Curriculum set to be introduced in Fall, 2014 with George Bergus, MD. As Director, Dr. Rubenstein will oversee the parts of the Curriculum Renewal Project, including the sequencing of concepts and integration of basic science and clinical content. The new Curriculum will also incorporate a Keystone Course at the conclusion of the Third and final pre-clinical semester.  Professor Dan Weeks and Jason Barker, MD were chosen to develop this course.  They assume these positions on January 1.

Biochemistry undergrad receives Iowa Space Grant Consortium award

Thursday, July 26th, 2012

Kyle Strouse, a senior biochemistry major conducting research with Dan Weeks, has been selected as a NASA scholarship winner by the Iowa Space Grant Consortium. He will carry out a research project over the next year entitled “Understanding gravity sensing defects through targeted ear manipulations,” and will be mentored by Dr. Bernd Fritzsch in the Department of Biology. Congratulations Kyle!