Research Collaborate Lab Bench


Our faculty, collaborators, and visitors/users have published these molecular biophysics articles.

Mett RR, Hyde JS. Gordon Coupler with Inductive or Capacitive Iris for Small EPR Resonators for Aqueous Samples. Appl Magn Reson (2022).

Perry-Hauser NA, Hopkins JB, Zhuo Y, Zheng C, Perez I, Schultz KM, Vishnivetskiy SA, Kaya AI, Sharma P, Dalby KN, Chung KY, Klug CS, Gurevich VV, Iverson TM. The Two Non-Visual Arrestins Engage ERK2 Differently. J Mol Biol. 2022 Apr 15;434(7):167465. doi: 10.1016/j.jmb.2022.167465. Epub 2022 Jan 22. PMID: 35077767; PMCID: PMC8977243.

Hyde JS, Strangeway RA, Sidabras JW. Dispersion EPR: Considerations for Low-Frequency Experiments. Appl Magn Reson. 2022 Jan;53(1):193-206. doi: 10.1007/s00723-021-01352-z. Epub 2021 May 29. PMID: 35464635; PMCID: PMC9030583.

Teucher M, Sidabras JW, Schnegg A. Milliwatt Three- and Four-Pulse Double Electron Electron Resonance for Protein Structure Determination. Phys Chem Chem Phys. 2022 May.


Stein N, Subczynski WK. Differences in the properties of porcine cortical and nuclear fiber cell plasma membranes revealed by saturation recovery EPR spin labeling measurements. Exp Eye Res. 2021; 206:108536. doi: 10.1016/j.exer.2021.108536. PMID: 33716012. PMCID: PMC8139366

Campanella AJ, Nguyen MT, Zhang J, Ngendahimana T, Antholine WE, Eaton GR, Eaton SS, Glezakou VA, Zadrozny JM. Ligand control of low-frequency electron paramagnetic resonance linewidth in Cr(III) complexes. Dalton Trans. 2021;50(15):5342-5350. doi: 10.1039/d1dt00066g. PMID: 33881070.

Hyde JS, Strangeway RA, Sidabras JW. Dispersion EPR: Considerations for Low-Frequency Experiments. Appl Magn Reson. 2022 Jan;53(1):193-206. doi: 10.1007/s00723-021-01352-z. PMID: 35464635; PMCID: PMC9030583.

Subczynski WK, Widomska J, Stein N, Swartz H. Factors Determining Barrier Properties to Oxygen Transport Across Model and Cell Plasma Membranes Based on EPR Spin-Label Oximetry. Appl Magn Reson. 2021.

Markiewicz M, Szczelina R, Milanovic B, Subczynski WK, Pasenkiewicz-Gierula M. Chirality affects cholesterol-oxysterol association in water, a computational study. Comput Struct Biotechnol J. 2021 Jul 26;19:4319-4335. doi: 10.1016/j.csbj.2021.07.022. PMID: 34429850; PMCID: PMC8361299.

Stein N, Subczynski WK. Oxygen Transport Parameter in Plasma Membrane of Eye Lens Fiber Cells by Saturation Recovery EPR. Appl Magn Reson. 2021 Jan;52(1):61-80. doi: 10.1007/s00723-020-01237-7. PMID: 33776217; PMCID: PMC7992188.

Subczynski W K, Pasenkiewicz-Gierula M, Widomska J, Stein N. Role of cholesterol in maintaining the physical properties of the plasma membrane. In: Cholesterol: from Biophysics to the Clinics, AN Bukiya and AM Dopico Eds, Elsevier, 2021.

Klug CS, Lerch MT, Feix JB. Applications of Nitroxide Spin Labels to Structural Biology. In: Ouari O, Gigmes D, editors. Nitroxides: Synthesis, Properties and Applications [Internet] London, UK: Royal Society of Chemistry; 2021. Chapter 10; p.392-419.


Mainali L, Pasenkiewicz-Gierula M, Subczynski WK. Formation of cholesterol Bilayer Domains Precedes Formation of Cholesterol Crystals in Membranes Made of the Major Phospholipids of Human Eye Lens Fiber Cell Plasma Membranes. Curr Eye Res. 2020;45(2):162-172. doi:10.1080/02713683.2019.1662058 PMCID: PMC6980519

Del Alamo D, Tessmer MH, Stein RA, Feix JB, Mchaourab HS, Meiler J. Rapid Simulation of Unprocessed DEER Decay Data for Protein Fold Prediction. Biophys J. 2020 Jan 21;118(2):366-375. doi: 10.1016/j.bpj.2019.12.011. PMID: 31892409; PMCID: PMC6976798.

Cheng G, Pan J, Podsiadly R, Zielonka J, Garces AM, Dias Duarte Machado LG, Bennett B, McAllister D, Dwinell MB, You M, Kalyanaraman B. Increased formation of reactive oxygen species during tumor growth: Ex vivo low-temperature EPR and in vivo bioluminescence analyses. Free Radic Biol Med. 2020 Feb 1;147:167-174. doi: 10.1016/j.freeradbiomed.2019.12.020. PMID: 31874251; PMCID: PMC6948008.

Boban Z, Puljas A, Kovač D, Subczynski WK, Raguz M. Effect of Electrical Parameters and Cholesterol Concentration on Giant Unilamellar Vesicles Electroformation. Cell Biochem Biophys. 2020 Apr 21. doi: 10.1007/s12013-020-00910-9. PMCID: PMC7608754

Widomska J, SanGiovanni JP, Subczynski WK. Why is Zeaxanthin the Most Concentrated Xanthophyll in the Central Fovea?. Nutrients. 2020;12(5):1333. Published 2020 May 7. doi:10.3390/nu12051333. PMCID: PMC7284714

Hilger D, Kumar KK, Hu H, Pedersen MF, O'Brien ES, Giehm L, Jennings C, Eskici G, Inoue A, Lerch M, Mathiesen JM, Skiniotis G, Kobilka BK. Structural insights into differences in G protein activation by family A and family B GPCRs. Science. 2020;369(6503):eaba3373. doi:10.1126/science.aba3373

Zhuo Y, Gurevich VV, Vishnivetskiy SA, Klug CS, Marchese A. A non-GPCR binding partner interacts with a novel surface on β-arrestin1 to mediate GPCR signaling. J Biol Chem. 2020;jbc.RA120.015074. doi:10.1074/jbc.RA120.015074. PMCID: PMC7426584

Lerch MT, Matt RA, Masureel M, Elgeti M, Kumar KK, Hilger D, Foys B, Kobilka BK, Hubbell WL. Viewing rare conformations of the β2 adrenergic receptor with pressure-resolved DEER spectroscopy. Proc Natl Acad Sci U S A. 2020 Nov 30:202013904. doi: 10.1073/pnas.2013904117. Epub ahead of print. PMID: 33257561; PMCID: PMC7749303.

Tessmer MH, DeCero SA, Del Alamo D, Riegert MO, Meiler J, Frank DW, Feix JB. Characterization of the ExoU activation mechanism using EPR and integrative modeling. Sci Rep. 2020 Nov 12;10(1):19700. doi: 10.1038/s41598-020-76023-3. PMID: 33184362; PMCID: PMC7665212.

Szala M, Grzelakowska A, Modrzejewska J, Siarkiewicz P, Slowinski D, Swierczynska M, Zielonka J, Podsiadly R. Characterization of the reactivity of luciferin boronate - A Probe for inflammatory oxidants with improved stability. Dyes and Pigments 2020 Dec;183:108693.

Chen Q, Zhuo Y, Sharma P, Perez I, Francis DJ, Chakravarthy S, Vishnivetskiy SA, Berndt S, Hanson SM, Zhan X, Brooks EK, Altenbach C, Hubbell WL, Klug CS, Iverson TM, Gurevich VV. An eight amino acid segment controls oligomerization and preferred conformation of the two non-visual arrestins. J Mol Biol. 2020 Dec 30:166790. doi: 10.1016/j.jmb.2020.166790. 

Subczynski WK, Pasenkiewicz-Gierula M. Hypothetical Pathway for Formation of Cholesterol Microcrystals Initiating the Atherosclerotic Process. Cell Biochem Biophys. 2020 Sep;78(3):241-247. doi: 10.1007/s12013-020-00925-2. PMID: 32602057; PMCID: PMC7403164.


Mainali L, O'Brien WJ, Subczynski WK. Detection of cholesterol bilayer domains in intact biological membranes: Methodology development and its application to studies of eye lens fiber cell plasma membranes. Exp Eye Res. 2019 January;178:72-81. PMCID: PMC6361697

Feix JB, Kohn S, Tessmer MH, Anderson DM, Frank DW. Conformational Changes and Membrane Interaction of the Bacterial Phospholipase, ExoU: Characterization by Site-Directed Spin Labeling. Cell Biochem Biophys. 2019 March;77(1):79-87. PMCID: PMC6347562

Hyde JS, Sidabras JW, Mett RR. Uniform Field Resonators for EPR Spectroscopy: A Review. Cell Biochem Biophys. 2019 March;77(1):3-14. PMCID: PMC6309773

Tikhonov AN, Subczynski WK. Oxygenic photosynthesis: EPR study of photosynthetic electron transport and oxygen-exchange, an overview. Cell Biochem Biophys. 2019 March;77(1):47-59. PMCID: PMC6524781

Antholine WE, Vasquez-Vivar J, Quirk BJ, Whelan HT, Wu PK, Park JI, Myers CR. Treatment of Cells and Tissues with Chromate Maximizes Mitochondrial 2Fe2S EPR Signals. Int J Mol Sci. 2019 March 6;20(5). PMCID: PMC6429069

Antholine WE. Resolved Hyperfine at L-band for High-Spin CoEDTA, A Model for Co Sites in Proteins. Int J Mol Sci. 2019 May 14;20(10). PMCID: PMC6566446

Antholine WE, Myers CR. Concentration of Fe(3+)-Triapine in BEAS-2B Cells. Int J Mol Sci. 2019 June 22;20(12). PMCID: PMC6627071

Stein N, Mainali L, Hyde JS, Subczynski WK. Characterization of the distribution of spin-lattice relaxation rates of lipid spin labels in fiber cell plasma membranes of eye lenses with a stretched-exponential function. Appl Magn Reson. 2019 July;50(7):903-918. PMCID: PMC6594395


Tessmer MH, Anderson DM, Pickrum AM, Riegert MO, Moretti R, Meiler J, Feix JB, Frank DW. Identification of a ubiquitin-binding interface using Rosetta and DEER. Proc Natl Acad Sci U S A. 2018 January;115(3):525-530. PMCID: PMC5776994

Schultz KM, Klug CS. Characterization of and lipopolysaccharide binding to the E. coli LptC protein dimer. Protein Sci. 2018 February;27(2):381-389. PMCID: PMC5775163

Chitambar CR, Al-Gizawiy MM, Alhajala HS, Pechman KR, Wereley JP, Wujek R, Clark PA, Kuo JS, Antholine WE, Schmainda KM. Gallium Maltolate Disrupts Tumor Iron Metabolism and Retards the Growth of Glioblastoma by Inhibiting Mitochondrial Function and Ribonucleotide Reductase. Mol Cancer Ther. 2018 June;17(6):1240-1250. PMCID: PMC5984712

Schultz KM, Fischer MA, Noey EL, Klug CS. Disruption of the E. coli LptC dimerization interface and characterization of lipopolysaccharide and LptA binding to monomeric LptC. Protein Sci. 2018 August;27(8):1407-1417. PMCID: PMC6153404

Stadtmueller BM, Bridges MD, Dam KM, Lerch MT, Huey-Tubman KE, Hubbell WL, Bjorkman PJ. DEER Spectroscopy Measurements Reveal Multiple Conformations of HIV-1 SOSIP Envelopes that Show Similarities with Envelopes on Native Virions. Immunity. 2018 August 21;49(2):235-246.e4. PMCID: PMC6104740

Yang X, Bennett B, Holz RC. Analyzing the function of the insert region found between the α and β-subunits in the eukaryotic nitrile hydratase from Monosiga brevicollis. Archives Biochem Biophys. 2018 November 1;657:1-7. PMCID: PMC6201762

Antholine WE, Zhang S, Gonzales J, Newman N. Better Resolution of High-Spin Cobalt Hyperfine at Low Frequency: Co-Doped Ba(Zn1/3Ta2/3)O3 as a Model Complex. Int J Mol Sci. 2018 November 9;19(11). PMCID: PMC6274703


Tessmer MH, Anderson DM, Buchaklian A, Frank DW, Feix JB. Cooperative substrate-cofactor interactions and membrane localization of the bacterial PLA2 enzyme, ExoU. J Biol Chem. 2017 Jan 9. pii: jbc.M116.760074. PMCID: PMC5336173

Kalyanaraman B, Cheng G, Hardy M, Ouari O, Sikora A, Zielonka J, Dwinell MB. Modified Metformin as a More Potent Anticancer Drug: Mitochondrial Inhibition, Redox Signaling, Antiproliferative Effects and Future EPR Studies. Cell Biochem Biophys. 2017 Dec;75(3-4):311-317. PMCID: PMC5680142

Subczynski W.K., Widomska J., Mainali L. Factors Determining the Oxygen Permeability of Biological Membranes: Oxygen Transport Across Eye Lens Fiber-Cell Plasma Membranes. Adv Exp Med Biol. 2017;977:27-34. PMCID: PMC5851008

Fischer AW, Anderson DM, Tessmer MH, Frank DW, Feix JB, Meiler J. Structure and Dynamics of Type III Secretion Effector Protein ExoU As determined by SDSL-EPR Spectroscopy in Conjunction with De Novo Protein Folding. ACS Omega. 2017 Jun 30;2(6):2977-2984.  PMCID: PMC5494639

Hyde JS. Autobiography of James S. Hyde. Appl. Magn. Reson. 2017 Dec; 48(11-12), 1103-1147. [Part of special issue dedicated to Hyde.] PMCID: PMC6022859

Sarna T, Kalyanaraman B, Berliner L. Xth EPR Workshop on Applications of EPR in Biology and Medicine. Cell Biochem Biophys. 2017; 75(3): 257–258. PMCID: PMC5691121

Sidabras JW, Reijerse EJ, Lubitz W. Uniform Field Re-entrant Cylindrical TE01U Cavity for Pulse Electron Paramagnetic Resonance Spectroscopy at Q-band. Appl. Magn. Reson. 2017.

Mainali L, Camenisch TG, Hyde JS, Subczynski WK. Saturation recovery EPR spin-labeling method for quantification of lipids in biological membrane domains. Appl Magn Reson. 2017 Dec;48(11-12):1355-1373. PMCID: PMC5967259

Schultz KM, Klug CS. High-pressure EPR spectroscopy studies of the E. coli lipopolysaccharide transport proteins LptA and LptC. Appl Magn Reson. 2017 Dec;48(11-12):1341-1353. PMCID: PMC5761346

Hyde JS, Mett RR. EPR Uniform Field Signal ENhancement by Dielectric Tubes in Cavities. Appl Magn Reson. 2017 Dec;48(11-12):1185-1204. PMCID: PMC5761080

Chen Q, Perry NA, Vishnivetskiy SA, Berndt S, Gilbert NC, Zhuo Y, Singh PK, Tholen J, Ohi MD, Gurevich EV, Brautigam CA, Klug CS, Gurevich VV, Iverson TM. Structural basis of arrestin-3 activation and signaling. Nat Commun. 2017 Nov 10;8(1):1427. PMCID: PMC5681653

Herneisen AL, Sahu ID, McCarrick RM, Feix JB, Lorigan GA, Howard KP. A Budding-Defective M2 Mutant Exhibits Reduced Membrane Interaction, Insensitivity to Cholesterol, and Perturbed Interdomain Coupling. Biochemistry. 2017 Nov 7;56(44):5955-5963. PMCID: PMC6112238

Schultz KM, Klug CS. Characterization of and lipopolysaccharide binding to the E. coli LptC protein dimer. Protein Sci. 2018 Feb;27(2):381-389. PMCID: PMC5775163

Suliman M, Santosh V, Seegar TCM, Dalton AC, Schultz KM, Klug CS, Barton WA. Directed evolution provides insight into conformational substrate sampling by SrtA. PLoS One. 2017 Aug 31;12(8):e0184271. PMCID: PMC5578623

Sidabras JW, Sarna T, Mett RR, Hyde JS. Uniform field loop-gap resonator and rectangular TEU02 for aqueous sample EPR at 94GHz. J Magn Reson. 2017 Sep;282:129-135. PMCID: PMC5793860

Widomska J, Subczynski WK, Mainali L, Raguz M. Cholesterol Bilayer Domains in the Eye Lens Health: A Review. Cell Biochem Biophys. 2017 Dec;75(3-4):387-398. PMCID: PMC5691107

Strangeway RA, Hyde JS, Camenisch TG, Sidabras JW, Mett RR, Anderson JR, Ratke JJ, Subczynski WK. Broadband W-band Rapid Frequency Sweep Considerations for Fourier Transform EPR. Cell Biochem Biophys. 2017 Dec;75(3-4):259-273. PMCID: PMC5693649

Stein N, Gumataotao N, Hajnas N, Wu R, Lankathilaka KPW, Bornscheuer UT, Liu D, Fiedler AT, Holz RC, Bennett B. Multiple States of Nitrile Hydratase from Rhodococcus equi TG328-2: Structural and Mechanistic Insights from Electron Paramagnetic Resonance and Density Functional Theory Studies. Biochemistry. 2017 Jun 20;56(24):3068-3077. PMCID: PMC5821057

Schultz KM, Lundquist TJ, Klug CS. Lipopolysaccharide binding to the periplasmic protein LptA. Protein Sci. 2017 Aug;26(8):1517-1523. PMCID: PMC5521551

Subczynski WK, Pasenkiewicz-Gierula M, Widomska J, Mainali L, Raguz M. High Cholesterol/Low Cholesterol: Effects in Biological Membranes: A Review. Cell Biochem Biophys. 2017 Dec;75(3-4):369-385. Review. PMCID: PMC5521551

Langley M, Ghosh A, Charli A, Sarkar S, Ay M, Luo J, Zielonka J, Brenza T, Bennett B, Jin H, Ghaisas S, Schlichtmann B, Kim D, Anantharam V, Kanthasamy A, Narasimhan B, Kalyanaraman B, Kanthasamy AG. Mito-Apocynin Prevents Mitochondrial Dysfunction, Microglial Activation, Oxidative Damage, and Progressive Neurodegeneration in MitoPark Transgenic Mice. Antioxid Redox Signal. 2017 Nov 10;27(14):1048-1066. PMCID: PMC5651937

Sidabras JW, Mett RR, Hyde JS. Extruded dielectric sample tubes of complex cross section for EPR signal enhancement of aqueous samples. J Magn Reson. 2017 Apr;277:45-51. PMCID: PMC5674976

Sidabras JW, Richie JE, Hyde JS. Axially uniform magnetic field-modulation excitation for electron paramagnetic resonance in rectangular and cylindrical cavities by slot cutting. J Magn Reson. 2017 Jan;274:115-124. PMCID: PMC5652332

Mainali L, Raguz M, O'Brien WJ, Subczynski WK. Changes in the Properties and Organization of Human Lens Lipid Membranes Occurring with Age. Curr Eye Res. 2017 May;42(5):721-731. PMCID: PMC5409882

Subczynski WK, Mainali L, Raguz M, O'Brien WJ. Organization of lipids in fiber-cell plasma membranes of the eye lens. Exp Eye Res. 2017 Mar;156:79-86. PMCID: PMC5023447

Subczynski WK, Pasenkiewicz-Gierula M, Widomska J, Mainali L, Raguz M. High Cholesterol/Low Cholesterol: Effects in Biological Membranes: A Review. Cell Biochem Biophys. 2017 December;75(3-4):369-385. PMCID: PMC5645210

Bennett B, Helbling D, Meng H, Jarzembowski J, Geurts AM, Friederich MW, Van Hove JL, Lawlor MW, Dimmock DP. (2016). Potentially diagnostic electron paramagnetic resonance spectra elucidate the underlying mechanism of mitochondrial dysfunction in the deoxyguanosine kinase deficient rat model of a genetic mitochondrial DNA depletion syndrome. Free Radic Biol Med. 2016 Mar;92:141-51. PMCID: 5047058

Bennett B, Kowalski JM. (2015). EPR Methods for Biological Cu(II): L-band CW and NARS. Methods Enzymol. 563:341-61. PMCID: PMC4772423

Hewage JS, Wanniarachchi S, Morin TJ, Liddle BJ, Banaszynski M, Lindeman SV, Bennett B, Gardinier JR. (2014) Homoleptic nickel(II) complexes of redox-tunable pincer-type ligands. Inorganic chemistry53(19):10070-84. PMCID: PMC5047063

Mandal T, Shin S, Aluvila S, Chen H-C, Grieve C, Choe J-Y, Cheng EH, Hustedt EJ, Oh KJ. (2016). Assembly of Bak homodimers into higher order homooligomers in the mitochondrial apoptotic pore. Sci Rep. 6:30763. PMCID: PMC4973285.

Mainali L, Raguz M, O’Brien WJ, Subczynski WK. (2016). Changes in the properties and organization of human lens lipid membranes occurring with age. Curr Eye Res. 1-11. PMCID: PMC5409882

Mett RR, Sidabras JW, Hyde JS. (2016). MRI surface-coil pair with strong inductive coupling. Rev Sci Inst. Rev. Sci. Instrum. 87, 124704. PMCID: PMC5201604

Mett RR, Sidabras JW, Hyde JS. (2016). Meta-metallic coils and resonators: Methods for high Q-value resonant geometries. Rev Sci Instrum. 87(8):084703. PMCID: PMC5010558

Johnson BJ, Antholine WE, Lindeman SV, Graham MJ, Mankad NP. (2016). A one-hole Cu4S cluster with N2O reductase activity: a structural and functional model for CuZ. J Am Chem Soc. PMCID: PMC5378702 

Sidabras JW, Strangeway RA, Mett RR, Anderson JR, Mainali L, Hyde JS. (2016). Hyperbolic-cosine waveguide tapers and oversize rectangular waveguide for reduced broadband insertion loss in W-band electron paramagnetic resonance spectroscopy. II Broadband Characterization. Rev Sci Instrum. 87(3):034704. PMCID: PMC4798996

Stein N, Love D, Judd ET, Elliott SJ, Bennett B, Pacheco AA. (2015). Correlations between the electronic properties of shewanella oneidensis cytochrome c nitrite reductase (ccNiR) and its structure: effects of heme oxidation state and active site ligation. Biochemistry. 54(24):3749-58. PMCID: PMC4743497

Subczynski W, Mainali L, Raguz M, O’Brien WJ. (2016). Organization of lipids in fiber-cell plasma membranes of the eye lens. Exp Eye Res. S0014-4835(6)30034-3. PMCID: PMC5023447

Widomska J, Zareba M, Subczynski WK. (2016). Can xanthophyll-membrane interactions explain their selective presence in the retina and brain? Foods. 5(1). pii: 7. PMCID: PMC4809277

Wen T, Wamer WG, Subczynski WK, Hou S, Wu X, Yin JJ. (2016). Enhancement of paramagnetic relaxation by photoexcited gold nanorods. Sci Rep. 6:24101. PMCID: PMC4829829

Zareba M, Widomaka J, Burka JM, Subczynski WK. (2016). Nitroxide free radicals protect macular carotenoids against chemical destruction (bleaching) during lipid peroxidation. Free Rad Biol Med. 101:446-454. PMCID: PMC5154825

Zielonka J, Podsiadły R, Zielonka M, Hardy M, Kalyanaraman K. On the use of peroxy-caged luciferin (PCL-1) probe for bioluminescent detection of inflammatory oxidants in vitro and in vivo - Identification of reaction intermediates and oxidant-specific minor products. Free Radic. Biol. Med. 2016, 99, 32-42. PMCID: PMC5107150

Aitha M, Moritz L, Sahu ID, Sanyurah O, Roche Z, McCarrick R, Lorigan GA, Bennett B, Crowder MW. Conformational dynamics of metallo-β-lactamase CcrA during catalysis investigated by using DEER spectroscopy. J Biol Inorg Chem. 2015 Apr;20(3):585-94. doi: 10.1007/s00775-015-1244-8. PubMed PMID: 25827593; PubMed Central PMCID: PMC4733638.

Anderson DM, Feix JB, Frank DW. Cross Kingdom Activators of Five Classes of Bacterial Effectors. PLoS Pathog. 2015 Jul 23;11(7):e1004944. doi: 10.1371/journal.ppat.1004944. Review. PubMed PMID: 26203905; PubMed Central PMCID: PMC4512716.

Anderson DM, Sato H, Dirck AT, Feix JB, Frank DW. Ubiquitin activates patatin-like phospholipases from multiple bacterial species. J Bacteriol. 2015 Feb;197(3):529-41. doi: 10.1128/JB.02402-14. PubMed PMID: 25404699; PubMed Central PMCID: PMC4285982.

Johnson BJ, Antholine WE, Lindeman SV, Mankad NP. A Cu4S model for the nitrous oxide reductase active sites supported only by nitrogen ligands. Chem Commun (Camb). 2015 Jul 28;51(59):11860-3. doi: 10.1039/c5cc04675k. PubMed PMID: 26111160; PubMed Central PMCID: PMC4731228.

Kim SS, Upshur MA, Saotome K, Sahu ID, McCarrick RM, Feix JB, Lorigan GA, Howard KP. Cholesterol-Dependent Conformational Exchange of the C-Terminal Domain of the Influenza A M2 Protein. Biochemistry. 2015 Dec 15;54(49):7157-67. doi: 10.1021/acs.biochem.5b01065. PubMed PMID: 26569023; PubMed Central PMCID: PMC4734095.

Kittell AW, Hyde JS. Spin-label CW microwave power saturation and rapid passage with triangular non-adiabatic rapid sweep (NARS) and adiabatic rapid passage (ARP) EPR spectroscopy. J Magn Reson. 2015 Jun;255:68-76. doi: 10.1016/j.jmr.2015.03.014. PubMed PMID: 25917132; PubMed Central PMCID: PMC4441560.

Lane AC, Barnes CL, Antholine WE, Wang D, Fiedler AT, Walensky JR. Di- and Trinuclear Mixed-Valence Copper Amidinate Complexes from Reduction of Iodine. Inorg Chem. 2015 Sep 8;54(17):8509-17. doi: 10.1021/acs.inorgchem.5b01161. PubMed PMID: 26252561; PubMed Central PMCID: PMC4733884.

Mainali L, Raguz M, O'Brien WJ, Subczynski WK. Properties of membranes derived from the total lipids extracted from clear and cataractous lenses of 61-70-year-old human donors. Eur Biophys J. 2015 Feb;44(1-2):91-102. doi: 10.1007/s00249-014-1004-7. PubMed PMID: 25502634; PubMed Central PMCID: PMC4323688.

Mainali L, Vasquez-Vivar J, Hyde JS, Subczynski WK. Spin-labeled small unilamellar vesicles with the T1-sensitive saturation-recovery EPR display as an oxygen sensitive analyte for measurement of cellular respiration. Appl Magn Reson. 2015 Aug 1;46(8):885-895. PubMed PMID: 26441482; PubMed Central PMCID: PMC4591545.

Raguz M, Mainali L, O'Brien WJ, Subczynski WK. Lipid domains in intact fiber-cell plasma membranes isolated from cortical and nuclear regions of human eye lenses of donors from different age groups. Exp Eye Res. 2015 Mar;132:78-90. doi: 10.1016/j.exer.2015.01.018. PubMed PMID: 25617680; PubMed Central PMCID: PMC4352400.

Raguz M, Mainali L, O'Brien WJ, Subczynski WK. Amounts of phospholipids and cholesterol in lipid domains formed in intact lens membranes: Methodology development and its application to studies of porcine lens membranes. Exp Eye Res. 2015 Nov;140:179-86. doi: 10.1016/j.exer.2015.09.006. PubMed PMID: 26384651; PubMed Central PMCID: PMC4624471.

Starus A, Nocek B, Bennett B, Larrabee JA, Shaw DL, Sae-Lee W, Russo MT, Gillner DM, Makowska-Grzyska M, Joachimiak A, Holz RC. Inhibition of the dapE-Encoded N-Succinyl-L,L-diaminopimelic Acid Desuccinylase from Neisseria meningitidis by L-Captopril. Biochemistry. 2015 Aug 11;54(31):4834-44. doi: 0.1021/acs.biochem.5b00475. PubMed PMID: 26186504; PubMed Central PMCID: PMC4671288.

Xu J, Eriksson SE, Cebula M, Sandalova T, Hedström E, Pader I, Cheng Q, Myers CR, Antholine WE, Nagy P, Hellman U, Selivanova G, Lindqvist Y, Arnér ES. The conserved Trp114 residue of thioredoxin reductase 1 has a redox sensor-like function triggering oligomerization and crosslinking upon oxidative stress related to cell death. Cell Death Dis. 2015 Jan 22;6:e1616. doi: 10.1038/cddis.2014.574. PubMed PMID: 25611390; PubMed Central PMCID: PMC4669772.

Zielonka J, Sikora A, Adamus J, Kalyanaraman B. Detection and differentiation between peroxynitrite and hydroperoxides using mitochondria-targeted arylboronic acid. Methods Mol Biol. 2015;1264:171-81. doi: 10.1007/978-1-4939-2257-4_16. PubMed PMID: 25631013; PubMed Central PMCID: PMC4451192.


Cheng G, Zielonka J, McAllister D, Tsai S, Dwinell MB, Kalyanaraman B. Profiling and targeting of cellular bioenergetics: inhibition of pancreatic cancer cell proliferation. Br J Cancer. 2014 Jul 8;111(1):85-93. doi: 10.1038/bjc.2014.272. PMCID: PMC4090735

Diers AR, Broniowska KA, Chang CF, Hill RB, Hogg N. S-Nitrosation of monocarboxylate transporter 1: inhibition of pyruvate-fueled respiration and proliferation of breast cancer cells. Free Radic Biol Med. 2014 Apr;69:229-38. doi: 10.1016/j.freeradbiomed.2014.01.031. PMCID: PMC3982622

Dranka BP, Gifford A, McAllister D, Zielonka J, Joseph J, O'Hara CL, Stucky CL, Kanthasamy AG,Kalyanaraman B. A novel mitochondrially-targeted apocynin derivative prevents hyposmia and loss of  motor function in the leucine-rich repeat kinase 2 (LRRK2R1441G) transgenic mouse model of Parkinson's disease. Neurosci Lett. 2014 Sep 25. pii: S0304-3940(14)00779-4. doi: 10.1016/j.neulet.2014.09.042. PMCID: PMC4253647

Hardy M, Poulhés F, Rizzato E, Rockenbauer A, Banaszak K, Karoui H, Lopez M, Zielonka J,Vasquez-Vivar J,Sethumadhavan S, Kalyanaraman B, Tordo P, Ouari O. Mitochondria-targeted spin traps: synthesis,  superoxide spin trapping, and mitochondrial uptake. Chem Res Toxicol. 2014 Jul 21;27(7):1155-65. doi:  10.1021/tx500032e. PMCID: PMC5452977

He X, Swarts SG, Demidenko E, Flood AB, Grinberg O, Gui J, Mariani M, Marsh SD, Ruuge AE,Sidabras JW,  Tipikin D, Wilcox DE, Swartz HM. Development and validation of an ex vivo electron paramagnetic resonance fingernail biodosimetric method. Radiat Prot Dosimetry. 2014 Jun;159(1-4):172-81. doi: 10.1093/rpd/ncu129. PMCID: PMC4095917

Koto T, Michalski R, Zielonka J, Joseph J, Kalyanaraman B. Detection and identification of oxidants formed during •NO/O2•⁻ reaction: a multi-well plate CW-EPR spectroscopy combined with HPLC analyses. Free Radic Res. 2014 Apr;48(4):478-86. doi: 10.3109/10715762.2014.886774. PMCID: PMC4780754

Kumar A, Chen SH, Kadiiska MB, Hong JS, Zielonka J, Kalyanaraman B, Mason RP. Inducible nitric oxide synthase is key to peroxynitrite-mediated, LPS-induced protein radical formation in murine microglial BV2 cells. Free Radic Biol Med. 2014 Aug;73:51-9. doi: 10.1016/j.freeradbiomed.2014.04.014. PMCID: PMC4111989

Larson MC, Hillery CA, Hogg N. Circulating membrane-derived microvesicles in redox biology. Free Radic BiolMed. 2014 Aug;73:214-28. doi: 10.1016/j.freeradbiomed.2014.04.017. PMCID: PMC4465756

Michalski R, Michalowski B, Sikora A, Zielonka J, Kalyanaraman B. On the use of fluorescence lifetime imaging and dihydroethidium to detect superoxide in intact animals and ex vivo tissues: a reassessment. Free Radic Biol Med. 2014 Feb;67:278-84. doi: 10.1016/j.freeradbiomed.2013.10.816. PMCID: PMC4275029

Michalski R, Zielonka J, Gapys E, Marcinek A, Joseph J, Kalyanaraman B. Real-time measurements of amino acid and protein hydroperoxides using coumarin boronic acid. J Biol Chem. 2014 Aug 8;289(32):22536-53. doi: 10.1074/jbc.M114.553727. PMCID: PMC4139259

Mouradian M, Kikawa KD, Dranka BP, Komas SM, Kalyanaraman B, Pardini RS. Docosahexaenoic acid attenuates breast cancer cell metabolism and the Warburg phenotype by targeting bioenergetic function. Mol Carcinog. 2014 Apr 12. doi: 10.1002/mc.22151. 

Pan J, Zhang Q, Liu Q, Komas SM, Kalyanaraman B, Lubet RA, Wang Y, You M. Honokiol Inhibits Lung Tumorigenesis through Inhibition of Mitochondrial Function. Cancer Prev Res (Phila). 2014 Sep 22. pii:canprevres.0091.2014. PMCID: PMC6010030

Raguz M, Mainali L, O'Brien WJ, Subczynski WK. Lipid-protein interactions in plasma membranes of fiber cells isolated from the human eye lens. Exp Eye Res. 2014 Mar;120:138-51. doi: 10.1016/j.exer.2014.01.018. PMCID: PMC3963472

Shah G, Zielonka J, Chen F, Zhang G, Cao Y, Kalyanaraman B, See W. H2O2 Generation by bacillus Calmette-Guérin Induces the Cellular Oxidative Stress Response Required for bacillus Calmette-Guérin Direct Effects on Urothelial Carcinoma Biology. J Urol. 2014 Jun 10. pii: S0022-5347(14)03738-0. doi: 10.1016/j.juro.2014.05.115. PMCID: PMC5798233

Sidabras JW, Varanasi SK, Mett RR, Swarts SG, Swartz HM, Hyde JS. A microwave resonator for limiting depth sensitivity for electron paramagnetic resonance spectroscopy of surfaces. Rev Sci Instrum. 2014 Oct;85(10):104707. doi: 10.1063/1.4898179. PMCID: PMC401662

Widomska J, Subczynski WK. Why has Nature Chosen Lutein and Zeaxanthin to Protect the Retina? J Clin Exp Ophthalmol. 2014 Feb 21;5(1):326. PMCID: PMC4038937

Yu L, Vásquez-Vivar J, Jiang R, Luo K, Derrick M, Tan S. Developmental susceptibility of neurons to transient tetrahydrobiopterin insufficiency and antenatal hypoxia-ischemia in fetal rabbits. Free Radic Biol Med. 2014 Feb;67:426-36. doi: 10.1016/j.freeradbiomed.2013.11.026. PMCID: PMC3945116

Zhuo Y, Vishnivetskiy SA, Zhan X, Gurevich VV, Klug CS. Identification of Receptor Binding-induced Conformational Changes in Non-visual Arrestins. J Biol Chem. 2014 Jul 25;289(30):20991-1002. doi: 10.1074/jbc.M114.560680. PMCID: PMC4110305

Zielonka J, Cheng G, Zielonka M, Ganesh T, Sun A, Joseph J, Michalski R, O'Brien WJ, Lambeth JD, Kalyanaraman B. High-throughput assays for superoxide and hydrogen peroxide: design of a screening workflow to identify inhibitors of NADPH oxidases. J Biol Chem. 2014 Jun 6;289(23):16176-89. doi: 10.1074/jbc.M114.548693. PMCID: PMC4047388


Anderson DM, Feix JB, Monroe AL, Peterson FC, Volkman BF, Haas AL, Frank DW. Identification of the Major Ubiquitin-binding Domain of the Pseudomonas aeruginosa ExoU A2 Phospholipase. J Biol Chem. 2013 Sep 13;288(37):26741-52. doi: 10.1074/jbc.M113.478529. PMCID: PMC3772220 

Hyde JS, Bennet B, Kittell AW, Kowalski JM, Sidabris JW. Moving difference (MDIFF) non-adiabatic rapid sweep (NARS) EPR of copper (II). J Magn Reson 236: 15-25, 2013. PMCID: PMC3919454 

Mainali L, Hyde JS, Subczynski WK. Using spin-label W-band EPR to study membrane fluidity profiles in samples of small volume. J Magn Reson. 2013 Jan;226:35-44. doi: 10.1016/j.jmr.2012.11.001. PMCID: PMC3529815 

Mainali L, Raguz M, O'Brien WJ, Subczynski WK. Properties of membranes derived from the total lipids extracted from the human lens cortex and nucleus. Biochim Biophys Acta. 2013 Jun;1828(6):1432-40. doi: 10.1016/j.bbamem.2013.02.006. PMCID: PMC4323688 

Mainali L, Raguz M, Subczynski WK. Formation of cholesterol bilayer domains precedes formation of cholesterol crystals in cholesterol/dimyristoylphosphatidylcholine membranes: EPR and DSC studies. J Phys Chem B. 2013 Aug 1;117(30):8994-9003. doi: 10.1021/jp402394m. PMCID: PMC3762674 

Rice AJ, Alvarez FJD, Schultz KM, Klug CS, Davidson AL, Pinkett HW. EPR Spectroscopy of MolB2C2-A Reveals Mechanism of Transport for a Bacterial Type II Molybdate Importer. J. Biol. Chem. 2013;288, 21228-21235. PMCID: PMC3774390 **JBC Paper of the Week

Schultz KM, Feix JB, Klug CS. Disruption of LptA oligomerization and affinity of the LptA-LptC interaction. Protein Sci. 2013 Nov;22(11):1639-45. doi: 10.1002/pro.2369.  PMCID: PMC3831678

Valez V, Cassina A, Batinic-Haberle I, Kalyanaraman B, Ferrer-Sueta G, Radi R. Peroxynitrite formation in nitric oxide-exposed submitochondrial particles: detection, oxidative damage and catalytic removal by Mn-porphyrins. Arch Biochem Biophys. 2013 Jan 1;529(1):45-54. doi: 10.1016/ PMCID: PMC3534903


Bansal S, Srinivasan S, Anandasadagopan S, Chowdhury AR, Selvaraj V, Kalyanaraman B, Joseph J, Avadhani NG. Additive effects of mitochondria-targeted cytochrome CYP2E1 and alcohol toxicity on cytochrome c oxidase function and stability of respirasome complexes. J Biol Chem. 2012 May 4;287(19):15284-97. PMCID: PMC3346148 

Broniowska KA, Hogg N. The Chemical Biology of S-Nitrosothiols. Antioxid Redox Signal. 2012 Oct 1;17(7):969-80. PMCID: PMC3411335 

Broniowska KA, Keszler A, Basu S, Kim-Shapiro DB, Hogg N. Cytochrome c-mediated formation of S-nitrosothiol in cells. Biochem J. 2012 Feb 15;442(1):191-7. PMCID: PMC3943432

Cheng G, Zielonka J, Dranka BP, McAllister D, Mackinnon AC Jr, Joseph J, Kalyanaraman B. Mitochondria-targeted drugs synergize with 2-deoxyglucose to trigger breast cancer cell death. Cancer Res. 2012 May 15;72(10):2634-44. PMCID: PMC3700358 

Cunniff B, Benson K, Stumpff J, Newick K, Held P, Taatjes D, Joseph J, Kalyanaraman B, Heintz NH. Mitochondrial-targeted nitroxides disrupt mitochondrial architecture and inhibit expression of peroxiredoxin 3 and FOXM1 in malignant mesothelioma cells. J Cell Physiol. 2012 Sep 27. doi: 10.1002/jcp.24232. PMCID: PMC3928986 

Diers AR, Broniowska KA, Chang CF, Hogg N. Pyruvate fuels mitochondrial respiration and proliferation of breast cancer cells: effect of monocarboxylate transporter inhibition. Biochem J. 2012 Jun 15;444(3):561- 71. PMCID: PMC4898201

Dranka BP, Zielonka J, Kanthasamy AG, Kalyanaraman B. Alterations in bioenergetic function induced by Parkinson's disease mimetic compounds: lack of correlation with superoxide generation. J Neurochem. 2012 Jun 18. doi: 10.1111/j.1471-4159.2012.07836.x. PMCID: PMC3423581 

Drobyshevsky A, Luo K, Derrick M, Yu L, Du H, Prasad PV, Vasquez-Vivar J, Batinic-Haberle I, Tan S. Motor deficits are triggered by reperfusion-reoxygenation injury as diagnosed by MRI and by a mechanism involving oxidants. J Neurosci. 2012 Apr 18;32(16):5500-9. PMCID: PMC3332550

Francis DJ, Hubbell WL, Klug CS. Probing Protein Secondary Structure using EPR: Investigating a Dynamic Region of Visual Arrestin. Appl. Magn. Reson. 2012, Volume 43, Number 3, Pages 405-419. PMCID: PMC4240029

Gadicherla AK, Stowe DF, Antholine WE, Yang M, Camara AK. Damage to mitochondrial complex I during cardiac ischemia reperfusion injury is reduced indirectly by anti-anginal drug ranolazine. Biochim Biophys Acta. 2012 Mar;1817(3):419-29. PMCID: PMC3269517 

Ghosh A, Kanthasamy A, Joseph J, Anantharam V, Srivastava P, Dranka BP, Kalyanaraman B, Kanthasamy AG. Anti-inflammatory and neuroprotective effects of an orally active apocynin derivative in pre-clinical models of Parkinson's disease. J Neuroinflammation. 2012 Oct 23;9:241. doi: 10.1186/1742-2094-9-241. PMCID: PMC3488558

Kalyanaraman B, Darley-Usmar V, Davies KJ, Dennery PA, Forman HJ, Grisham MB, Mann GE, Moore K, Roberts LJ 2nd, Ischiropoulos H. Measuring reactive oxygen and nitrogen species with fluorescent probes: challenges and limitations. Free Radic Biol Med. 2012 Jan 1;52(1):1-6. PMCID: PMC3911769 

Kittell AW, Hustedt EJ, Hyde JS. Inter-spin distance determination using L-band (1-2GHz) non-adiabatic rapid sweep electron paramagnetic resonance (NARS EPR). J Magn Reson. 2012 Aug;221:51-6. PMCID: PMC3957363

Liddle BJ, Wanniarachchi S, Hewage JS, Lindeman SV, Bennett B, Gardinier JR. Electronic communication across diamagnetic metal bridges: a homoleptic gallium(III) complex of a redox-active diarylamido-based ligand and its oxidized derivatives. Inorg Chem. 2012 Dec 3;51(23):12720-8. doi: 10.1021/ic301437f. PMCID: PMC3601749

Mainali L, Raguz M, O'Brien WJ, Subczynski WK. Properties of fiber cell plasma membranes isolated from the cortex and nucleus of the porcine eye lens. Exp Eye Res. 2012 Apr;97(1):117-29. PMCID: PMC3287047 

Mainali L, Raguz M, Subczynski WK. Phases and domains in sphingomyelin-cholesterol membranes: structure and properties using EPR spin-labeling methods. Eur Biophys J. 2012 Feb;41(2):147-59. PMCID: PMC3270143 

Mao M, Sudhahar V, Ansenberger-Fricano K, Fernandes DC, Tanaka LY, Fukai T, Laurindo FR, Mason RP, Vasquez-Vivar J, Minshall RD, Stadler K, Bonini MG. Nitroglycerin drives endothelial nitric oxide synthase activation via the phosphatidylinositol 3-kinase/protein kinase B pathway. Free Radic Biol Med. 2012 Jan 15;52(2):427-35. EPMCID: PMC3432314

Merten JA, Schultz KM, Klug CS. Concentration-dependent oligomerization and oligomeric arrangement of LptA. Protein Sci. 2012 Feb;21(2):211-8. doi: 10.1002/pro.2004. PMCID: PMC3324765 

Michalski R, Zielonka J, Hardy M, Joseph J, Kalyanaraman B. Hydropropidine: A novel, cell-impermeant fluorogenic probe for detecting extracellular superoxide. Free Radic Biol Med. 2012 Oct 7. doi:pii: S0891- 5849(12)01143-4. 10.1016/j.freeradbiomed.2012.09.018. PMCID: PMC3711142 

Mukhopadhyay P, Horváth B, Zsengellėr Z, Bátkai S, Cao Z, Kechrid M, Holovac E, Erdėlyi K, Tanchian G, Liaudet L, Stillman IE, Joseph J, Kalyanaraman B, Pacher P. Mitochondrial reactive oxygen species generation triggers inflammatory response and tissue injury associated with hepatic ischemia-reperfusion: Therapeutic potential of mitochondrially targeted antioxidants. Free Radic Biol Med. 2012 Sep 1;53(5):1123- 38. PMCID: PMC3432152 

Mukhopadhyay P, Horváth B, Zsengellér Z, Zielonka J, Tanchian G, Holovac E, Kechrid M, Patel V, Stillman IE, Parikh SM, Joseph J, Kalyanaraman B, Pacher P. Mitochondrial-targeted antioxidants represent a promising approach for prevention of cisplatin-induced nephropathy. Free Radic Biol Med. 2012 Jan 15;52(2):497-506. PMCID: PMC3253235 

Petruk AA, Bartesaghi S, Trujillo M, Estrin DA, Murgida D, Kalyanaraman B, Marti MA, Radi R. Molecular basis of intramolecular electron transfer in proteins during radical-mediated oxidations: Computer simulation studies in model tyrosine-cysteine peptides in solution. Arch Biochem Biophys. 2012 Sep 1;525(1):82-91. PMCID: PMC3414218 

Plesnar E, Subczynski WK, Pasenkiewicz-Gierula M. Saturation with cholesterol increases vertical order and smoothes the surface of the phosphatidylcholine bilayer: A molecular simulation study. Biochim Biophys Acta. 2012 Mar;1818(3):520-9. PMCID: PMC3273590 

Sethumadhavan S, Vasquez-Vivar J, Migrino RQ, Harmann L, Jacob HJ, Lazar J. Mitochondrial DNA variant for complex I reveals a role in diabetic cardiac remodeling. J Biol Chem. 2012 Jun 22;287(26):22174-82. PMCID: PMC3381178 

Soberanes S, Gonzalez A, Urich D, Chiarella SE, Radigan KA, Osornio-Vargas A, Joseph J, Kalyanaraman B, Ridge KM, Chandel NS, Mutlu GM, De Vizcaya-Ruiz A, Budinger GR. Particulate matter Air Pollution induces hypermethylation of the p16 promoter Via a mitochondrial ROS-JNK-DNMT1 pathway. Sci Rep. 2012;2:275. PMCID: PMC3281276 

Subczynski WK, Raguz M, Widomska J, Mainali L, Konovalov A. Functions of cholesterol and the cholesterol bilayer domain specific to the fiber-cell plasma membrane of the eye lens. J Membr Biol. 2012 Jan;245(1):51-68. PMCID: PMC3288876

Subczynski WK, Wisniewska-Becker A, Widomska J. Can macular xanthophylls replace cholesterol in formation of the liquid-ordered phase in lipid bilayer membranes? Acta Biochim Pol. 2012;59(1):109-14. Epub 2012 Mar 17.

Swartz HM, Flood AB, Williams BB, Dong R, Swarts SG, He X, Grinberg O, Sidabras J, Demidenko E, Gui J, Gladstone DJ, Jarvis LA, Kmiec MM, Kobayashi K, Lesniewski PN, Marsh SD, Matthews TP, Nicolalde RJ, Pennington PM, Raynolds T, Salikhov I, Wilcox DE, Zaki BI. Electron paramagnetic resonance dosimetry for a large-scale radiation incident. Health Phys. 2012 Sep;103(3):255-67. doi: 10.1097/HP.0b013e3182588d92. PMCID: PMC3649772 

Tejero J, Basu S, Helms C, Hogg N, King SB, Kim-Shapiro DB, Gladwin MT. Low NO concentration dependence of reductive nitrosylation reaction of hemoglobin. J Biol Chem. 2012 May 25;287(22):18262-74. PMCID: PMC3365727 

Wang J, Alexanian A, Ying R, Kizhakekuttu TJ, Dharmashankar K, Vasquez-Vivar J, Gutterman DD, Widlansky ME. Acute Exposure to Low Glucose Rapidly Induces Endothelial Dysfunction and Mitochondrial Oxidative Stress: Role for AMP Kinase. Arterioscler Thromb Vasc Biol. 2012 Mar;32(3):712-20. PMCID: PMC3319449 

Wisniewska-Becker A, Nawrocki G, Duda M, Subczynski WK. Structural aspects of the antioxidant activity of lutein in a model of photoreceptor membranes. Acta Biochim Pol. 2012;59(1):119-24. PMCID: PMC4116753 

Yin JJ, Fu PP, Lutterodt H, Zhou YT, Antholine WE, Wamer W. Dual Role of Selected Antioxidants Found in Dietary Supplements: Crossover between Anti- and Pro-Oxidant Activities in the Presence of Copper. J Agric Food Chem. 2012 Mar 14;60(10):2554-61. PMCID: PMC3971523 

Zielonka J, Sikora A, Hardy M, Joseph J, Dranka BP, Kalyanaraman B. Boronate Probes as Diagnostic Tools for Real Time Monitoring of Peroxynitrite and Hydroperoxides. Chem Res Toxicol. 2012 Sep 17;25(9):1793- 9. PMCID: PMC3501381 

Zielonka J, Zielonka M, Sikora A, Adamus J, Joseph J, Hardy M, Ouari O, Dranka BP, Kalyanaraman B. Global Profiling of Reactive Oxygen and Nitrogen Species in Biological Systems: High-Throughput Real-Time Analyses. J Biol Chem. 2012 Jan 27;287(5):2984-95. PMCID: PMC3270955 

Zsengellér ZK, Ellezian L, Brown D, Horváth B, Mukhopadhyay P, Kalyanaraman B, Parikh SM, Karumanchi SA, Stillman IE, Pacher P. Cisplatin nephrotoxicity involves mitochondrial injury with impaired tubular mitochondrial enzyme activity. J Histochem Cytochem. 2012 Jul;60(7):521-9. PMCID: PMC3460350


Ahmed MN, Codipilly C, Hogg N, Auten RL. The protective effect of overexpression of extracellular superoxide dismutase on nitric oxide bioavailability in the lung after exposure to hyperoxia stress. Exp. Lung Res. 2011 Feb;37:10-17. 

Anderson DM, Schmalzer KM, Sato H, Casey M, Terhune SS, Haas AL, Feix JB, Frank DW. Ubiquitin and ubiquitin-modified proteins activate the Pseudomonas aeruginosa T3SS cytotoxin, ExoU. Mol Microbiol. 2011 Dec;82(6):1454-67. doi: 10.1111/j.1365-2958.2011.07904.x. PMCID: PMC3237844

Belik J, McIntyre BA, Enomoto M, Pan J, Grasemann H, Vasquez-Vivar J. Pulmonary hypertension in the newborn GTP cyclohydrolase I-deficient mouse. Free Radic Biol Med. 2011 Dec 15;51(12):2227-33. PMCID: PMC5050525

Bennett B, Hill BC. Avoiding premature oxidation during the binding of Cu(II) to a dithiolate site in BsSCO. A rapid freeze-quench EPR study. FEBS Lett. 2011 Mar 23;585(6):861-4. PMCID: PMC3109496

Benson MA, Komas SM, Schmalzer KM, Casey MS, Frank DW, Feix JB. Induced conformational changes in the activation of the pseudomonas aeruginosa type III toxin, ExoU. Biophys J. 2011 Mar 2;100(5):1335-43. PMCID: PMC3043214

Chacko BK, Srivastava A, Johnson MS, Benavides GA, Chang MJ, Ye Y, Jhala N, Murphy MP, Kalyanaraman B, Darley-Usmar VM. Mitochondria-targeted ubiquinone (MitoQ) decreases ethanol-dependent micro and macro hepatosteatosis. Hepatology. 2011 Jul;54(1):153-63. doi: 10.1002/hep.24377. PMCID: PMC3125473

Cheng G, Lopez M, Zielonka J, Hauser AD, Joseph J, McAllister D, Rowe JJ, Sugg SL, Williams CL, Kalyanaraman B. Mitochondria-targeted nitroxides exacerbate fluvastatin-mediated cytostatic and cytotoxic effects in breast cancer cells. Cancer Biol Ther. 2011 Oct 15;12(8):707-17. PMCID: PMC3218525

Ge ZD, Ionova IA, Vladic N, Pravdic D, Hirata N, Vásquez-Vivar J, Pratt PF Jr, Warltier DC, Pieper GM, Kersten JR. Cardiac-specific overexpression of GTP cyclohydrolase 1 restores ischemic preconditioning during hyperglycaemia. Cardiovasc Res. 2011 Jul 15;91(2):340-9. PMCID: PMC3125073

Kalyanaraman B. Oxidative chemistry of fluorescent dyes: implications in the detection of reactive oxygen and nitrogen species. Biochem Soc Trans. 2011 Oct;39(5):1221-5. 

Kalyanaraman B, Darley-Usmar V, Davies KJ, Dennery PA, Forman HJ, Grisham MB, Mann GE, Moore K, Roberts LJ 2nd, Ischiropoulos H. Measuring reactive oxygen and nitrogen species with fluorescent probes: challenges and limitations. Free Radic Biol Med. 2011 Oct 2;52:1-6. PMCID: PMC3911769

Khan SA, Nanduri J, Yuan G, Kinsman B, Kumar GK, Joseph J, Kalyanaraman B, Prabhakar NR. NADPH oxidase 2 mediates intermittent hypoxia-induced mitochondrial complex I inhibition: relevance to blood pressure changes in rats. Antioxid. Redox Signal. 2011 Feb 15;14:533-542. PMCID: PMC3038125

Kittell AW, Camenisch TG, Ratke JJ, Sidabras JW, Hyde JS. Detection of undistorted continuous wave (CW) electron paramagnetic resonance (EPR) spectra with non-adiabatic rapid sweep (NARS) of the magnetic field. J Magn Reson. 2011 Aug;211(2):228-33. PMCID: PMC3148028

Kolesar JM, Sachidanandam K, Schelman WR, Eickhoff J, Holen KD, Traynor AM, Alberti DB, Thomas JP, Chitambar CR, Wilding G, Antholine WE. Cytotoxic Evaluation of 3-Aminopyridine-2-Carboxaldehyde Thiosemicarbazone, 3-AP, in Peripheral Blood Lymphocytes of Patients with Refractory Solid Tumors using Electron Paramagnetic Resonance. Exp Ther Med. 2011 Jan;2(1):119-123. PMID:21373381

Kowalski JM, Bennett B. Spin Hamiltonian Parameters for Cu(II)-Prion Peptide Complexes from L-Band Electron Paramagnetic Resonance Spectroscopy. J Am Chem Soc. 2011 Jan 25. [Epub ahead of print] 

Krishnapuram R, Dhurandhar EJ, Dubuisson O, Kirk-Ballard H, Bajpeyi S, Butte NF, Sothern MS, LarsenMeyer E, Chalew S, Bennett B, Gupta AK, Greenway FL, Johnson WD, Brashear M, Reinhart G, Rankinen T, Bouchard C, Cefalu WT, Ye J, Javier R, Zuberi A, Dhurandhar NV. A template to improve glycemic control without reducing adiposity or dietary fat. Am J Physiol Endocrinol Metab. 2011 May;300(5):E779-89. PMCID: PMC3093976

Kumar SN, Konorev EA, Aggarwal D, Kalyanaraman B. Analysis of proteome changes in doxorubicin-treated adult rat cardiomyocyte. J. Proteomics J Proteomics. 2011 May 1;74(5):683-97. PMCID: PMC3298037

Leskov IL, Whitsett J, Vasquez-Vivar J, Stokes KY. NAD(P)H oxidase and eNOS play differential roles in cytomegalovirus infection-induced microvascular dysfunction. Free Radic Biol Med. 2011 Dec 15;51(12):2300-8. PMCID: PMC3272703

Mainali L, Feix JB, Hyde JS, Subczynski WK. Membrane fluidity profiles as deduced by saturation-recovery EPR measurements of spin-lattice relaxation times of spin labels. J Magn Reson. 2011 Oct;212(2):418-25. PMCID: PMC3214655

Mainali L, Raguz M, Camenisch TG, Hyde JS, Subczynski WK. Spin-label saturation-recovery EPR at Wband: applications to eye lens lipid membranes. J Magn Reson. 2011 Sep;212(1):86-94. PMCID: PMC3163743

Mainali L, Raguz M, Subczynski WK. Phase-separation and domain-formation in cholesterol-sphingomyelin mixture: pulse-EPR oxygen probing. Biophys J. 2011 Aug 17;101(4):837-46. PMCID: PMC3175055

Mett RR, Sidabras JW, Anderson JR, Hyde JS. Hyperbolic-cosine waveguide tapers and oversize rectangular waveguide for reduced broadband insertion loss in W-band electron paramagnetic resonance spectroscopy. Rev Sci Instrum. 2011 Jul;82(7):074704. PMCID: PMC4798996

Murphy MP, Holmgren A, Larsson NG, Halliwell B, Chang CJ, Kalyanaraman B, Rhee SG, Thornalley PJ, Partridge L, Gems D, Nyström T, Belousov V, Schumacker PT, Winterbourn CC. Unraveling the biological roles of reactive oxygen species. Cell. Metab. 2011 Apr 6;13:361-366. PMCID: PMC4445605

Myers JM, Antholine WE, Myers CR. The intracellular redox stress caused by hexavalent chromium is selective for proteins that have key roles in cell survival and thiol redox control. Toxicology. 2011 Mar 15;281(1-3):37-47. PMCID: PMC3039098

Myers JM, Antholine WE, Zielonka J, Myers CR. The iron-chelating drug triapine causes pronounced mitochondrial thiol redox stress. Toxicol Lett. 2011 Mar 5;201(2):130-6.  PMCID: PMC21195754

Patel RP, Hogg N, Kim-Shapiro DB. The potential role of the red blood cell in nitrite-dependent regulation of blood flow. Cardiovasc. Res. 2011 Feb;89:507-515. PMCID: PMC3028972

Raguz M, Mainali L, Widomska J, Subczynski WK. The immiscible cholesterol bilayer domain exists as an integral part of phospholipid bilayer membranes. Biochim Biophys Acta. 2011 Apr;1808(4):1072-80. PMCID: PMC3062709

Raguz M, Mainali L, Widomska J, Subczynski WK. Using spin-label electron paramagnetic resonance (EPR) to discriminate and characterize the cholesterol bilayer domain. Chem Phys Lipids. 2011 Aug 9.2011 Nov;164(8):819-29. PMCID: PMC3206151

Schultz KM, Merten JA, Klug CS. Characterization of the E506Q and H537A Dysfunctional Mutants in the E. coli ABC Transporter MsbA. Biochemistry. 2011 May 10;50(18):3599-608. PMCID: PMC3128438

Schultz KM, Merten JA, Klug CS. Effects of the L511P and D512G Mutations on the Escherichia coli ABC Transporter MsbA. Biochemistry. 2011 Apr 5;50(13):2594-602. PMCID: PMC3110719

Sikora A, Zielonka J, Lopez M, Dybala-Defratyka A, Joseph J, Marcinek A, Kalyanaraman B. Reaction between Peroxynitrite and Boronates: EPR Spin-Trapping, HPLC Analyses, and Quantum Mechanical Study of the Free Radical Pathway. Chem Res Toxicol. 2011 May 16;24(5):687-97. PMCID: PMC3743543

Subczynski WK, Mainali L, Camenisch TG, Froncisz W, Hyde JS. Spin-label oximetry at Q- and W-band. J Magn Reson. 2011 Apr;209(2):142-8. PMCID: PMC3065517

Vishnivetskiy SA, Gimenez LE, Francis DJ, Hunson SM, Hubbell WL, Klug CS, Gurevich VV. Few residues within an extensive binding interface drive receptor interaction and determine the specificity of arrestin proteins. J Biol Chem. 2011 Jul 8;286(27):24288-99. PMCID: PMC3129209

Wanniarachchi S, Liddle BJ, Toussaint J, Lindeman SV, Bennett B, Gardinier JR. Using sterics to promote reactivity in fac-Re(CO)(3) complexes of some "non-innocent" NNN-pincer ligands. Dalton Trans. 2011 Sep 21;40(35):8776-87. 

Yu L, Derrick M, Ji H, Silverman RB, Whitsett J, Vásquez-Vivar J, Tan S. Neuronal nitric oxide synthase inhibition prevents cerebral palsy following hypoxia-ischemia in fetal rabbits: comparison between JI-8 and 7-nitroindazole. Dev Neurosci. 2011;33(3-4):312-9. PMCID: PMC3225251

Zhu BZ, Mao L, Fan RM, Zhu JG, Zhang YN, Wang J, Kalyanaraman B, Frei B. Ergothioneine prevents copper-induced oxidative damage to DNA and protein by forming a redox-inactive ergothioneine-copper complex. Chem. Res. Toxicol. 2011 Jan 14;24:30-34.


Bodemer GJ, Antholine WA, Basova LV, Saffarini D, Pacheco AA. The effect of detergents and lipids on the properties of the outer-membrane protein OmcA from Shewanella oneidensis. J Biol Inorg Chem. 2010 Jun;15(5):749-58. 

Chandran K, McCracken J, Peterson FC, Antholine WE, Volkman BF, Kalyanaraman B. Oxidation of Histidine Residues in Copper-Zinc Superoxide Dismutase by Bicarbonate-Stimulated Peroxidase and Thiol Oxidase Activities: Pulse EPR and NMR Studies. Biochemistry. 2010 Nov 1;49:10616-22.

Cheng Q, Antholine WE, Myers JM, Kalyanaraman B, Arnér ES, Myers CR. The selenium-independent inherent pro-oxidant NADPH oxidase activity of mammalianthioredoxin reductase and its seleniumdependent direct peroxidase activities. J Biol Chem. 2010 Jul 9;285(28):21708-23. PMCID: PMC2898413

Choi DW, Bandow NL, McEllistrem MT, Semrau JD, Antholine WE, Hartsel SC, Gallagher W, Zea CJ, Pohl NL, Zahn JA, DiSpirito AA. Spectral and thermodynamic properties of methanobactin from γ-proteobacterial methane oxidizing bacteria: a case for copper competition on a molecular level. J Inorg Biochem. 2010 Dec;104(12):1240-7.

Farver O, Wherland S, Antholine WE, Gemmen GJ, Chen Y, Pecht I, Fee JA. Pulse radiolysis studies of temperature dependent electron transfers among redox centers in ba3-cytochrome c oxidase from Thermus thermophilus: Comparison of A- and B-type enzymes. Biochemistry. 2010 Oct 28. [Epub ahead of print] 

Ghosh A, Chandran K, Kalivendi SV, Joseph J, Antholine WE, Hillard CJ, Kanthasamy A, Kanthasamy A, Kalyanaraman B. Neuroprotection by a mitochondria-targeted drug in a Parkinson's disease model. Free Radic Biol Med. 2010 Dec 1;49(11):1674-84. PMCID: PMC4020411

Goetz BI, Shields HW, Basu S, Wang P, King SB, Hogg N, Gladwin MT, Kim-Shapiro DB. An electron paramagnetic resonance study of the affinity of nitrite for methemoglobin. Nitric Oxide. 2010 Feb 15;22(2):149-54. PMCID: PMC2819623

Hogg N. Detection of nitric oxide by electron paramagnetic resonance spectroscopy. Free Radic Biol Med. 2010 Jul 15;49(2):122-9. PMCID: PMC2916063

Hyde JS, Strangeway RA, Camenisch TG, Ratke JJ, Froncisz W. W-band frequency-swept EPR. J Magn Reson. 2010 Jul;205(1):93-101. PMCID: PMC2885579 

Keszler A, Zhang Y, Hogg N. Reaction between nitric oxide, glutathione, and oxygen in the presence and absence of protein: How are S-nitrosothiols formed? Free Radic. Biol. Med. 2010 Jan 1;48:55-64. PMCID: PMC2829852

Limphong P, McKinney RM, Adams NE, Makaroff CA, Bennett B, Crowder MW. The metal ion requirements of Arabidopsis thaliana Glx2-2 for catalytic activity. J. Biol. Inorg. Chem. 2010 Feb;15:249-258. 

Myers CR, Antholine WE, Myers JM. The pro-oxidant chromium(VI) inhibits mitochondrial complex I, complex II, and aconitase in the bronchial epithelium: EPR markers for Fe-S proteins. Free Radic Biol Med. 2010 Sep 27;49:1903-1915.

Subczynski WK, Raguz M, Widomska J. Studying lipid organization in biological membranes using liposomes and EPR spin labeling. Methods Mol. Biol. 2010;606:247-269.  PMCID: PMC4640678

Subczynski WK, Wisniewska A, Widomska J. Location of macular xanthophylls in the most vulnerable regions of photoreceptor outer-segment membranes. Arch Biochem Biophys. 2010 Dec 1;504(1):61-6. PMCID: PMC2957566

Vishnivetskiy SA, Francis D, Van Eps N, Kim M, Hanson SM, Klug CS, Hubbell WL, Gurevich VV. The role of arrestin alpha-helix I in receptor binding. J. Mol. Biol. 10 Jan;395:42-54. PMCID: PMC2787876

Zhu BZ, Mao L, Fan RM, Zhu JG, Zhang YN, Wang J, Kalyanaraman B, Frei B. Ergothioneine Prevents Copper-Induced Oxidative Damage to DNA and Protein by Forming a Redox-Inactive Ergothioneine-Copper Complex. Chem Res Toxicol. 2010 Nov 3;24:30-34.

Zielonka J, Sikora A, Joseph J, Kalyanaraman B. Peroxynitrite is the major species formed from different flux ratios of co-generated nitric oxide and superoxide: direct reaction with boronate-based fluorescent probe. J Biol Chem. 2010 May 7;285(19):14210-6. PMCID: PMC2863194