Department of Physiology and Biophysics

Publication Highlights

Publication Highlights in 2015-17

  Renda F, Pellacani C, Strunov A, Bucciarelli E, Naim V, Bosso G, Kiseleva E, Bonaccorsi S, Sharp DJ, Khodjakov A, Gatti M, Somma MP. The Drosophila orthologue of the INT6 onco-protein regulates mitotic microtubule growth and kinetochore structure. PLoS Genet. 2017 May 15;13(5):e1006784.
  Hirsch RE, Sibmooh N, Fucharoen S, Friedman JM. HbE/β-Thalassemia and Oxidative Stress: The Key to Pathophysiological Mechanisms and Novel Therapeutics. Antioxid Redox Signal. 2017 May 10;26(14):794-813.
  Cui MH, Suzuka SM, Branch NA, Ambadipudi K, Thangaswamy S, Acharya SA, Billett HH, Branch CA. Brain neurochemical and hemodynamic findings in the NY1DD mouse model of mild sickle cell disease. NMR Biomed. 2017 May;30(5). doi: 10.1002/nbm.3692.
  Nemeria NS, Gerfen G, Guevara E, Nareddy PR, Szostak M, Jordan F. The human Krebs cycle 2-oxoglutarate dehydrogenase complex creates an additional source of superoxide/hydrogen peroxide from 2-oxoadipate as alternative substrate. Free Radic Biol Med. 2017 Apr 21;108:644-654.
  Rodionova IA, Vetting MW, Li X, Almo SC, Osterman AL, Rodionov DA. A novel bifunctional transcriptional regulator of riboflavin metabolism in Archaea. Nucleic Acids Res. 2017 Apr 20;45(7):3785-3799.
  Park HB, Sampathkumar P, Perez CE, Lee JH, Tran J, Bonanno JB, Hallem EA, Almo SC, Crawford JM. Stilbene epoxidation and detoxification in a Photorhabdus luminescens-nematode symbiosis. J Biol Chem. 2017 Apr 21;292(16):6680-6694.
  Draganski AR, Friedman JM, Ludescher RD. Solvent-Slaved Dynamic Processes Observed by Tryptophan Phosphorescence of Human Serum Albumin. Biophys J. 2017 Mar 14;112(5):881-891.
  Upla P, Kim SJ, Sampathkumar P, Dutta K, Cahill SM, Chemmama IE, Williams R, Bonanno JB, Rice WJ, Stokes DL, Cowburn D, Almo SC, Sali A, Rout MP, Fernandez-Martinez J. Molecular Architecture of the Major Membrane Ring Component of the Nuclear Pore Complex. Structure. 2017 Mar 7;25(3):434-445.
  Lázár-Molnár E, Scandiuzzi L, Basu I, Quinn T, Sylvestre E, Palmieri E, Ramagopal UA, Nathenson SG, Guha C, Almo SC. Structure-guided development of a high-affinity human Programmed Cell Death-1: Implications for tumor immunotherapy. EBioMedicine. 2017 Mar;17:30-44.
  Karp JM, Sparks S, Cowburn D. Effects of FGFR2 kinase activation loop dynamics on catalytic activity. PLoS Comput Biol. 2017 Feb 2;13(2):e1005360.
  Cui MH, Suzuka SM, Branch NA, Ambadipudi K, Thangaswamy S, Acharya SA, Billett HH, Branch CA. Brain neurochemical and hemodynamic findings in the NY1DD mouse model of mild sickle cell disease. NMR Biomed. 2017 Feb 10. doi: 10.1002/nbm.3692. [Epub ahead of print]
  Jani VP, Jelvani A, Moges S, Nacharaju P, Roche C, Dantsker D, Palmer A, Friedman JM, Cabrales P. Polyethylene Glycol Camouflaged Earthworm Hemoglobin. PLoS One. 2017 Jan 18;12(1):e0170041.
  Samanta D, Guo H, Rubinstein R, Ramagopal UA, Almo SC. Structural, mutational and biophysical studies reveal a canonical mode of molecular recognition between immune receptor TIGIT and nectin-2. Mol Immunol. 2017 Jan;81:151-159.
  Metcalf B, Chuang C, Dufu K, Patel MP, Silva-Garcia A, Johnson C, Lu Q, Partridge JR, Patskovska L, Patskovsky Y, Almo SC, Jacobson MP, Hua L, Xu Q, Gwaltney SL 2nd, Yee C, Harris J, Morgan BP, James J, Xu D, Hutchaleelaha A, Paulvannan K, Oksenberg D, Li Z. Discovery of GBT440, an Orally Bioavailable R-State Stabilizer of Sickle Cell Hemoglobin. ACS Med Chem Lett. 2017 Jan 23;8(3):321-326.
  Jakes KS. The Colicin E1 TolC Box: Identification of a Domain Required for Colicin E1 Cytotoxicity and TolC Binding. J Bacteriol. 2016 Dec 13;199(1). pii: e00412-16.
  Mihu MR, Cabral V, Pattabhi R, Tar MT, Davies KP, Friedman AJ, Martinez LR, Nosanchuk JD. Sustained Nitric Oxide-Releasing Nanoparticles Interfere with Methicillin-Resistant Staphylococcus aureus Adhesion and Biofilm Formation in a Rat Central Venous Catheter Model. Antimicrob Agents Chemother. 2016 Dec 27;61(1).
  Jerschow E, Edin ML, Pelletier T, Abuzeid WM, Akbar NA, Gibber M, Fried M, Lih FB, Gruzdev A, Bradbury JA, Han W, Hudes G, Keskin T, Schuster VL, Spivack S, Zeldin DC, Rosenstreich D. Plasma 15-Hydroxyeicosatetraenoic Acid Predicts Treatment Outcomes in Aspirin-Exacerbated Respiratory Disease. J Allergy Clin Immunol Pract. 2016 Dec 29. pii: S2213-2198(16)30579-7. doi: 10.1016/j.jaip.2016.11.021. [Epub ahead of print]
  Liu W, Ramagopal U, Cheng H, Bonanno JB, Toro R, Bhosle R, Zhan C, Almo SC. Crystal Structure of the Complex of Human FasL and Its Decoy Receptor DcR3. Structure. 2016 Nov 1;24(11):2016-2023.
  Batabyal D, Lewis-Ballester A, Yeh SR, Poulos TL. A Comparative Analysis of the Effector Role of Redox Partner Binding in Bacterial P450s. Biochemistry. 2016 Nov 29;55(47):6517-6523.
  Wang Y, Wach JY, Sheehan P, Zhong C, Zhan C, Harris R, Almo SC, Bishop J, Haggarty SJ, Ramek A, Berry KN, O'Herin C, Koehler AN, Hung AW, Young DW. Diversity-Oriented Synthesis as a Strategy for Fragment Evolution against GSK3β. ACS Med Chem Lett. 2016 Jul 14;7(9):852-6.
  Charafeddine RA, Nosanchuk JD, Sharp DJ. Targeting Microtubules for Wound Repair. Adv Wound Care (New Rochelle). 2016 Oct 1;5(10):444-454.
  Liu D, Cowburn D. Segmental Isotopic Labeling of Proteins for NMR Study Using Intein Technology. Methods Mol Biol. 2017; 1495:131-145.
  Lewis-Ballester A, Forouhar F, Kim SM, Lew S, Wang Y, Karkashon S, Seetharaman J, Batabyal D, Chiang BY, Hussain M, Correia MA, Yeh SR, Tong L. Molecular basis for catalysis and substrate-mediated cellular stabilization of human tryptophan 2,3-dioxygenase. Sci Rep. 2016 Oct 20;6:35169.
  Stern JM, Moazami S, Qiu Y, Kurland I, Chen Z, Agalliu I, Burk R, Davies KP. Evidence for a distinct gut microbiome in kidney stone formers compared to non-stone formers. Urolithiasis. 2016 Oct; 44(5):399-407.
  Malvestio LM, Celes MR, Jelicks LA, Tanowitz HB, Prado CM. Dantrolene improves in vitro structural changes induced by serum from Trypanosoma cruzi-infected mice. Parasitol Res. 2016 Oct 11.
  Kim N, Heo M, Fleysher R, Branch CA, Lipton ML. Two step Gaussian mixture model approach to characterize white matter disease based on distributional changes. J Neurosci Methods. 2016 Sep 1;270:156-64.
  Hirsch RE, Sibmooh N, Fucharoen S, Friedman JM. HbE/β-thalassemia and Oxidative Stress: The Key to Pathophysiological Mechanisms & Novel Therapeutics. Antioxid Redox Signal. 2016 Sep 21. [Epub ahead of print]
  Wang Y, Deng GG, Davies KP. Novel insights into development of diabetic bladder disorder provided by metabolomic analysis of the rat nondiabetic and diabetic detrusor and urothelial layer. Am J Physiol Endocrinol Metab. 2016 Aug 1;311(2):E471-9.
  Briggs KJ, Koivunen P, Cao S, Backus KM, Olenchock BA, Patel H, Zhang Q, Signoretti S, Gerfen GJ, Richardson AL, Witkiewicz AK, Cravatt BF, Clardy J, Kaelin WG Jr. Paracrine Induction of HIF by Glutamate in Breast Cancer: EglN1 Senses Cysteine. Cell. 2016 Jun 30; 166(1):126-39.
  Arora A, Deniskin R, Sosa Y, Nishtala SN, Henrich PP, Kumar TR, Fidock DA, Akabas MH. Substrate and inhibitor specificity of the Plasmodium berghei Equilibrative Nucleoside Transporter Type 1 (PbENT1). Mol Pharmacol. 2016 Jun; 89(6):678-85.
  Strauss SB, Kim N, Branch CA, Kahn ME, Kim M, Lipton RB, Provataris JM, Scholl HF, Zimmerman ME, Lipton ML. Bidirectional Changes in Anisotropy Are Associated with Outcomes in Mild Traumatic Brain Injury. AJNR Am J Neuroradiol. 2016 Jun 9.
  Nelson G, Kirian RA, Weierstall U, Zatsepin NA, Faragó T, Baumbach T, Wilde F, Niesler FB, Zimmer B, Ishigami I, Hikita M, Bajt S, Yeh SR, Rousseau DL, Chapman HN, Spence JC, Heymann M. Three-dimensional-printed gas dynamic virtual nozzles for x-ray laser sample delivery. Opt Express. 2016 May 30; 24(11):11515-30.
  Alvarez L, Lewis Ballester A, Roitberg AE, Estrin DA, Yeh SR, Marti MA, Capece L. Structural study of a flexible active site loop in human indoleamine 2,3-dioxygenase and its functional implications. Biochemistry. 2016 May 17; 55(19):2785-93
  Raveh B, Karp JM, Sparks S, Dutta K, Rout MP, Sali A, Cowburn D. Slide-and-exchange mechanism for rapid and selective transport through the nuclear pore complex. Proc Natl Acad Sci U S A. 2016 May 3; 113(18):E2489-97.
  Sockolosky JT, Dougan M, Ingram JR, Ho CC, Kauke MJ, Almo SC, Ploegh HL, Garcia KC. Durable antitumor responses to CD47 blockade require adaptive immune stimulation. Proc Natl Acad Sci U S A. 2016 May 10; 113(19):E2646-54.
  Chatterjee C, Benoit MP, DePaoli V, Diaz-Valencia JD, Asenjo AB, Gerfen G, Sharp DJ, Sosa H. Distinct Interaction Modes of the Kinesin-13 Motor Domain with the Microtubule. Biophys J. 2016 Apr 12;110(7):1593-604.
  Liang Y, Zeng J, Jelicks L, Ma S, Liu J, Mei J, Perez-Soler R, Zou Y. Pax5 Re-Expression In H460 Cells Treated With The Combination Of Demethylating Agent And Histone Deacetylase Inhibitor Is Associated With The Enhancement Of P53 Binding To Pax5 Promoter Region. Curr Cancer Drug Targets. 2016 Mar 31. [Epub ahead of print]
  Strader MB, Kassa T, Meng F, Wood FB, Hirsch RE, Friedman JM, Alayash AI. Oxidative instability of hemoglobin E (ß26 Glu?Lys) is increased in the presence of free a subunits and reversed by a-hemoglobin stabilizing protein (AHSP): Relevance to HbE/ß-thalassemia. Redox Biol. 2016 Mar 10;8:363-374.
  Brodin NP, Partanen A, Asp P, Branch CA, Guha C, Tomé WA. A simple method for determining the coagulation threshold temperature of transparent tissue-mimicking thermal therapy gel phantoms: Validated by magnetic resonance imaging thermometry. Med Phys. 2016 Mar;43(3):1167-74.
  Smith TL, Yuan Z, Cardó-Vila M, Sanchez Claros C, Adem A, Cui MH, Branch CA, Gelovani JG, Libutti SK, Sidman RL, Pasqualini R, Arap W. AAVP displaying octreotide for ligand-directed therapeutic transgene delivery in neuroendocrine tumors of the pancreas. Proc Natl Acad Sci U S A. 2016 Mar 1;113(9):2466-71.
  Stevens AJ, Brown ZZ, Shah NH, Sekar G, Cowburn D, Muir TW. Design of a Split Intein with Exceptional Protein Splicing Activity. J Am Chem Soc. 2016 Feb 24;138(7):2162-5.
  Choi E, Branch C, Cui MH, Yazdanbakhsh K, Mohandas N, Billett HH, Shi PA. No evidence for cell activation or brain vaso-occlusion with plerixafor mobilization in sickle cell mice. Blood Cells Mol Dis. 2016 Mar;57:67-70.
  Kerrigan N, Akabas MH, Betzler TF, Castaldi M, Kelly MS, Levy AS, Reichgott MJ, Ruberman L, Dolan SM. Implementing competency based admissions at the Albert Einstein College of Medicine. Med Educ Online. 2016 Feb 3;21:30000.
  Jerschow E, Ren Z, Hudes G, Sanak M, Morales E, Schuster V, Spivack SD, Rosenstreich D. Utility of low-dose oral aspirin challenges for diagnosis of aspirin-exacerbated respiratory disease. Ann Allergy Asthma Immunol. 2016 Apr;116(4):321-328.
  Kienker PK, Wu Z, Finkelstein A. Topography of the TH5 Segment in the Diphtheria Toxin T-Domain Channel. J Membr Biol. 2016 Apr;249(1-2):181-96.
  Ahmadi MS, Lee HH, Sanchez DA, Friedman AJ, Tar MT, Davies KP, Nosanchuk JD, Martinez LR. Sustained Nitric Oxide-Releasing Nanoparticles Induce Cell Death in Candida albicans Yeast and Hyphal Cells, Preventing Biofilm Formation In Vitro and in a Rodent Central Venous Catheter Model. Antimicrob Agents Chemother. 2016 Mar 25;60(4):2185-94.
  Vetting MW, Bouvier JT, Gerlt JA, Almo SC. Purification, crystallization and structural elucidation of D-galactaro-1,4-lactone cycloisomerase from Agrobacterium tumefaciens involved in pectin degradation. Acta Crystallogr F Struct Biol Commun. 2016 Jan 1;72(Pt 1):36-41.
  Vladimirova A, Patskovsky Y, Fedorov AA, Bonanno JB, Fedorov EV, Toro R, Hillerich B, Seidel RD, Richards NG, Almo SC, Raushel FM. Substrate Distortion and the Catalytic Reaction Mechanism of 5-Carboxyvanillate Decarboxylase. J Am Chem Soc. 2016 Jan 27;138(3):826-36.
  Malachowski WP, Winters M, DuHadaway JB, Lewis-Ballester A, Badir S, Wai J, Rahman M, Sheikh E, LaLonde JM, Yeh SR, Prendergast GC, Muller AJ. O-alkylhydroxylamines as rationally-designed mechanism-based inhibitors of indoleamine 2,3-dioxygenase-1. Eur J Med Chem. 2016 Jan 27; 108:564-76.
  Deniskin R, Frame IJ, Sosa Y, Akabas MH. Targeting the Plasmodium vivax equilibrative nucleoside transporter 1 (PvENT1) for antimalarial drug development. Int J Parasitol Drugs Drug Resist. 2015 Nov 28;6(1):1-11.
  Liang H, Nacharaju P, Friedman A, Friedman JM. Nitric oxide generating/releasing materials. Future Sci OA. 2015;1(1).
  Akabas MH. Cysteine Modification: Probing Channel Structure, Function and Conformational Change. Adv Exp Med Biol. 2015; 869:25-54.
  Cabrales P, Ortiz D, Friedman JM. NO supplementation for transfusion medicine and cardiovascular applications. Future Sci OA. 2015; 1(1). pii: 51.
  Li X, Black M, Xia S, Zhan C, Bertisch HC, Branch CA, DeLisi LE. Subcortical structure alterations impact language processing in individuals with schizophrenia and those at high genetic risk. Schizophr Res. 2015 Dec; 169(1-3):76-82.
  Cui MH, Jayalakshmi K, Liu L, Guha C, Branch CA. In vivo (1) H MRS and (31) P MRSI of the response to cyclocreatine in transgenic mouse liver expressing creatine kinase. NMR Biomed. 2015 Dec; 28(12):1634-44.
  Cui MH, Branch CA, Cahill SM, Quinn TJ, Adem A, Libutti SK, Yuan Z. In vivo proton MR spectroscopy of pancreatic neuroendocrine tumors in a multiple endocrine neoplasia type 1 conditional knockout mouse model. Magn Reson Med. 2015 Nov; 74(5):1221-6.
  Ahn YO, Lee HJ, Kaluka D, Yeh SR, Rousseau DL, Ädelroth P, Gennis RB. The two transmembrane helices of CcoP are sufficient for assembly of the cbb3-type heme-copper oxygen reductase from Vibrio cholerae. Biochim Biophys Acta. 2015 Oct; 1847(10):1231-9.
  Leo L, Yu W, D'Rozario M, Waddell EA, Marenda DR, Baird MA, Davidson MW, Zhou B, Wu B, Baker L, Sharp DJ, Baas PW. Vertebrate Fidgetin Restrains Axonal Growth by Severing Labile Domains of Microtubules. Cell Rep. 2015 Sep 22; 12(11):1723-30.
  Hough LE, Dutta K, Sparks S, Temel DB, Kamal A, Tetenbaum-Novatt J, Rout MP, Cowburn D. The molecular mechanism of nuclear transport revealed by atomic scale measurements. Elife. 2015 Sep 15;4
  Giacco F, Du X, Carratú A, Gerfen GJ, D'Apolito M, Giardino I, Rasola A, Marin O, Divakaruni AS, Murphy AN, Shah MS, Brownlee M. GLP-1 Cleavage Product Reverses Persistent ROS Generation After Transient Hyperglycemia by Disrupting an ROS-Generating Feedback Loop. Diabetes. 2015 Sep; 64(9):3273-84.
  Hayden EY, Kaur P, Williams TL, Matsui H, Yeh SR, Rousseau DL. Heme Stabilization of α-Synuclein Oligomers during Amyloid Fibril Formation. Biochemistry. 2015 Aug 4; 54(30):4599-610.
  Davies KP. Development and therapeutic applications of nitric oxide releasing materials to treat erectile dysfunction. Future Sci OA. 2015 Aug;1(1). pii: FSO53.
  Egawa T, Haber J, Fee JA, Yeh SR, Rousseau DL. Interactions of Cu(B) with Carbon Monoxide in Cytochrome c Oxidase: Origin of the Anomalous Correlation between the Fe-CO and C-O Stretching Frequencies. J Phys Chem B. 2015 Jul 9; 119(27):8509-20.
  Frame IJ, Deniskin R, Arora A, Akabas MH. Purine import into malaria parasites as a target for antimalarial drug development. Ann N Y Acad Sci. 2015 Apr; 1342(1):19-28.
  Fu S, Davies KP. Opiorphin-dependent upregulation of CD73 (a key enzyme in the adenosine signaling pathway) in corporal smooth muscle cells exposed to hypoxic conditions and in corporal tissue in pre-priapic sickle cell mice. Int J Impot Res. 2015 Jul; 27(4):140-5.
  Thomas K, Cameron SA, Almo SC, Burgos ES, Gulab SA, Schramm VL. Active Site and Remote Contributions to Catalysis in Methylthioadenosine Nucleosidases. Biochemistry. 2015 Apr 21; 54(15):2520-9.
  Thomson R, Finkelstein A. Human trypanolytic factor APOL1 forms pH-gated cation-selective channels in planar lipid bilayers: Relevance to trypanosome lysis. Proc Natl Acad Sci U S A. 2015 Mar 3; 112(9):2894-9.
  Kaluka D, Batabyal D, Chiang BY, Poulos TL, Yeh SR. Spectroscopic and Mutagenesis Studies of Human PGRMC1. Biochemistry. 2015 Mar 3; 54(8):1638-47.
  Frame IJ, Deniskin R, Rinderspacher A, Katz F, Deng SX, Moir RD, Adjalley SH, Coburn-Flynn O, Fidock DA, Willis IM, Landry DW, Akabas MH. Yeast-Based High-Throughput Screen Identifies Plasmodium falciparum Equilibrative Nucleoside Transporter 1 Inhibitors That Kill Malaria Parasites. ACS Chem Biol. 2015 Mar 20; 10(3):775-83.
  Akhavan A, Murphy-Chutorian B, Friedman A. Pediatric Dermatology Training During Residency: A Survey of the 2014 Graduating Residents. Pediatr Dermatol. 2015 May-Jun; 32(3):327-32.
  Baltazar LM, Krausz AE, Souza AC, Adler BL, Landriscina A, Musaev T, Nosanchuk JD, Friedman AJ. Trichophyton rubrum is Inhibited by Free and Nanoparticle Encapsulated Curcumin by Induction of Nitrosative Stress after Photodynamic Activation. PLoS One. 2015 Mar 24; 10(3):e0120179.
  Krausz AE, Adler BL, Landriscina A, Rosen JM, Musaev T, Nosanchuk JD, Friedman AJ. Biafine topical emulsion accelerates excisional and burn wound healing in mice. Arch Dermatol Res. 2015 Sep; 307(7):583-94.
  Baltazar LM, Ray A, Santos DA, Cisalpino PS, Friedman AJ, Nosanchuk JD. Antimicrobial photodynamic therapy: an effective alternative approach to control fungal infections. Front Microbiol. 2015 Mar 13; 6:202.
  Schiffmiller A, Finkelstein A. Ion Conductance of the Stem of the Anthrax Toxin Channel during Lethal Factor Translocation. J Mol Biol. 2015 Mar 27; 427(6 Pt A):1211-23.
  Charafeddine RA, Makdisi J, Schairer D, O'Rourke BP, Diaz-Valencia JD, Chouake J, Kutner A, Krausz A, Adler B, Nacharaju P, Liang H, Mukherjee S, Friedman JM, Friedman A, Nosanchuk JD, Sharp DJ. Fidgetin-Like 2: A Microtubule-Based Regulator of Wound Healing. J Invest Dermatol. 2015 Sep; 135(9):2309-18.
  Malashkevich VN, Higgins CD, Almo SC, Lai JR. A Switch from Parallel to Antiparallel Strand Orientation in a Coiled-Coil X-Ray Structure via Two Core Hydrophobic Mutations. Biopolymers. 2015 May;104(3):178-85.
  Kienker PK, Wu Z, Finkelstein A. Mapping the membrane topography of the TH6-TH7 segment of the diphtheria toxin T-domain channel. J Gen Physiol. 2015 Feb; 145(2):107-25.
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