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Undergraduate Publications

Student Publication Mentor
Jaideep Prasad “Diversification of Retinoblastoma Protein Function Associated with Cis and Trans Adaptations" Molecular Biology and Evolution, (2019).

Authors: Rima Mouawad, Jaideep Prasad, Dominic Thorley, Pamela Himadewi, Dhruva Kadiyala, Nathan Wilson, Philipp Kapranov, David N Arnosti.
David Arnosti
Sean Hyslop “SLAMF7 Is a Critical Negative Regulator of IFN-α–Mediated CXCL10 Production in Chronic HIV Infection." The Journal of Immunology, (2019) 202(1):228-238.

Authors: O’Connell P, Pepelyayeva Y, Blake MK, Hyslop S, Crawford RB, Rizzo MD, Pereira-Hicks C, Godbehere S, Dale L, Gulick P, Kaminski NE, Amalfitano A, Aldhamen YA.
Yasser Aldhamen
Student Publication Mentor
David Dickson “The 27 kDa Trypanosoma brucei Pentatricopeptide Repeat Protein is a G-tract Specific RNA Binding Protein.” Scientific Reports. 2018 Nov 19;8(1):16989

Authors: Kamba PF, Dickson DA, White NA, Ekstrom JL, Koslowsky DJ, Hoogstraten CG.
Charles Hoogstraten
Raghav Jain “Association of whole blood n-6 fatty acids with stunting in 2-to-6-year-old Northern Ghanaian children: A cross-sectional study.” PLoS One (2018) 13(3):e0193301. doi: 10.1371/journal.pone.0193301

Authors: Adjepong M, Pickens CA, Jain R, Harris WS, Annan RA, Fenton JI.
Jenifer Fenton
Raghav Jain “The role of the lipidome in obesity-mediated colon cancer risk.” J Nutr Biochem (2018) 59:1-9. doi: 10.1016/j.jnutbio.2018.02.015

Authors: Jain R, Austin Pickens C, Fenton JI
Jenifer Fenton
Student Publication Mentor
Kasey Pham “A time and place for everything: The shifting predictors of variation in the oak plastome.” Genome (2017) 60(9):720-732. doi: 10.1139/gen-2016-0191

Authors: Kasey Pham, Andrew L. Hipp, Paul S. Manos, Richard C. Cronn.
Paul S. Manos
Student Publication Mentor
Chris Bailey “Optimal allosteric stabilization sites using contact stabilization analysis.” Computational Chemistry (2016) Oct 24; doi: 10.1002/jcc.24517.

Authors: Dickson A, Bailey CT, Karanicolas J
Dr. Alex Dickson
Hope Hersh "SENSITIVE TO FREEZING2 Aides in Resilience to Salt and Drought in Freezing-Sensitive Tomato." Plant Physiol (2016) Nov;172(3):1432-1442. doi: 10.1104/pp.16.01183

Authors: Wang K, Hersh HL, Benning C
Dr. Christoph Benning
Kasey Pham "Specimens at the Center: An Informatics Workflow and Toolkit for Specimen-level Analysis of Public DNA Database Data." Systematic Botany. (2016) 41(3):529-539 doi: 10.1600/036364416X692505

Authors: Pham K, et al.
Dr. L. Alan Prather
Kasey Pham "Training the Next Generation of Sedge Taxonomists: School Kids Tackle Sedge Morphological Diversity." Systematic Botany. (2016) 41(3):540-551 doi: 10.1600/036364416X692479

Authors: Hann M, Budaitis B, Grant J, Wetta D, Murphy P, Cotton A, Pham K, Hipp AL
Dr. L. Alan Prather
Student Publication Mentor
MinJae Kim “Epigenetic modification and antibody-dependent expansion of memory-like NK cells in human cytomegalovirus-infected individuals.” Immunity 42(3) (March 2017): 432-42. doi:10.1016/j.immuni.2015.02.013

Authors: Jaewon Lee, Tianxing Zhang, Ilwoong Hwang, Ahrom Kim, Larissa Nitschke, MinJae Kim, Jeannine Scott, Yosuke Kamimura, Lewis Lanier, Sungjin Kim.
Sungjin Kim
Michael Connolly “Evidence that progestins play an important role in spermiation and pheromone production in male sea lamprey (Petromyzon marinus).” General and Comparative Endocrinolog 212 (February 2015): 17-27. 2015. doi:10.1016/j.ygcen.2015.01.008.

Authors: Bryan MB, Chung-Davidson YW, Ren J, Bowman S, Scott AP, Huertas M, Connolly MP, Li W.
Dr. Weiming Li 
Jessica E Mizzi "Temperature-dependent polymorphism and magnetic Properties of three-dimensional copper pyromellitate coordination Polymers containing 4, 4′-dipyridylamine." Journal of Solid State Chemistry 225 (2015): 222-30. doi:10.1016/j.jssc.2014.12.021

Authors: Mizzi JE, Staples RJ, LaDuca RL
Dr. Robert LaDuca
Lance Valls "Identification of a Key Cholesterol Binding Enhancement Motif in Translocator Protein 18 kDa" Biochemistry 2015, 54 (7), pp 1441–1443 doi:10.1021/bi5015453

Authors: Li F, Liu J, Valls L, Hiser C, Ferguson-Miller S.
Dr. Shelagh Ferguson-Miller
Student Publication Mentor
Spiro E. Papoulis "Coexistence of evolving bacteria stabilized by shared black queen function." Evolution 68, no. 10 (October 2014): 2960-71. doi:10.1111/evo.12485.

Authors: Morris JJ, Papoulis SE, Lenski RE
Dr. Richard Lenski
Jessica E. Mizzi "Divalent metal pyromellitate coordination polymers containing bis (4-pyridylformyl) piperazine: Selection between simple chain and rare fsc network topologies" Inorganica Chimica Acta 421 (September 2014): 183-90. doi:10.1016/j.ica.2014.05.038

Authors: Mizzi JE, LaDuca RL
Dr. Robert LaDuca
Aaron L. Oom “MicroRNA-200b targets protein kinase C  and suppresses triple-negative breast cancer metastasis.” Carcinogenesis 35, no. 10 (September 2014): 2254-63.

Authors: Humphries B, Wang Z, Oom AL, Fisher T, Tan D, Cui Y, Jiang Y, Yang C.
Dr. Chengfeng Yang
Irina Pushel "Integrated Stability and Activity Control of the Drosophila Rbf1 Retinoblastoma Protein*" The Journal of Biological Chemistry 289.36, 24863–24873. (September 2014) doi:10.1074/jbc.M114.586818

Authors: Zhang L, Wei Y, Pushel I, HeInze K, Elenbaas J, Henry RW, Arnosti DN
Dr. David Arnosti
Jessica E. Mizzi "Effect of Substituents on Topology and in situ Amide Hydrolysis on Cadmium Isophthalate Coordination Polymers Prepared Using a 4Pyridylnicotinamide Precursor."  Zeitschrift für anorganische und allgemeine Chemie 640, no. 10 (August 2014): 1922-29.  (February 2014): 188-98. doi:10.1002/zaac.201400134

Authors: O'Donovan ME, Kraft PE, Mizzi JE, LaDuca RL
Dr. Robert LaDuca
Jessica E. Mizzi "Structural chemistry and magnetic properties of copper pyromellitate coordination polymers containing pyridylnicotinamide ligands." doi:10.1016/j.ica.2013.11.007 Inorganica Chimica Acta 411 (February 2014): 188-98.

Authors: Mizzi JE, LaDuca RL
Dr. Robert LaDuca
Jessica E. Mizzi "Divalent metal sulfoisophthalate coordination polymers with isomeric pyridylnicotinamide coligands."  Inorganica Chimica Acta 409 (January 2014): 449-57. doi:10.1016/j.ica.2013.10.003

Authors: Kraft PE, Mizzi JE, LaDuca RL
Dr. Robert LaDuca
Aaron L. Oom "MicroRNAs: Novel Players in Cancer Diagnosis and Therapies" BioMed Research International 2014, no. 4 (2014): 1-13. 

Authors: Humphries B, Wang Z, Oom AL, Fisher T, Tan D, Cui Y, Jiang Y, Yang C
Dr. Chengfeng Yang
Student Publication Mentor
Hailey Miller "Temporal dynamics of changes in reactive oxygen species (ROS) levels and cellular morphology are coordinated during complementary chromatic acclimation in Fremyella diplosiphon." Photosynthesis Research, 118(1-2), 95-104. (2013) doi:10.1007/s11120-013-9938-7

Authors: Singh, SP, Miller, H L, & Montgomery, BL.
Dr. Beronda L.  Montgomery
David Hall "Analysis of essential Arabidopsis nuclear genes encoding plastid - targeted proteins." PLoSONE. (2013) In press.  doi:10.1371/journal.pone.0073291

Authors: Savage, L.J., Imre, K., Hall, D.A. and R.L. Last.
Dr. Robert Last
Josh Andaloro "Transorganellar complementation redefines the biochemical continuity of endoplasmic reticulum and chloroplasts" PNAS: 2013 Jul 1. [Epub ahead of print] doi:10.1073/pnas.1306331110

Authors: Mehrshahi P, Stefano G, Andaloro JM, Brandizzi F, Froehlich JE, Dellapenna D
Dr. Dean DellaPenna
Keenan Noyes "Physics based protein structure refinement through multiple molecular dynamics trajectories and structure averaging" Proteins: 2013 Jun 5. doi: 10.1002/prot.24336. doi:10.1002/prot.24336

Authors:  Mirjalili V, Noyes K , Feig M.
Dr. Michael Feig
Kenneth Walters "Light intensity and reactive oxygen species are centrally involved in photoregulatory responses during complementary chromatic adaptation in Fremyella diplosiphon." Communicative and Integrative Biology, May/June 2013, Volume 6, Issue 3 doi:10.4161/cib.25005

Authors: Walters, KJ, Whitaker, MJ, Singh, SP, Montgomery, BL.
Dr. Beronda L. Montgomery
Kristopher Opron &
Fadi Assaf
"The RNA polymerase bridge helix YFI motif in catalysis, fidelity and translocation. BBA Gene Regulatory Mechanisms Feb. 2013, Volume 1829, Issue 2 187-198. doi:10.1016/j.bbagrm.2012.11.005.

Authors: Nedialkov, Y.A., Opron, K., Assaf, F., Artsimovitch, I., Kireeva, M.L., Kashlev, M., Cukier, R.I., Nudler, E., and Burton, Z.F.
Dr. Zachary F. Burton
Lance Valls "Characterization of Cholesterol and Drug Ligand Interactions with Translocator Protein 18 KDA (TSPO) from Rhodobacter Sphaeroides" Biophysical Journal  Vol.106, Issue 2 doi:10.1016/j.bpj.2013.11.128

Authors: Li F, Valls L, Ferguson-Miller S.
Dr. Shelagh Ferguson-Miller
Student Publication Mentor
Jiajun Zhou "Evidence for Vpr-dependent HIV-1 Replication in Human CD4+ CEM.NKR T-Cells" Retrovirology 2012, 9:93  doi:10.1186/1742-4690-9-93

Authors: Zhou T, Dang Y, Baker JJ, Zhou J and Zheng Y-H
Dr. Yong-Hui Zheng
Cassandra Johnny "A galactoglycerolipid lipase is required for triacylglycerol accumulation and survival following nitrogen deprivation in Chlamydomonas reinhardtii." Plant Cell. 2012 Nov;24(11):4670-86. doi:10.1105/tpc.112.105106. Epub 2012 Nov 16.

Authors: Li X, Moellering ER, Liu B, Johnny C, Fedewa M, Sears BB, Kuo MH, Benning C.
Dr. Min Hao Kuo
Dr. Christoph Benning
Kastuv Santra "N-Acetyl-seryl-aspartyl-lysyl-proline inhibits ET-1-induced collagen production by preserving Src homology 2-containing protein tyrosine phosphatase-2 activity in cardiac fibroblasts." Pflugers Arch 2012 Oct;464(4):415-23. Epub 2012 Sep 12 doi:10.1007/s00424- 012-1150-7

Authors:  Peng H, Carretero OA, Peterson EL, Yang XP, Santra K, Rhaleb NE.
Dr. Noor Rahleb
Josh Smith "Identification of small molecules that antagonize diguanylate cyclase enzymes to inhibit biofilm formation."
Antimicrob Agents Chemother 2012 Oct;56(10):5202-11. doi:10.1128/AAC.01396-12. Epub 2012 Jul 30.

Authors: Sambanthamoorthy K, Sloup RE, Parashar V, Smith JM, Kim EE, Semmelhack MF, Neiditch MB, Waters CM.
Christopher M. Waters
Jonathan P. Massie "Quantification of high-specificity cyclic diguanylate signaling." Proc. Nat. Acad. Sci. Volume 109, No. 31, 12746-12751, July 2012 doi:10.1073/pnas.1115663109

Authors: Massie, J., Reynolds, E., Koestler, B, Cong, J, Agostoni, M, and Waters, C.
Christopher M. Waters
Toufic Jildeh "Vitamin D3 Alters the Crystallization and Volume Expansion of Cholesterol*" Journal of Clinical Lipidology Volume 6, Issue 3 , Page 282, May 2012 doi:10.1016/j.jacl.2012.04.060

Authors:  Toufic R. Jildeh, BS, Abed Janoudi, PhD, George S. Abela, MD
Dr. George S. Abela
Urs Benning "New aspects of phloem-mediated long-distance lipid signaling in plants." Front. Plant. Sci. Mar 28 ,2012. doi:10.3389/fpls.2012.00053

Authors: Benning, U.F., Tamot, B., Guelette, B.S., and Hoffmann-Benning, S.

"Identification of lipids and lipid-binding proteins in phloem exudates from Arabidopsis thaliana". Journal of Experimental Botany. March 2012. doi:10.1093/jxb/ers028

Authors: Guelette, B.S, Benning, U.F., Chamberlin, B., and Hoffmann-Benning, S
Susanne Hoffmann-Benning
Thomas F. Cooke and
Cody L. Depew
"JAZ8 lacks a canonical degron and has an EAR motif that mediates transcriptional repression of Jasmonate responses in Arabidopsis." Plant Cell. 2012 Feb 10. doi:10.1105/tpc.111.093005

Authors: Shyu C, Figueroa P, Depew CL, Cooke TF, Sheard LB, Moreno JE, Katsir L, Zheng N, Browse J, Howe GA.
Gregg A. Howe
Dena Shahriari "Time controlled release of Arabino-furanosylcytosine (Ara-C) from agarose hydrogels using layer-by-layer assembly: AniIn-vitro study." Journal of Biomaterials Science, Polymer Edition, 23: 439–463. 2012 doi:10.1163/092050610X552221 

Authors: Mehrotra, S., Lynam, D., Liu, C., Shahriari, D., Lee, I., Tuszynski, M., Sakamoto, J., and Chan, C.,
Dr. Christina Chan
Student Publication Mentor
Ardian Coku  A J-like protein influences fatty acid composition of chloroplast lipids in Arabidopsis.  PLoS ONE  2011 6(10): e25368. doi:10.1371/journal.pone.0025368

Authors: Ajjawi I, Coku A, Froehlich JE, Yang Y, Osteryoung KW, Benning C, Last RL.
Dr. Robert Last
David Hall A small zinc finger thylakoid protein plays a 4ole in maintenance of photosystem II in Arabidopsis thaliana. Plant Cell  2011 23(5): 1861-1875. doi:10.1105/tpc.111.085456
Plant Cell
Authors: Lu Y, Hall DA, Last RL.
Dr. Robert Last
Amy M. Abramczyk
Linsey C. Seitz
cAMP initiates early-phase neuron-like morphological changes and late-phase neural differentiation and function in mesenchymal stem cells. Cellular and Molecular Life Sciences 2011 68(5):863-876. doi:10.1007/s00018-010-0497-1

Authors: Zhang, L., Seitz, L. C., Abramczyk, A. M., and Chan, C.
Dr. Christina Chan
Kastuv Santra Effect of doublecortin on self-renewal and differentiation in brain tumor stem cells. Cancer Sci. 2011 Jul;102(7):1350-7. doi:10.1111/j.1349-7006.2011.01952.x. Epub 2011 May 10.

Authors: Santra M, Santra S, Buller B, Santra K, Nallani A, Chopp M.
Dr. Michael Chopp
Steven R. Breneman
Lauren A. Topper
Biochemical characterization and homology modeling of methylbutenol synthase and implications for understanding hemiterpene synthase evolution in plants. J. Biol. Chem. June 2011 286:20582-20590. doi:10.1074/jbc.M111.237438

Authors: Gray DW, Breneman SR, Topper LA, Sharkey TD.
Dr. Thomas D. Sharkey
Thomas F. Cooke Cytochrome P450 CYP94B3 mediates catabolism and inactivation of the plant hormone jasmonoyl-L-isoleucine. Proc Natl Acad Sci U S A. 2011 May 16. Epub ahead of print. doi:10.1073/pnas.1103542108

Authors: Koo AJ, Cooke TF, Howe GA
Dr. Gregg A. Howe
Elizabeth Grier The loss of HIF1α leads to an increased susceptibility to cadmium chloride-induced toxicity in mouse embryonic fibroblast. J Toxicol 2011. Epub Jul 17. doi:10.1155/2011/391074

Authors: Vengellur A, Grier E, LaPres JJ
Dr. John J LaPres
Emma Darios Agonist Discrimination between Uterine and Cervical Contractility
(The FASEB Journal. April 2011;25:806.4)

Authors:  Darios ES and Watts SW.
Dr. Stephanie W. Watts
Michael J. Howard Escherichia coli alkylation response protein AidB is a redox partner of flavodoxin and binds RNA and acyl carrier protein. Arch. Biochem. Biophys. 2011. 513(2):81-6. doi:10.1016/j.abb.2011.07.004

Authors: Mulrooney SB, Howard MJ, Hausinger RP.
Robert P. Hausinger
Adam J. Jaskierny Effect of flanking residues on the conformational sampling of the internal fusion peptide from Ebola virus. 2011. Proteins. 79(4):1109-17. doi:10.1002/prot.22947

Authors: Jaskierny AJ, Panahi A, Feig M.
Michael Feig
Jun-seok Lee
Paul M. Luethy
Bongjun Son
Combinatorial regulation of fmgD by MrpC2 and FruA during Myxococcus xanthus development.  2011. J. Bacteriol. 193:1681-1689. doi:10.1128/JB.01541-10 

Authors: Lee JS, Son B, Viswanathan P, Luethy PM, and Kroos L.
Lee R. Kroos
Yu Liu
Bongjun Son
Combinatorial regulation by MrpC2 and FruA involves three sites in the fmgE promoter region during Myxococcus xanthus development doi:10.1128/JB.00205-11 

Authors: Son BLiu Y, Kroos L.
Lee R. Kroos
Catherine Nezich
Pratheeba Palasuberniam
Lisa Pillow
Molecular mechanism by which palmitate inhibits PKR autophosphorylation 2011. Biochemistry 50(6):1110-1119. doi:10.1021/bi101923r

Authors: Cho, H. J., Mukherjee, S., Palasuberniam, P., Pillow, L., Bilgin, B., Nezich, C. L., Walton, S. P., Feig, M., and Chan, C
Christina Chan
Ellen A. Ratliff Effect of temperature on postillumination isoprene emission in oak and poplar. Plant Physiol. 155, 1037-1046. doi:10.1104/pp.110.167551

Authors: Li Z, Ratliff EA, Sharkey TD.
Thomas D. Sharkey
Kimberly R. Struck The effects of moderately high temperature on zeaxanthin accumulation and decay. Photosynth. Res. 108, 171-181. doi:10.1007/s11120-011-9672-y

Authors:Zhang R, Kramer D, Cruz J, Struck K, Sharkey T.
Thomas D. Sharkey
Scott R. Taber Iron-containing urease in a pathogenic bacterium. Proc. Natl. Acad. Sci. 2011. Proc. Natl Acad. Sci. 108:13095-13099. doi:10.1073/pnas.1106915108

Authors: Carter EL, Tronrud DE, Taber SR, Karplus PA, and Hausinger RP.
Robert P. Hausinger
Christopher L. Towns Function of UreB in Klebsiella aerogenes urease. Biochemistry 50:9296-9308. 2011. doi:10.1021/bi2011064

Authors: Carter, E. L., J. L. Boer, M. A. Farrugia, N. Flugga, C. L. Towns, and R. P. Hausinger. 2011.
Robert P. Hausinger
Student Publication Mentor
Dennis Miner Studies of a Biochemical Factory: Tomato Trichome Deep Expressed Sequence Tag Sequencing and Proteomics. Plant Physiol. 2010.153:1212-1223. doi:10.1104/pp.110.157214

Authors: Schilmiller AL, Miner D, Larson M, McDowell E, Gang DR, Wilkerson C, Last RL.
Dr. Robert Last
Amy A. Abramczyk
Linsey C. Seitz
Synergistic effect of cAMP and palmitate in promoting altered mitochondria function and cell death in HepG2 cells. Experimental Cell Research. 2010. Experimental Cell Research. 316:716-727. doi:10.1016/j.yexcr.2009.12.008

Authors: Zhang, L., Seitz, L. C., Abramczyk, A. M., Liu, Li, and Chan, C.
Dr. Christina Chan
Kimberly L. Anderson Mutagenesis of Klebsiella aerogenes UreG to probe nickel binding and interactions with other urease-related proteins. 2010. Biochemistry 49:4859-4869. doi:10.1021/bi1004987

Authors: Boer JL, Quiroz-Valenzuela S, Anderson KL, Hausinger RP.
Robert P. Hausinger
Kirk B. Burkhart
Victoria Harkins
A Genomic Perspective on the Potential of Actinobacillus succinogenes for Industrial Succinate Production 2010. BMC Genomics. 11:680. doi:10.1107/S1744309110018981 

Authors: McKinlay JB, Laivenieks M, Schindler BD, McKinlay AA, Siddaramappa S, Challacombe JF, Lowry SR, Clum A, Lapidus AL, Burkhart KB, Harkins V, Vieille C.
Claire Vieille
Noelle Byrne Separation of α- from β-Arylalanines by Nickel Nitrilotriacetate Chromatography. 2010. J. Separation. Sci. 33, 1279–1282. doi:10.1002/jssc.200900675

Authors: Wijerathne S., Byrne N.A., Walker K.D.
Kevin D. Walker
Thomas F. Cooke Alternative Splicing Expands the Repertoire of Dominant JAZ Repressors of Jasmonate Signaling. 2010. Plant Journal. 63 613-622. doi:10.1111/j.1365-313X.2010.04265.x

Authors: HS Chung, TF Cooke, CL Depew, LC Patel, N Ogawa, Y Kobayashi, GA Howe.
Gregg A. Howe
Evan Dayringer Deciphering a Transcriptional Regulatory Code: Modeling Short-Range Repression in the Drosophila Embryo. 2010. Molecular Systems Biology 6:341. doi:10.1038/msb.2009.97

Authors: Walid D. Fakhouri*, Ahmet Ay* (*co-first authors), Rupinder Sayal, Jacqueline Dresch, Evan Dayringer and David N. Arnosti.
David Arnosti
Stephanie Duperon Paradoxical Instability-Activity Relationship Defines a Novel Regulatory Pathway for Retinoblastoma Proteins. 2010. MBoC. 21 3890-3901 doi:10.1091/mbc.E10-06-0520

Authors: P Acharya, N Raj, MS Buckley, L Zhang, S Duperon, G Williams, RW Henry, and DN Arnosti.
David Arnosti
Kyung Y. Kim Acute Cobalt-Induced Lung Injury and the Role of Hypoxia-Inducible Factor 1α in Modulating Inflammation. 2010. Toxicol Sci. 116(2):673-81. doi:10.1093/toxsci/kfq155

Authors: Saini Y, Greenwood KK, Merrill C, Kim KY, Patial S, Parameswaran N, Harkema JR, LaPres JJ
John J. LaPres
Xiaozhou Liu Thermodynamic Modeling of Transcription: Sensitivity Analysis Differentiates Biological Mechanism from Mathematical Model-Induced Effects. 2010. BMC Systems Biology, 4:142. doi:10.1186/1752-0509-4-142

Authors: JM Dresch, X Liu, DN Arnosti and A Ay
David Arnosti
Sarah Maki Withanolide-A and Asiatic Acid Modulate Multiple Targets Associated with Amyloid-Beta Precursor Protein Processing and Amyloid-Beta Clearance. 2010. Journal of Natural Products, 73: 1196-1202. doi:10.1021/np900633j

Authors: Patil, S. P., Maki, S., Khedkar, S. A., Rigby, A. C., and Chan, C.
Christina Chan
Kendell M. Pawelec Cell adhesive behavior on thin polyelectrolyte multilayers: cells attempt to achieve homeostasis of its adhesion energy. 2010. Langmuir, 26(15): 12794-12802. doi:10.1021/la101689z

Authors: Mehrotra, S., Hunley, C., Pawelec, K. M., Zhang, L., Baek, S., Chan, C.
Christina Chan
M.J. Opperman The double-stranded RNA-dependent protein kinase differentially regulates insulin receptor substrates 1 and 2 in HepG2 cells 2010. Molecular Biology of the Cell. 21(19):3449-58 doi:10.1091/mbc.E10-06-0481

Authors: Yang, X., Nath, A., Opperman, M. J., and Chan, C
Christina Chan
Rebecca L. Renis Remodeling of Retinal Fatty Acids in an Animal Model of Diabetes. DIABETES, VOL. 59, January 2010. 59:219-227. doi:10.2337/db09-0728

Authors: Tikhonenko M, Lydic TA, Wang Y, Chen W, Opreanu M, Sochacki A, McSorley KM, Renis RL, Kern T, Jump DB, Reid GE, Busik JV.
Gavin E. Reid
Kyle A. Safran Enhanced Characterization of Singly Protonated Phosphopeptide Ions by Femtosecond Laser-induced Ionization/Dissociation Tandem Mass Spectrometry (fs-LID-MS/MS). 2010. J. Am. Soc. Mass Spectrom. 21: 2031–2040. doi:10.1016/j.jasms.2010.08.016

Authors: Smith SA, Kalcic CL, Safran KA, Stemmer PM, Dantus M, Reid GE.
Gavin E. Reid
Jason Thomas Bisamidate and Mixed Amine/Amidate NiN2S2 Complexes as Models for Nickel-Containing Acetyl Coenzyme A Synthase and Superoxide Dismutase: An Experimental and Computational Study. 2010. Inorg. Chem. 49:5393-5406. doi:10.1021/ic9023053

Authors: Mathrubootham V, Thomas J, Staples R, McCraken J, Shearer J, Hegg EL.
Gavin E. Reid
Student Publication Mentor
Autumn Donohue
Maiken Westphal
Regulation of isoprene emission from poplar leaves throughout a day. 2009. Plant Cell and Environment. 32:939-947.
Authors: Wiberley, A.E., A.R. Donohue, M.M. Westphal, T.D. Sharkey.
Thomas D. Sharkey
Joshua Bilsborrow Enhanced Conversion of Racemic α-Arylalanines to (R)-β-Arylalanines by Coupled Racemase/ Aminomutase Catalysis. 2009. J. Org. Chem. 74(18):6953-9.
Authors: Brad M. Cox, Joshua B. Bilsborrow, Kevin D. Walker.
Kevin D. Walker
Ertugrul Dalkic Integrative Analysis of Cancer Pathway Progression and Coherence. 2009. Proteomics Clin Appl. 3(4): 473–485.
Authors: Dalkic E, Nash DE, Fassia MK, Chan C.
Christina Chan
Anjali Rohatgi Scoring Ligand Similarity in Structure-Based Virtual Screening. 2009. J. Molecular Recognition 22(4) 280-292.
Authors: M. I. Zavodszky, A. Rohatgi, J. Van Voorst, H. Yan, and L. A. Kuhn
Leslie A. Kuhn

Arthur Manoli III

Andrew Sawin

Fatty acid desaturase4 of Arabidopsis encodes a protein distinct from characterized fatty acid desaturases. 2009. Plant J. 60(5):832-9.
Authors: Gao J, Ajjawi I, Manoli A, Sawin A, Xu C, Froehlich JE, Last RL, Benning C.
Christoph Benning
Erica Scheller The Design, Synthesis, and Study of High-Affinity, Highly Selective Geldanamycin Derivatives Targeting Plasmodium falciparum Heat Shock Protein Pfhsp. 2009. Submitted to Bioorganic and Medicinal Chemistry Letters
Authors: E. Chen, E. L. Scheller, Y. Shen, H. Omar, D. Kyle, L. A. Kuhn, and D. Wenkert
Leslie A. Kuhn
Lauren Locascio A Mechanism for Incorporation of Galectin-3 into the Spliceosome through Its Association with U1 snRNP. Biochemistry. 2009. 48, 7705–7712
Authors: Kevin C. Haudek, Patricia G. Voss, Lauren E. Locascio, John L. Wang, and Ronald J. Patterson.
John L. Wang
Kyung Y. Kim The Role of Hypoxia Inducible Factor 1 (HIF1 ) in Modulating Cobalt-Induced Lung Inflammation. 2009. Am J Physiol Lung Cell Mol Physiol., in press.
Authors: Saini Y, Kim KY, Lewandowski R, Bramble L, Harkema JR, LaPres JJ.
John J LaPres
Kendell M. Pawelec Time controlled protein release from layer-by-layer assembled multilayers functionalized agarose hydrogels. 2009. Advanced Functional Materials, 19: 1-12.
Authors: Mehrotra, S., Lynam, D., Maloney, R., Pawelec, K. M., Tuszynski, M., Lee, I., Chan, C., and Sakamoto, J.,
Christina Chan
Rebecca Renis Analysis of Retina and Erythrocyte Glycerophospholipid Alterations in a Rat Model of Type 1 Diabetes. 2009. JALA. 14: 383-399.
Authors: Lydic, T.A., Renis, R., Busik, J.V. and Reid, G.E.
Gavin E. Reid
Student Publication Mentor
Robert Findlan Using dynamic gene module map analysis to identify targets that modulate free fatty acid and tumor necrosis factor (TNF)-α induced cytotoxicity. Biotechnology Progress, 24(1):29-37. 2008.
Authors: Li, Z., Srivastava, S., Findlan, R., and Chan, C.,
Christina Chan
Bruce Fraser Characterization of active site variants of xanthine hydroxylase from Aspergillus nidulans. 2008. Arch Biochem Biophys. 470(1):44-53.
Authors: Li M, Müller TA, Fraser BA, Hausinger RP.
Robert P. Hausinger
Nitasha Ahluwalia Thermotoga maritima TM0298 is a highly thermostable mannitol dehydrogenase. 2008. Appl. Microbiol. Biotechnol. 81:485–495.
Authors: Song, S.H., N. Ahluwalia, Leduc, Y., Delbaere, L., and C. Vieille.
Claire Vieille
Seth Dickey Dissociation of the carbohydrate-binding and splicing activities of galectin-1. 2008. Arch. Biochem. Biophys., 478: 18-25.
Authors: Voss, P.G., Gray, R.M., Dickey, S.W., Wang, W., Park, J.W., Kasai, K., Hirabayashi, J., Patterson, R.J., and Wang, J.L.
John L. Wang
Joseph Melrose Brain region specificity of palmitic acid-induced Alzheimer-like changes in primary neurons. BMC Research Notes, 1: 20. 2008.
Authors:Patil, S., Balu, D., Melrose, J. and Chan, C
Christina Chan
Katherine Ruby Distinct effects on splicing of two monoclonal antibodies directed against the amino-terminal domain of galectin-3. 2008. Arch. Biochem. Biophys. 475: 100-108.
Authors: Gray, R.M., Davis, M.J., Ruby, K.M., Voss, P.G., Patterson, R.J., and Wang, J.L.
John L. Wang
Student Publication Mentor
James Sierakowski Substituent Effects on the Gas-Phase Fragmentation Reactions of Sulfonium Ion Containing Peptides. 2007. Rapid Commun. Mass Spectrom. 21: 1230-1238.
Authors: Sierakowski, J., Amunugama, M., Roberts, K.D and Reid, G.E.
Gavin E. Reid
Matt Moll A Heteromeric Plastidic Pyruvate Kinase Complex Involved in Seed Oil Biosynthesis in Arabidopsis. 2007. Plant Cell. Jun;19(6):2006-22
Authors: Andre C, Froehlich JE, Moll MR, Benning C.
Christoph Benning
Melody Campbell Metal ligand substitution and evidence for quinone formation in taurine/a-ketoglutarate dioxygenase. 2007. J. Inorg. Biochem. 101:797-808.
Authors: Grzyska, P. K., T. A. Müller, M. G. Campbell, and R. P. Hausinger.
Robert P. Hausinger
Brandon Guelette Indications of lipid signaling pathways in the phloem exudate of Arabidopsis thaliana and Perilla ocymoides. Current advances in the biochemistry and cell biology of plant lipids. 2007. Proceedings of the 17th International Symposium of Plant Lipids. C.Benning, J. Ohlrogge eds; Michigan State University; E. Lansing, USA; p.92-95.
Authors: Guelette, BS, Chamberlin,B, Benning, UF, and Hoffmann-Benning, S
Susanne Hoffmann-Benning
Robert Findlan
Natasha Upda
Stacey A Schroeder
Cell adhesion on polyelectrolyte multilayer coated poly(dimethylsiloxane) surfaces with varying topographies. Tissue Engineering, 13(8):2105-17. 2007.
Authors: Kidambi, S., Udpa, N, Schroeder, SA, Findlan, R, Lee, I, and Chan, C
Christina Chan
Joseph Melrose Involvement of astroglial ceramide in palmitic acid-induced Alzheimer-like changes in primary neurons. European Journal of Neuroscience, 26(8):2131-2141.
Authors: Patil, S., Melrose, J., and Chan, C.,
Christina Chan
Stephen Shaw
Matthew Yedwabnick
Identification of genes that regulate multiple cellular processes/ responses in the context of lipotoxicity in hepatoma cells. BMC Genomics 8:364. 2007.
Authors:Srivastava, S., Li, Z., Yang, X., Yedwabnick, M., Shaw, S., and Chan, C.
Christina Chan
Student Publication Mentor
Elizabeth Bartlett Identification of a unique splice site variant in SLC39A4 in bovine hereditary zinc deficiency, lethal trait A46: An anmial model of acrodermatitis enteropathica. 2006. Genomics. 88(4):521-526.
Authors: Vilma Yuzbasiyan-Gurkan and Elizabeth Bartlett
Vilma Yuzbasiyan-Gurkan, Depts of Microbiology & Molecular Genetics and Small Animal Clinical Sciences
Marci Baranski Effect of crystal freezing and small molecule binding on internal cavity size in a large protein: X-ray and docking studies of lipoxygenase at ambient and low temperature at 2.0 Ã resolution. J.  Acta Cryst D62:766-775, 2006.
Authors: Skrzypczak-Jankun E, Borbulevych OY, Zavodszky MI, Baranski MR, Padmanabhan K, Petricek V, Jankun
Maria I. Zavodszky
Zimin Zhao Maspin retards cell detachment via a novel interaction with the urokinase-type plasminogen activator/urokinase-type plasminogen activator receptor system. 2006. Cancer Research. 66(8) 4173-4181.
Authors: S. Yin, J. Lockett, Y. Meng, H Biliran, Jr., G.E. Blouse, N. Reddy, Z. Zhao, X. Lin, J. Anagli, M. Cher, S. Sheng
Sijie Sheng, Dept of Pathology, Wayne State University School of Medicine
Adam Cornish Phosphatidylglycerol biosynthesis in chloroplasts of Arabidopsis mutants deficient in acyl-ACP glycerol-3- phosphate acyltransferase. 2006. The Plant Journal. 47:296-309.
Authors: Changcheng Xu, Bin Yu, Adam J. Cornish, John E. Froehlich, and Christoph Benning
Christoph Benning
Anjali Rohatgi Discovering new classes of Brugia malayi asparaginyl-tRNA synthetase inhibitors and relating specificity to conformational change. 2006. J. Comput Aided Mol Des. 20(3):159-78.
Authors: Sai Chetan K. Sukuru, Thibaut Crepin, Youli Milev, Liesl C. Marsh, Jonathan B. Hill, Regan J. Anderson, Jonathan C. Morris, Anjali Rohatgi, Gavin O’Mahony, Morten Grøtli, Franck Danel, Malcolm G. P. Page, Michael Hartlein, Stephen Cusack, Michael A. Kron, Leslie A. Kuhn
Leslie Kuhn
Nancy Y. Lin Transport of galectin-3 between the nucleus and cytoplasm. II. Identification of the signal for nuclear export. 2006. Glycobiology vol. 16 no. 7 pp. 612–622.
Authors: Su-Yin Li, Peter J. Davidson, Nancy Y. Lin, Ronald J. Patterson, John L. Wang, and Eric J. Arnoys
John L. Wang
Alexis Masserang Palmitic acid-induced BACE1 upregulation and accumulation of C-terminal fragment of APP in primary cortical neurons. Neuroscience Lett. 406: 55–59.
Authors: Patil, S., Sheng, L., Masserang, A., and Chan, C
Christina Chan
Stephen M. Shaw
Matthew J. Yedwabnick
Using a state-space model with hidden variables to infer transcription factor activities. Bioinformatics 22(6): 747–754. 2006.
Authors:Li, Z., Shaw, S. M., Yedwabnick, M. J., and Chan, C.,
Lee Kroos
Student Publication Mentor
Jennifer Loconto
Scott J. Nowak
Identification of the Ω4406 Regulatory Region, a Developmental Promoter of Myxococcus xanthus, and a DNA Segment Responsible for Chromosomal Position-Dependent Inhibition of Gene Expression. 2005. J. of Bacteriology, 4149-4162.
Authors: Jennifer Loconto, Poorna Viswanathan, Scott J. Nowak, Monica Gloudemans, Lee Kroos

Lee Kroos
Katie Zobeck Human RNA Polymerase II Elongation in Slow Motion: Role of the TFIIF RAP74 .1 Helix in Nucleoside Triphosphate-Driven Translocation. 2005. Molec Cell Biol. Vol. 25, No. 9.
Authors: Chunfen Zhang, Katie L. Zobeck, and Zachary F. Burton
Zachary Burton
Sarah Ward Purification and properties of the Klebsiella aerogenes UreE metal-binding domain, a functional metallochaperone of urease. 2005. J. Bacteriol. 187:3581-3585.
Authors: Mulrooney, S. B., S. K. Ward, and R. P. Hausinger.
Robert P. Hausinger
Greta R. Monterosso Steady-State and Transient Kinetic Analyses of Taurine/R-Ketoglutarate Dioxygenase: Effects of Oxygen Concentration, Alternative Sulfonates, and Active-Site Variants on the FeIV-oxo Intermediate. 2005. Biochemistry. 44, 3845-3855.
Authors: Piotr K. Grzyska, Matthew J. Ryle, Greta R. Monterosso, Jian Liu, David P. Ballou,| and Robert P. Hausinger
Robert P. Hausinger
Student Publication Mentor
Anthony T. Lagina III Physiological and biochemical defects in functional interactions of mitochondrial DNA polymerase and DNA-binding mutants of single-stranded DNA-binding protein. 2004. J.Biol. Chem. 279: 17047-17053.
Authors: Lefai E, Calleja M, Ruiz de Mena I, Lagina III AT, Kaguni LS, Garesse R.
Laurie S. Kaguni
Sze-ling Ng A tethered catalysis two-hybrid system to identify protein-protein interactions requiring post-translational modifications. 2004. Nature Biotechnology (22)888-892.
Authors: Guo, D, Hazbun, T, Xu, X, Ng, S-L, Fields, S, and Kuo, M-H.
Min-Hao Kuo
Greta R. Monterosso Direct Detection of Oxygen Intermediates in the Non-Heme Fe Enzyme Taurine/alpha-Ketoglutarate Dioxygenase. 2004. J. Am. Chem. Soc. Biochemistry. 44, 3845-3855.
Authors: Proshlyakov, D, Henshaw, T, Monterosso, G, Ryle, M, and Hausinger, R.
Robert P. Hausinger
Mary E. Piper Characterization of the branching patterns of glycogen branching enzyme truncated on the N-terminus. 2004. Archives of Biochemistry and Biophysics 418:34-38.
Authors: Devillers, C., Piper, M., Ballicora, M., Preiss, J.
Jack Preiss
Woo Moon Efficient production of recombinant human transcription factor IIE. 2004. Protein Expression and Purification. 34:317–323.
Authors: Woo J. Moon, Jessica A. Apostol, Aaron J. McBride, Lata I. Shukla, Arik Dvir, Zachary F. Burton
Zachary Burton
Jennifer Dubay An assay for adenosine 5'-diphosphate (ADP)-glucose pyrophosphorylase that measures the synthesis of radioactive ADP-glucose with glycogen synthase. Analytical Biochemistry. 324 (2004) 52-59.
Authors: Yep, A., Bejar, C., Ballicora, M., Dubay, J., Iglesias, A., Preiss, J.
Jack Preiss
Student Publication Mentor
Michael E. Ruckle
Todd A. Lydic
The sulfolipids 2'-O-acyl-sulfoquinovosyldiacylglycerol and sulfoquinovosyldiacylglycerol are absent from a Chlamydomonas reinhardtii mutant deleted in SQD1. Plant Physiol. 2003. Oct;133(2):864-74.
Authors: Riekhof WR, Ruckle ME, Lydic TA, Sears BB, Benning C.
Christoph Benning
Daniel C. Ducat Overcoming obtacles in DNA sequencing of expression plasmids for short interfering RNAs. 2003. Biotechniques 34:(6)1143-1144.
Authors: Ducat DC, Herrera FJ, Triezenberg, SJ.
Steven J. Triezenberg
Tommy Auchtung Intrinsic tryptophan fluorescence as a probe of metal and a-ketoglutarate binding to TfdA, a mononuclear non-heme iron oxygenase. 2003. J. Inorg. Biochem. 93:66-70.
Authors: Dunning Hotopp, J. C., T. A. Auchtung, D. A. Hogan, and R. P. Hausinger.
Robert P. Hausinger
Student Publication Mentor
Christopher Eakin The pgp1 mutant locus of Arabidopsis encodes a phosphatidylglycerolphosphate synthase with impaired activity. Plant Physiol. 2002 Jun;129(2):594-604.
Authors: Xu C, Hartel H, Wada H, Hagio M, Yu B, Eakin C, Benning C.
Christoph Benning
Janel D. Funk A key role for the α-1 helix of human RAP74 in the initiation and elongation of RNA chains. 2002. J. Biol. Chem. 277, 46998-47003.
Authors: Funk JD, Nedialkov YA, Xu D, Burton ZF
Zach Burton
Jamie Hubert Digalactosyldiacylglcyerol synthesis in chloroplasts of the Arabidopsis dgd1 mutant. 2002. Plant Physiol. 128:885-895.
Authors: Klaus, D., Härtel, H., Fitzpatrick, L., Froehlich, J., Hubert, J., Benning, C., and P. Dörmann.
Christoph Benning
Brooke A. Woolley Anticoagulants prevent monocrotaline-induced hepatic parenchymal cell injury but not endothelial cell injury in the rat. Toxicol Appl Pharmacol 2002 May 1;180(3):186-96.
Authors: Copple BL, Woolley B, Banes A, Ganey PE, Roth RA.
Robert A. Roth
Student Publication Mentor
Anthony V. Ludlam Essential amino acids of Escherichia coli DnaC protein in an N-terminal domain interact with DnaB helicase. 2001. J. Biol. Chem. 276:27345-27353.
Authors: Ludlam AV, McNatt MW, Carr K, Kaguni JM.
Jon M. Kaguni
Stacy (Trzos) Bloom Two unrelated phosphoenolpyruvate carboxylase polypeptides physically interact in the high molecular mass isoforms of this enzyme in the unicellular green alga Selenastrum minutum. J Biol Chem. 2001 Apr 20;276(16):12588-97.
Authors: Rivoal J, Trzos S, Gage DA, Plaxton WC, Turpin DH.
Douglas A. Gage
Bethany Strunk
Jelani Thomas
Kevin L. Wright
Brandon A. Pabst
Role of CtBP in transcriptional repression by the Drosophila giant protein. 2001. Dev Biol. Nov 15;239(2):229-40.
Authors: Strunk B, Struffi P, Wright K, Pabst B, Thomas J, Qin L, Arnosti DN.
David Arnosti
Student Publication Mentor
Anthony T. Lagina III Overexpression of the catalytic subunit of DNA polymerase γ results in depletion of mitochondrial DNA in Drosophila melanogaster. 2000. Mol Gen Genet. Sep: 264( 1-2):37-46.
Authors: Lefai E, Calleja M, Ruiz de Mena I, Lagina III AT, Kaguni LS, Garesse R.
Laurie S. Kaguni
Kyle P. Openo Galectin-3 expression and subcellular localization in senescent human fibroblasts. 2000. Exp Cell Res. Mar 15;255(2):278-90.
Authors: Openo KP, Kadrofske MM, Patterson RJ, Wang JL.
John L. Wang
Catherine E. Yurk
Roxane L. Amey
Amelia R. Anderson
Sarah Moore
dCtBP dependent and independent repression activities of the Drosophila "Knirps protein" 2000. Mol. Cell. Biol. 20: 7247-7258.
Authors: Keller SA, Mao Y, Struffi P, Margulies C, Yurk, CE, Anderson AR, Amey RL, Moore S, Ebels JM, Foley K, Corado M, Arnosti DN
David Arnosti
Student Publication Mentor
Gavin F. Hewitt
Tory Priputin
Bethany Strunk
Roxane L. Amey
Brandon A. Pabst
Transcriptional repression by the Drosophila Giant protein: cis element positioning provides an alternative means of interpreting an effector gradient. 1999. Development 126 (6) 1201-1210.
Authors: Hewitt GF, Strunk BS, Priputin T, Wang X-D, Amey R, Pabst, BA, Kosman D, Reinitz J, Arnosti, D.N.
David Arnosti
Michael E. Young GTP promotes the formation of early-import intermediates but is not required during the translocation step of protein import into chloroplasts. 1999. Plant Physiol. 121:237-243.
Authors: Young ME, Keegstra K, Froehlich JE
Kenneth Keegstra
Tommy Auchtung Cloning and characterization of a sulfonate/a-ketoglutarate dioxygenase from Saccharomyces cerevisiae. 1999. J. Bacteriol. 181:5876-5879.
Authors: Hogan,D. A., T. A. Auchtung, and R. P. Hausinger.
Robert P. Hausinger

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