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Publications

2024

  1. Jeevan K. Prasain, Stephen Barnes.
    Recent updates on diet-derived gut microbial metabolites
    eFood. 26 July 2024 doi: 10.1002/efd2.181
  2. Coler EA, Melnik A, Lotfi A, Moradi D, Ahiadu B, Gomes PWP, Patan A, Dorrestein PC, Barnes S, Boginski V, Semenov A, Aksenov AA.
    Ordering molecular diversity in untargeted metabolomics via molecular community networking.
    bioRxiv [Preprint]. 2024 Aug 7:2024.08.02.606356. doi: 10.1101/2024.08.02.606356. PMID: 39131284
  3. Yamaguchi S, Sedaka R, Kapadia C, Huang J, Hsu JS, Berryhill TF, Wilson L, Barnes S, Lovelady C, Oduk Y, Williams RM, Jaimes EA, Heller DA, Saigusa T.
    Rapamycin-encapsulated nanoparticle delivery in polycystic kidney disease mice
    Sci Rep. 2024 Jul 2;14(1):15140. doi: 10.1038/s41598-024-65830-7 PMID: 38956234
  4. Baptista LC, Wilson L, Barnes S, Anton SD, Buford TW.
    Effects of resveratrol on changes in trimethylamine-N-oxide and circulating cardiovascular factors following exercise training among older adults
    Exp Gerontol. 2024 Jun 11:112479. doi: 10.1016/j.exger.2024.112479. Online ahead of print.
  5. Xu X, Li JD, Green TJ, Wilson L, Genschmer K, Russell D, Blalock JE, Gaggar A.
    Neutrophil elastase-dependent cleavage of LTA4H alters its aminopeptidase activity in cystic fibrosis
    Eur Respir J. 2024 Feb 22:2301512. doi: 10.1183/13993003.01512-2023. Online ahead of print.PMID: 38387968

2023

  1. Jillian F Ziemanski, Landon Wilson, Stephen Barnes, Kelly K Nichols
    Evaluation of the effects of latanoprost and benzalkonium chloride on the cell viability and nonpolar lipid profile produced by human meibomian gland epithelial cells in culture
    Mol Vis. 2023 Nov 6:29:289-305. eCollection 2023. PMID: 38264609 PMCID: PMC10805331
  2. Ekta Tiwary, Taylor F Berryhill, Landon Wilson, Stephen Barnes, Jeevan K Prasain, J Michael Wells
    LC-MS/MS method for proline-glycine-proline and acetylated proline-glycine-proline in human plasma
    J Chromatogr B Analyt Technol Biomed Life Sci. 2023 Jul 5;1228:123815. PMID: 37453387 doi: 10.1016/j.jchromb.2023.123815 Online ahead of print.
  3. Jordan SJ, Wilson L, Ren J, Gupta K, Barnes S, Geisler WM.
    Natural clearance of Chlamydia trachomatis infection is associated with distinct differences in cervicovaginal metabolites.
    J Infect Dis. 2023 May 11:jiad155. Online ahead of print. PMID: 37163744 doi: 10.1093/infdis/jiad155
  4. Livelo C, Guo Y, Abou Daya F, Rajasekaran V, Varshney S, Le HD, Barnes S, Panda S, Melkani GC.
    Time-restricted feeding promotes muscle function through purine cycle and AMPK signaling in Drosophila obesity models.
    Nat Commun. 2023 Feb 21;14(1):949. PMID: 36810287 PMCID: PMC9944249 doi: 10.1038/s41467-023-36474-4

2022

  1. Srivastava O, Wilson L, Barnes S, Srivastava K, Joseph R.
    αA and αB peptides from human cataractous lenses show antichaperone activity and enhance aggregation of lens proteins
    Mol Vis. 2022 Aug 6;28:147-164. eCollection 2022. PMID: 36540064
  2. Brothwell JA, Fortney KR, Gao H, Wilson LS, Andrews CF, Tran TM, Hu X, Batteiger TA, Barnes S, Liu Y, Spinola SM.
    Haemophilus ducreyi Infection Induces Oxidative Stress, Central Metabolic Changes, and a Mixed Pro- and Anti-inflammatory Environment in the Human Host.
    mBio. 2022 Dec 1:e0312522. [doi:10.1128/mbio.03125-22] Online ahead of print.PMID: 36453940
  3. Dianna Xing, Gloria A Benavides, Michelle S Johnson, Ran Tian, Stephen Barnes, Victor M Darley-Usmar
    Glutamine-dependent effects of nitric oxide on cancer cells subjected to hypoxia-reoxygenation
    Nitric Oxide. 2022 Nov 19;S1089-8603(22)00122-7. [doi:10.1016/j.niox.2022.11.003] PMID: 36414197
  4. Prasain JK, Wilson LS, Grubbs C, Barnes S.
    Gamma-ray Irradiation of Rodent Diets Alters the Urinary Metabolome in Rats with Chemically Induced Mammary Cancer.
    Metabolites. 2022 Oct 16;12(10):976. [doi:10.3390/metabo12100976] PMID: 36295878
  5. Chehade SB, Green GBH, Graham CD, Chakraborti A, Vashai B, Moon A, Williams MB, Vickers B, Berryhill T, Van Der Pol W, Wilson L, Powell ML, Smith DL Jr, Barnes S, Morrow C, Mukhtar MS, Kennedy GD, Bibb JA, Watts SA.
    A modified standard American diet induces physiological parameters associated with metabolic syndrome in C57BL/6J mice.
    Front Nutr. 2022 Aug 29;9:929446. [doi:10.3389/fnut.2022.929446] eCollection 2022. PMID: 36105576
  6. Carson TL, Buro AW, Miller D, Pena A, Ard JD, Lampe JW, Yi N, Lefkowitz E, William VP, Morrow C, Wilson L, Barnes S, Demark-Wahnefried W.
    Rationale and study protocol for a randomized controlled feeding study to determine the structural- and functional-level effects of diet-specific interventions on the gut microbiota of non-Hispanic black and white adults.
    Contemp Clin Trials. 2022 Oct 17:106968. [doi:10.1016/j.cct.2022.106968] Online ahead of print. PMID:36265810
  7. Chehade SB, Green GBH, Graham CD, Chakraborti A, Vashai B, Moon A, Williams MB, Vickers B, Berryhill T, Van Der Pol W, Wilson L, Powell ML, Smith DL Jr, Barnes S, Morrow C, Mukhtar MS, Kennedy GD, Bibb JA, Watts SA.
    A modified standard American diet induces physiological parameters associated with metabolic syndrome in C57BL/6J mice.
    Front Nutr. 2022 Aug 29;9:929446. [doi:10.3389/fnut.2022.929446] eCollection 2022. PMID: 36105576
  8. Mahmoudi Aliabadi P, Teuber R, Jani PK, Wilson L, Enghard P, Barnes S, Chiorazzi N, Radbruch A, Melchers F, Kubagawa H.
    Soluble Fc Receptor for IgM in Sera From Subsets of Patients With Chronic Lymphocytic Leukemia as Determined by a New Mouse Monoclonal Antibody.
    Front Immunol. 2022 Jun 16;13:863895. [doi: 10.3389/fimmu.2022.863895] eCollection 2022.PMID: 35784336
  9. Newman SD, Schnakenberg Martin AM, Raymond D, Cheng H, Wilson L, Barnes S, O'Donnell BF.
    The relationship between cannabis use and taurine: A MRS and metabolomics study.
    PLoS One. 2022 Jun 2;17(6):e0269280. [doi: 10.1371/journal.pone.0269280] eCollection 2022. PMID: 35653401
  10. Li J, Morrow C, Barnes S, Wilson LS, Womack ED, McLain A, Yarar-Fisher C.
    Gut Microbiome Composition and Serum Metabolome Profile Among Individuals With Spinal Cord Injury and Normal Glucose Tolerance or Prediabetes/Type 2 Diabetes.
    Arch Phys Med Rehabil. 2022 Apr;103(4):702-710. [doi: 10.1016/j.apmr.2021.03.043]

2021

  1. Ekta Tiwary, Muhan Hu, Jeevan K. Prasain
    Sperm-Guiding Unconventional Prostaglandins in C. elegans: Synthesis and Signaling
    Metabolites 2021, 11(12), 853; [doi: 10.3390/metabo11120853]
  2. Khanal S, Bai Y, Ngo W, Nichols KK, Wilson L, Barnes S, Nichols JJ.
    Human meibum and tear film derived cholesteryl and wax esters in meibomian gland dysfunction and tear film structure.
    Ocul Surf. 2021 Nov 11;23:12-23. [doi: 10.1016/j.jtos.2021.10.009] Online ahead of print.PMID: 34774809
  3. Pak HH, Haws SA, Green CL, Koller M, Lavarias MT, Richardson NE, Yang SE, Dumas SN, Sonsalla M, Bray L, Johnson M, Barnes S, Darley-Usmar V, Zhang J, Yen CE, Denu JM, Lamming DW.
    Fasting drives the metabolic, molecular and geroprotective effects of a calorie-restricted diet in mice.
    Nature Metabolism. 2021 Oct 18. [doi: 10.1038/s42255-021-00466-9] Online ahead of print.PMID: 34663973
  4. Raines NH, Cheung MD, Wilson LS, Edberg JC, Erdmann NB, Schmaier AA, Berryhill TF, Manickas-Hill Z, Li JZ, Yu XG, Agarwal A, Barnes S, Parikh SM.
    NAD+ biosynthetic impairment and urinary metabolomic alterations observed in hospitalized adults with COVID-19-related acute kidney injury
    Kidney Int Rep. 2021 Sep 14. [doi: 10.1016/j.ekir.2021.09.001] Online ahead of print. PMID: 34541422
  5. Ziemanski JF, Wilson L, Barnes S, Nichols KK.
    Prostaglandin E2 and F2α Alter Expression of Select Cholesteryl Esters and Triacylglycerols Produced by Human Meibomian Gland Epithelial Cells
    Cornea. 2021 Sep 4. [doi: 10.1097/ICO.0000000000002835] Online ahead of print. PMID: 34483274
  6. Jeevan K. Prasain, Stephen Barnes, J. Michael Wyss
    Kudzu isoflavone C-glycosides: Analysis, biological activities, and metabolism
    Food Frontiers. First published: 06 August 2021. [doi: 10.1002/fft2.105]
  7. Hu M, Tiwary E, Prasain JK, Miller M, Serra R.
    Mechanisms of TGFß in prostaglandin synthesis and sperm guidance in Caenorhabditis elegans.
    Dev Dyn. 2021 Jul;250(7):932-942. [doi: 10.1002/dvdy.296] Epub 2021 Jan 23. PMID: 33410237
  8. Jia Li, Casey Morrow, Stephen Barnes, Landon Wilson, Erika D Womack, Amie McLain, Ceren Yarar-Fisher
    Gut microbiome composition and serum metabolome profile among individuals with spinal cord injury and normal glucose tolerance or prediabetes/type 2 diabetes
    Arch Phys Med Rehabil. 2021 Jun 11;S0003-9993(21)00438-X. [doi: 10.1016/j.apmr.2021.03.043] Online ahead of print.
  9. Safal Khanal, Yuqiang Bai, William Ngo, Kelly K Nichols, Landon Wilson, Stephen Barnes, Jason J Nichols
    Human Meibum and Tear Film Derived (O-Acyl)-Omega-Hydroxy Fatty Acids as Biomarkers of Tear Film Dynamics in Meibomian Gland Dysfunction and Dry Eye Disease
    Invest Ophthalmol Vis Sci. 2021 Jul 1;62(9):13. [doi: 10.1167/iovs.62.9.13] PMID: 34236383.
  10. Khanal S, Ngo W, Nichols KK, Wilson L, Barnes S, Nichols JJ.
    Human meibum and tear film derived (o-acyl)-omega-hydroxy fatty acids in meibomian gland dysfunction.
    Ocul Surf. Volume 21, July 2021, Pages 118-128. [doi: 10.1016/j.jtos.2021.05.009] PMID: 34052415.
  11. Ayanabha Chakraborti, Christopher Graham, Sophie Chehade, Bijal Vashi, Alan Umfress, Pradeep Kurup, Benjamin Vickers, H. Alexander Chen, Rahul Telange, Taylor Berryhill, William Van Der Pol, Mickie Powell, Stephen Barnes, Casey Morrow, Daniel L. Smith Jr., M. Shahid Mukhtar, Stephen Watts, Gregory Kennedy and James Bibb
    High Fructose Corn Syrup-Moderate Fat Diet Potentiates Anxio-Depressive Behavior and Alters Ventral Striatal Neuronal Signaling
    Front. Neurosci., 26 May 2021. [doi: 10.3389/fnins.2021.669410]
  12. Jillian F Ziemanski, Landon Wilson, Stephen Barnes, Kelly K Nichols
    Triacylglycerol lipidome from human meibomian gland epithelial cells: Description, response to culture conditions, and perspective on function
    Exp Eye Res. Volume 207, June 2021, 108573. [doi: 10.1016/j.exer.2021.108573]
  13. Lisa M Curtis, James George, Volker Vallon, Stephen Barnes, Victor M Darley-Usmar, Sucheta Mukul Vaingankar, Gary Cutter, Orlando Gutierrez, Michael Seifert, Joachim Ix, Ravindra Mehta, Paul W Sanders, Anupam Agarwal
    UAB-UCSD O'Brien Center for Acute Kidney Injury Research
    Am J Physiol Renal Physiol. 320: F870–F882, 2021. [doi: 10.1152/ajprenal.00661.2020] [PMID: 33779316]
  14. Mark Messina, Sonia Blanco Mejia, Aedin Cassidy, Alison Duncan, Mindy Kurzer, Chisato Nagato, Martin Ronis, Ian Rowland, John Sievenpipe, Stephen Barnes
    Neither soyfoods nor isoflavones warrant classification as endocrine disruptors: a technical review of the observational and clinical data
    Crit Rev Food Sci Nutr. 2021 Mar 27;1-57. [doi: 10.1080/10408398.2021.1895054] [PMID: 33775173]
  15. Oak ASW, Shafi R, Elsayed M, Mishra B, Bae S, Barnes S, Kashyap MP, Slominski AT, Wilson LS, Athar M, Elmets CA
    Dietary table grape protects against UV photodamage in humans: 2. molecular biomarker studies.
    J Am Acad Dermatol. 2021 Jan 20:S0190-9622(21)00184-5. [doi: 10.1016/j.jaad.2021.01.036] Online ahead of print. [PMID: 33484768]

2020

  1. Muhan Hu, David Crossman, Jeevan K Prasain, Michael A Miller, Rosa A Serra
    Transcriptomic Profiling of DAF-7/TGFβ Pathway Mutants in C. elegans
    Genes (Basel). 2020. [doi: 10.3390/genes11030288] [PMID: 32182864] [PMCID: PMC7140792]
  2. Jeevan K. Prasain, Stephen Barnes
    Cranberry polyphenols‐gut microbiota interactions and potential health benefits: An updated review
    Food Frontiers. Dec 30, 2020. [doi: 10.1002/fft2.56]
  3. Srivastava O, Srivastava K, Joseph R, Wilson L.
    Increased Association of Deamidated αA- N101D with Lens membrane of transgenic αA N101D vs. wild type αA mice: potential effects on intracellular ionic imbalance and membrane disorganization
    Ophthalmol. 2020 Dec 10;20(1):484. [doi: 10.1186/s12886-020-01734-0] [PMID: 33302904]
  4. Zengul AG, Demark-Wahnefried W, Barnes S, Morrow CD, Bertrand B, Berryhill TF, Frugé AD.
    Associations Between Dietary Fiber, the Fecal Microbiota and Estrogen Metabolism in Postmenopausal Women With Breast Cancer
    Nutr Cancer. 2020 Jun 26:1-10. [doi: 10.1080/01635581.2020.1784444] PMID: 32590914
  5. Manvi Sharma, Itika Arora, Matthew L. Stoll, Yuanyuan Li, Casey D. Morrow, Stephen Barnes, Taylor F. Berryhill, Shizhao Li, Trygve O. Tollefsbol
    Nutritional combinatorial impact on the gut microbiota and plasma short-chain fatty acids levels in the prevention of mammary cancer in Her2/neu estrogen receptor-negative transgenic mice
    [doi: 10.1101/2020.06.08.139865]
  6. Sharma NS, Vestal G, Wille K, Patel KK, Tipparaju S, Patel K, Menon S, Gaggar A, Xu X, Tousif S, Cheng F, Barnes S, Wilson LS, Lal CV, Dishaw L, Weill D, Dunning J, Hayes, Jr. D, Deshane JS, Liu R.
    Differences in airway microbiome and metabolome of single lung transplant recipients.
    J Clin Invest. 2019 Oct 14. pii: 127959. 2020 May 6;21(1):104. Respir Res. [PMC7201609] [doi:10.1186/s12931-020-01367-3 ]
  7. Hoffman JM, Poonawalla A, Icyuz M, Swindell WR, Wilson L, Barnes S, Sun LY.
    Transcriptomic and metabolomic profiling of long-lived growth hormone releasing hormone knock-out mice: evidence for altered mitochondrial function and amino acid metabolism.
    Aging (Albany NY). 2020 Feb 23;12. [doi: 10.18632/aging.102822] [Epub ahead of print] PMID:32091406
  8. Barnes S
    Overview of Experimental Methods and Study Design in Metabolomics, and Statistical and Pathway Considerations.
    Methods Mol Biol. 2020;2104:1-10. [doi: 10.1007/978-1-0716-0239-3_1] PMID:31953809
  9. Prasain, Jeevan K., Grubbs, Clinton, Barnes, Stephen.
    Cranberry anti-cancer compounds and their uptake and metabolism: An updated review.
    Journal of Berry Research, vol. 10, no. 1, pp. 1-10, 2020. [DOI: 10.3233/JBR-180370]

2019

  1. Larson-Casey JL, Vaid M, Gu L, He C, Cai GQ, Ding Q, Davis D, Berryhill TF, Wilson LS, Barnes S, Neighbors JD, Hohl RJ, Zimmerman KA, Yoder BK, Longhini ALF, Hanumanthu VS, Surolia R, Antony VB, Carter AB.
    Increased flux through the mevalonate pathway mediates fibrotic repair without injury.
    J Clin Invest. 2019 Nov 1;129(11):4962-4978. pii: 127959. [doi: 10.1172/JCI127959] [Epub ahead of print] [PMID: 31609245]
  2. Rainey K, Wilson L, Barnes S, Wu H.
    Quantitative Proteomics Uncovers the Interaction between a Virulence Factor and Mutanobactin Synthetases in Streptococcus mutans.
    mSphere. 2019 Sep 25;4(5). pii: e00429-19. [doi: 10.1128/mSphere.00429-19] [PMID: 31554721]
  3. Heaven MR, Wilson L, Barnes S, Brenner M.
    Relative stabilities of wild type and mutant glial fibrillary acidic protein in patients with Alexander disease.
    J Biol Chem. 2019 Sep 4. pii: jbc.RA119.009777. doi: 10.1074/jbc.RA119.009777. [Epub ahead of print] PMID: 31484723
  4. Ekta Tiwary, Muhan Hu, Michael A. Miller & Jeevan K. Prasain.
    Signature profile of cyclooxygenase-independent F2 series prostaglandins in C. elegans and their role in sperm motility.
    Sci Rep. 2019 Aug 13;9(1):11750. [doi: 10.1038/s41598-019-48062-y]
  5. Brad Griesenauer, Tuan M. Tran, Kate R. Fortney, Diane M. Janowicz, Paula Johnson, Hongyu Gao, Stephen Barnes, Landon S. Wilson, Yunlong Liu, Stanley M. Spinola.
    Determination of an Interaction Network between an Extracellular Bacterial Pathogen and the Human Host.
    mBio. [doi: 10.1128/mBio.01193-19]
  6. Chen J, Nichols KK, Wilson L, Barnes S, Nichols JJ.
    Untargeted lipidomic analysis of human tears: A new approach for quantification of O-acyl-omega hydroxy fatty acids.
    Ocul Surf. 2019 Feb 25. pii: S1542-0124(18)30352-5. doi: 10.1016/j.jtos.2019.02.004. [Epub ahead of print] Review. [PMID: 30818035]
  7. White CR, Datta G, Wilson L, Palgunachari MN, Anantharamaiah GM.
    The ApoA-I Mimetic Peptide 4F Protects Apolipoprotein A-I From Oxidative Damage.
    Chem Phys Lipids. 2019 Jan 29. pii: S0009-3084(18)30185-3. [doi: 10.1016/j.chemphyslip.2019.01.009] [Epub ahead of print] [PMID: 30707910]

2018

  1. Lin VY, Fain MD, Jackson PL, Berryhill TF, Wilson LS, Mazur M, Barnes SJ, Blalock JE, Raju SV, Rowe SM.
    Vaporized E-Cigarette Liquids Induce Ion Transport Dysfunction in Airway Epithelia.
    Am J Respir Cell Mol Biol. 2018 Dec 21. [doi: 10.1165/rcmb.2017-0432OC] [Epub ahead of print] [PMID: 30576219]
  2. Chumley P, Zhou J, Mrug S, Chacko BK, Parant JM, Challa AK, Wilson LS, Berryhill TF, Barnes S, Kesterson RA, Bell PD, Darley-Usmar VM, Yoder BK, Mrug M.
    Truncating PKHD1 and PKD2 mutations alter energy metabolism.
    Am J Physiol Renal Physiol. 2018 Dec 19. [doi: 10.1152/ajprenal.00167.2018] [Epub ahead of print] [PMID: 30566001]
  3. Boohaker L, Halloran B, Wilson L, Berryhill T, Barnes S, Griffin R, Askenazi D.
    Absorbent materials to collect urine can affect proteomics and metabolomic biomarker concentrations.
    Clin Chem Lab Med. 2018 Oct 31. pii: /j/cclm.ahead-of-print/cclm-2018-0931/cclm-2018-0931.xml. [doi: 10.1515/cclm-2018-0931] [Epub ahead of print] No abstract available. [ PMID: 30375345]
  4. Panthi S, Chen J, Wilson L, Nichols JJ.
    Detection of Lipid Mediators of Inflammation in the Human Tear Film
    Eye Contact Lens. 2018 Oct 5. [doi: 10.1097/ICL.0000000000000551] [Epub ahead of print] [ PMID: 30303825]
  5. Yarar-Fisher C, Kulkarni A, Li J, Farley P, Renfro C, Aslam H, Bosarge P, Wilson L, Barnes S.
    Evaluation of a ketogenic diet for improvement of neurological recovery in individuals with acute spinal cord injury: a pilot, randomized safety and feasibility trial.
    Spinal Cord Ser Cases. 2018 Sep 21;4:88. doi: 10.1038/s41394-018-0121-4. eCollection 2018. [ PMID: 30275980]
  6. Lal CV, Kandasamy J, Dolma K, Ramani M, Kumar R, Wilson L, Aghai ZH, Barnes S, Blalock JE, Gaggar A, Bhandari V, Ambalavanan N.
    Early Airway Microbial Metagenomic and Metabolomic Signatures are Associated with Development of Severe Bronchopulmonary Dysplasia.
    Am J Physiol Lung Cell Mol Physiol. 2018 Aug 16. [doi: 10.1152/ajplung.00085.2018] [Epub ahead of print] [ PMID: 30113227]
  7. Hough KP, Wilson LS, Trevor JL, Strenkowski JG, Maina N, Kim YI, Spell ML, Wang Y, Chanda D, Dager JR, Sharma NS, Curtiss M, Antony VB, Dransfield MT, Chaplin DD, Steele C, Barnes S, Duncan SR, Prasain JK, Thannickal VJ, Deshane JS.
    Unique Lipid Signatures of Extracellular Vesicles from the Airways of Asthmatics.
    Sci Rep. 2018 Jul 9;8(1):10340. [doi: 10.1038/s41598-018-28655-9] [ PMID: 29985427]
  8. Redmann M, Benavides GA, Wani WY, Berryhill TF, Ouyang X, Johnson MS, Ravi S, Mitra K, Barnes S, Darley-Usmar VM, Zhang J.
    Methods for assessing mitochondrial quality control mechanisms and cellular consequences in cell culture.
    Redox Biol. 2018 Jul;17:59-69. [doi: 10.1016/j.redox.2018.04.005] Epub 2018 Apr 10. [ PMID: 29677567]
  9. Kain V, Ingle KA, Kabarowski J, Barnes S, Limdi NA, Prabhu SD, Halade GV.
    Genetic deletion of 12/15 lipoxygenase promotes effective resolution of inflammation following myocardial infarction.
    J Mol Cell Cardiol. 2018 May;118:70-80. [doi: 10.1016/j.yjmcc.2018.03.004] Epub 2018 Mar 8.
  10. Kim T, Nason S, Holleman C, Pepin M, Wilson L, Berryhill TF, Wende AR, Steele C, Young ME, Barnes S, Drucker DJ, Finan B, DiMarchi R, Perez-Tilve D, Tschoep M, Habegger KM.
    Glucagon-receptor Signaling Regulates Energy Metabolism Via Hepatic Farnesoid X Receptor and Fibroblast Growth Factor 21.
    Diabetes. 2018 Jun 20. pii: db171502. [doi: 10.2337/db17-1502] [Epub ahead of print] [ PMID: 29925501]

2017

  1. Paul B, Royston KJ, Li Y, Stoll ML, Skibola CF, Wilson LS, Barnes S, Morrow CD, Tollefsbol TO.
    Impact of genistein on the gut microbiome of humanized mice and its role in breast tumor inhibition.
    PLoS One. 2017 Dec 21;12(12):e0189756. [doi: 10.1371/journal.pone.0189756] eCollection 2017. [ PMID: 29267377]
  2. Pier B, Edmonds JW, Wilson L, Arabshahi A, Moore R, Bates GW, Prasain JK, Miller MA
    Comprehensive profiling of prostaglandins in human ovarian follicular fluid using mass spectrometry.
    Prostaglandins Other Lipid Mediat. 2017 Nov 9. pii: S1098-8823(17)30098-9. [doi: 10.1016/j.prostaglandins.2017.11.001] [Epub ahead of print] [PMID: 29129796]
  3. Ge J, Cui H, Xie N, Banerjee S, Guo S, Dubey S, Barnes S, Liu G.
    Glutaminolysis Promotes Collagen Translation and Stability via α-ketoglutarate Mediated mTOR Activation and Proline Hydroxylation.
     Am J Respir Cell Mol Biol. 2017 Oct 11. [doi: 10.1165/rcmb.2017-0238OC] [Epub ahead of print] [PMID:29019707]
  4. Myers OD, Sumner SJ, Li S, Barnes S, Du X.
    Detailed Investigation and Comparison of the XCMS and MZmine 2 Chromatogram Construction and Chromatographic Peak Detection Methods for Preprocessing Mass Spectrometry Metabolomics Data.
    Anal Chem. 2017 Sep 5;89(17):8689-8695. [doi: 10.1021/acs.analchem.7b01069] Epub 2017 Aug 17. [PMID: 28752757]
  5. Myers OD, Sumner SJ, Li S, Barnes S, Du X.
    One Step Forward for Reducing False Positive and False Negative Compound Identifications from Mass Spectrometry Metabolomics Data: New Algorithms for Constructing Extracted Ion Chromatograms and Detecting Chromatographic Peaks.
    Anal Chem. 2017 Sep 5;89(17):8696-8703. [doi: 10.1021/acs.analchem.7b00947] Epub 2017 Aug 17. [PMID: 28752754]
  6. Prasain JK, Wilson LS, Arabshahi A, Grubbs C, Barnes S.
    Mass spectrometric evidence for the modification of small molecules in a cobalt-60-irradiated rodent diet.
    J Mass Spectrom. 2017 Aug;52(8):507-516. [doi: 10.1002/jms.3950] Erratum in: J Mass Spectrom. 2017 Oct;52(10 ):707.
    [ PMID: 28544323]
  7. Radka CD, DeLucas LJ, Wilson LS, Lawrenz MB, Perry RD, Aller SG.
    Crystal structure of Yersinia pestis virulence factor YfeA reveals two polyspecific metal-binding sites.
    Acta Crystallogr D Struct Biol. 2017 Jul 1;73(Pt 7):557-572. [doi: 10.1107/S2059798317006349] Epub 2017 Jun 30. [PMID:28695856]
  8. Redmann M, Benavides GA, Berryhill TF, Wani WY, Ouyang X, Johnson MS, Ravi S, Barnes S, Darley-Usmar VM, Zhang
    Inhibition of autophagy with bafilomycin and chloroquine decreases mitochondrial quality and bioenergetic function in primary neurons.
    J. Redox Biol. 2017 Apr;11:73-81. [doi: 10.1016/j.redox.2016.11.004] Epub 2016 Nov 18. [PMID:27889640]
  9. Jordan SJ, Olson KM, Barnes S, Wilson LS, Berryhill TF, Bakshi R, Brown LT, Press CG, Geisler WM.
    Lower Levels of Cervicovaginal Tryptophan are Associated with Natural Clearance of Chlamydia in Women.
     J Infect Dis. 2017 May 17. [Epub ahead of print] [doi: 10.1093/infdis/jix240] [PMID:28520912]
  10. Shamik Das, William P. Jackson, Jeevan K. Prasain, Ann Hanna, Sarah K. Bailey, J. Allan Tucker, Sejong Bae, Landon S. Wilson, Rajeev S. Samant, Stephen Barnes & Lalita A. Shevde
    Loss of Merlin induces metabolomic adaptation that engages dependence on Hedgehog signaling.
    Scientific Reports 7, Article number: 40773 [doi:10.1038/srep40773]
  11. Singh A, Rahman T, Bartiss R, Arabshahi A, Prasain J, Barnes S, Musteata FM, Sellati TJ.
    Lipoxin A4, a 5-lipoxygenase pathway metabolite, modulates immune response during acute respiratory tularemia.
    J Leukoc Biol. 2017 Feb;101(2):531-542. doi: 10.1189/jlb.4A0815-365RR. Epub 2016 Sep 14 [ PMID: 27630217]

2016

  1. Metabolomics - Fundamentals and Applications
    Edited by Jeevan K. Prasain, ISBN 978-953-51-2854-0, Print ISBN 978-953-51-2853-3, 214 pages,
    Publisher: InTech, Chapters published December 28, 2016 under CC BY 3.0 license [doi: 10.5772/62614] Edited Volume
  2. Jeevan K. Prasain, Rajani Rajbhandari, Adam B. Keeton, Gary A. Piazzab and Stephen Barnes.
    Metabolism and growth inhibitory activity of cranberry derived flavonoids in bladder cancer cells.
    Food Funct., 2016, Advance Article, [ doi: 10.1039/C6FO00499G]
  3. Raju SV, Lin VY, Liu L, McNicholas CM, Karki S, Sloane PA, Tang L, Jackson PL, Wang W, Wilson L, Macon KJ, Mazur M, Kappes J, DeLucas LJ, Barnes S, Kirk K, Tearney GT, Rowe SM.
    The CFTR Potentiator Ivacaftor Augments Mucociliary Clearance Abrogating CF
    TR Inhibition by Cigarette Smoke.
     Am J Respir Cell Mol Biol. 2016 Sep 1. [Epub ahead of print] [PMID:27585394]
  4. McClure ML, Barnes S, Brodsky JL, Sorscher EJ.
    Trafficking and Function of the Cystic Fibrosis Transmembrane Conductance Regulator: A Complex Network of Post-Translational Modifications.
     Am J Physiol Lung Cell Mol Physiol. 2016 Jul 29:ajplung.00431.2015. [doi: 10.1152/ajplung.00431.2015] [Epub ahead of print] [PMID: 27474090]
  5. Barnes S, Benton HP, Casazza K, Cooper SJ, Cui X, Du X, Engler J, Kabarowski JH, Li S, Pathmasiri W, Prasain JK, Renfrow MB, Tiwari HK.
    Training in metabolomics research. I. Designing the experiment, collecting and extracting samples and generating metabolomics data.
     J Mass Spectrom. 2016 Jul;51(7):461-75. [doi: 10.1002/jms.3782] [ PMID: 27434804]
  6. Chacko BK, Wall SB, Kramer PA, Ravi S, Mitchell T, Johnson MS, Wilson L, Barnes S, Landar A, Darley-Usmar VM.
    Pleiotropic effects of 4-hydroxynonenal on oxidative burst and phagocytosis in neutrophils.
     Redox Biol. 2016 Jun 23;9:57-66. [doi: 10.1016/j.redox.2016.06.003] [Epub ahead of print] [ PMID: 27393890]
  7. Heaven MR, Flint D, Randall SM, Sosunov AA, Wilson L, Barnes S, Goldman JE, Muddiman DC, Brenner M.
    Composition of Rosenthal Fibers, the Protein Aggregate Hallmark of Alexander Disease.
    J Proteome Res. 2016 Jul 1;15(7):2265-82. [doi: 10.1021/acs.jproteome.6b00316] Epub 2016 Jun 2. [ PMID: 27193225]
  8. Rao S, Walters KB, Wilson L, Chen B, Bolisetty S, Graves D, Barnes S, Agarwal A, Kabarowski JH.
    Early lipid changes in acute kidney injury using SWATH lipidomics coupled with MALDI tissue imaging.
    Am J Physiol Renal Physiol. 2016 Feb 24:ajprenal.00100.2016. [doi: 10.1152/ajprenal.00100.2016] [Epub ahead of print] [PMID: 26911846]
  9. Xie X, Wang X, Mick GJ, Kabarowski JH, Shay Wilson L, Barnes S, Walcott GP, Luo X, McCormick K.
    Effect of n-3 and n-6 Polyunsaturated Fatty Acids on Microsomal P450 Steroidogenic Enzyme Activities and In Vitro Cortisol Production in Adrenal Tissue from Male Yorkshire Boars.
    Endocrinology. 2016 Feb 18:en20151831. [Epub ahead of print] [PMID: 26889941]
  10. Smith MR, Vayalil PK, Zhou F, Benavides GA, Beggs RR, Golzarian H, Nijampatnam B, Oliver PG, Smith RA, Murphy MP, Velu SE, Landar A.
    Mitochondrial thiol modification by a targeted electrophile inhibits metabolism in breast adenocarcinoma cells by inhibiting enzyme activity and protein levels.
    Redox Biol. 2016 Jan 8;8:136-148. [doi: 10.1016/j.redox.2016.01.002] [Epub ahead of print] [PMID: 26774751] [PMCID: PMC4732023]

2015

  1. Black LL, Srivastava R, Schoeb TR, Moore RD, Barnes S, Kabarowski JH..
    Cholesterol-Independent Suppression of Lymphocyte Activation, Autoimmunity, and Glomerulonephritis by Apolipoprotein A-I in Normocholesterolemic Lupus-Prone Mice.
    J Immunol. 2015 Nov 15;195(10):4685-98. doi: 10.4049/jimmunol.1500806. Epub 2015 Oct 14. [PMID: 26466956]
  2. Jeevan K. Prasain, Landon Wilson, Hieu D. Hoang, Ray Moore and Michael A. Miller
    Comparative Lipidomics of Caenorhabditis elegans Metabolic Disease Models by SWATH Non-Targeted Tandem Mass Spectrometry
    Metabolites 2015, 5(4), 677-696; [doi:10.3390/metabo5040677]
  3. Ravi S, Johnson MS, Chacko BK, Kramer PA, Sawada H, Locy ML, Wilson LS, Barnes S, Marques MB, Darley-Usmar VM.
    Modification of platelet proteins by 4-hydroxynonenal: Potential Mechanisms for inhibition of aggregation and metabolism
    Free Radic Biol Med. 2015 Oct 14. pii: S0891-5849(15)01077-1. [doi: 10.1016/j.freeradbiomed.2015.10.408] [Epub ahead of print] [ PMID: 26475426]
  4. Pawlowski JW, Martin BR, McCabe GP, McCabe L, Jackson GS, Peacock M, Barnes S, Weaver CM.
    Impact of equol-producing capacity and soy-isoflavone profiles of supplements on bone calcium retention in postmenopausal women: a randomized crossover trial.
    Am J Clin Nutr. 2015 Sep;102(3):695-703. [doi: 10.3945/ajcn.114.093906]. Epub 2015 Aug 5. [ PMID: 26245807]
  5. Brossier NM1, Prechtl AM, Longo JF, Barnes S, Wilson LS, Byer SJ, Brosius SN, Carroll SL.
    Classic Ras Proteins Promote Proliferation and Survival via Distinct Phosphoproteome Alterations in Neurofibromin-Null Malignant Peripheral Nerve Sheath Tumor Cells.
    J Neuropathol Exp Neurol. 2015 Jun;74(6):568-86. [doi: 10.1097/NEN.0000000000000201] [PMID: 25946318]
  6. Lopez EL, Kabarowski JH, Ingle KA, Kain V, Barnes S, Crossman D, Lindsey ML, Halade GV.
    Obesity superimposed on aging magnifies inflammation and delays the resolving response after myocardial infarction.
    Am J Physiol Heart Circ Physiol. 2015 Feb 15;308(4):H269-80. [doi: 10.1152/ajpheart.00604.2014] Epub 2014 Dec 5. [ PMID: 25485899]
  7. Harper VM, Oh JY, Stapley R, Marques MB, Wilson L, Barnes S, Sun CW, Townes T, Patel RP.
    Peroxiredoxin-2 Recycling Is Inhibited During Erythrocyte Storage.
     Antioxid Redox Signal. 2015 Feb 1;22(4):294-307. [doi: 10.1089/ars.2014.5950] Epub 2014 Nov 10. [PMID: 25264713]

2014

  1. Landon Wilson, Ali Arabshahi, Brigitte Simons, Jeevan Prasain, Stephen Barnes
    Improved high sensitivity analysis of polyphenols and their metabolites by nano-liquid chromatography-mass spectrometry
    Arch Biochem Biophys. Author manuscript; available in PMC 2015 October 1. Published in final edited form as: Arch Biochem Biophys. 2014 October 1; 559: 3–11. Published online 2014 June 23. [doi: 10.1016/j.abb.2014.06.014] [ PMCID: PMC4143533]
  2. Kramer PA, Chacko BK, Ravi S, Johnson MS, Mitchell T, Barnes S, Arabshahi A, Dell'Italia LJ, George DJ, Steele C, George JF, Darley-Usmar VM, Melby SJ.
    Hemoglobin-associated oxidative stress in the pericardial compartment of postoperative cardiac surgery patients.
    Lab Invest. 2014 Dec 1. [doi: 10.1038/labinvest.2014.144] [Epub ahead of print] [PMID: 25437645]
  3. Nakatsu CH, Armstrong A, Clavijo AP, Martin BR, Barnes S, Weaver CM.
    Fecal bacterial community changes associated with isoflavone metabolites in postmenopausal women after soy bar consumption.
     PLoS One. 2014 Oct 1;9(10):e108924. [doi: 10.1371/journal.pone.0108924] eCollection 2014] [PMID: 25271941]
  4. Wilson L, Arabshahi A, Simons B, Prasain JK, Barnes S.
    Improved high sensitivity analysis of polyphenols and their metabolites by nano-liquid chromatography-mass spectrometry.
    Arch Biochem Biophys. 2014 Oct 1;559:3-11. [doi: 10.1016/j.abb.2014.06.014] [PMID: 24967696]
  5. McKnight K, Hoang HD, Prasain JK, Brown N, Vibbert J, Hollister KA, Moore R, Ragains JR, Reese J, Miller MA.
    Neurosensory perception of environmental cues modulates sperm motility critical for fertilization.
    Science. 2014 May 16;344(6185):754-7. [doi: 10.1126/science.1250598] [PMID: 24833393]
  6. Lee S, Henderson MJ, Schiffhauer E, Despanie J, Henry K, Kang PW, Walker D, McClure ML, Wilson L, Sorscher EJ, Zeitlin PL.
    Interference with ubiquitination in CFTR modifies stability of core glycosylated and cell surface pools.
    Mol Cell Biol. 2014 Apr 28. [Epub ahead of print] [PMID: 24777605]
  7. Glinskii OV, Li F, Wilson LS, Barnes S, Rittenhouse-Olson K, Barchi JJ Jr, Pienta KJ, Glinsky VV.
    Endothelial integrin α3β1 stabilizes carbohydrate-mediated tumor/endothelial cell adhesion and induces macromolecular signaling complex formation at the endothelial cell membrane.
    Oncotarget. 2014 Mar 15;5(5):1382-9. [PMID: 24675526] [PMCID: PMC4012737]
  8. Legette LL, Prasain J, King J, Arabshani A, Barnes S, Weaver CM.
    Pharmacokinetics of Equol, a Soy Isoflavone Metabolite, Changes with Form of Equol (Dietary vs. Intestinal Production) in Ovariectomized Rats.
    J Agric Food Chem. 2014 Feb 12;62(6):1294-300. [doi: 10.1021/jf400097m] Epub 2014 Jan 29. [PMID: 24446705]

2013

  1. Parks BW, Black LL, Zimmerman KA, Metz AE, Steele C, Murphy-Ullrich JE, Kabarowski JH.
    CD36, but not G2A, modulates efferocytosis, inflammation, and fibrosis following bleomycin-induced lung injury.
    J Lipid Res. 2013 Apr;54(4):1114-23. doi: 10.1194/jlr.M035352. Epub 2013 Feb 6. [PMID: 23393303]
  2. Cutts JK, Peavy TR, Moore DR, Prasain J, Barnes S, Kim H.
    Ovariectomy lowers urine levels of unconjugated (+)-catechin, (-)-epicatechin, and their methylated metabolites in rats fed grape seed extract.
    Horm Mol Biol Clin Investig. 2013 Dec;16(3):129-38. [doi: 10.1515/hmbci-2013-0044] [ PMID: 25436866]
  3. Whitehouse-Tedd K, Cave N, Ugarte C, Tucker L, Prasain JK, Arabshahi A, Barnes S, Hendriks W, Thomas D.
    Isoflavone metabolism in domestic cats (Felis catus): comparison of plasma metabolites detected after ingestion of two different dietary forms of genistein and daidzein.
    J Anim Sci. 2013 Mar;91(3):1295-306. [PMID: 23307849] [doi: 10.2527/jas.2011-4812]
  4. Viera L, Radmilovich M, Vargas MR, Dennys CN, Wilson L, Barnes S, Franco MC, Beckman JS, Estévez AG.
    Temporal patterns of tyrosine nitration in embryo heart development.
     Free Radic Biol Med. 2013 Feb;55:101-8. [PMID: 23195686]
  5. Franco MC, Ye Y, Refakis C, Feldman JL, Stokes AL, Basso M, Melero Fernández de Mera RM, Calingasan NY, Kiaei M, Barnes S, Beal MF, Beckman JS, Mehl R, Estévez AG.
    Nitration of Hsp90 induces cell death.
    PNAS, 110:E1102-11. [PMCID: PMC3607042]
  6. Bolisetty S, Traylor AM, Zarjou A, Johnson MS, Benavides GA, Ricart K, Boddu R, Moore RD, Landar A, Barnes S, Darley-Usmar VM, Agarwal A.
    Mitochondria-targeted heme oxygenase-1 decreases oxidative stress in renal epithelial cells.
     Am J Physiol Renal Physiol. 2013 305:F255-F264 [PMID: 23720344]
  7. Mitchell T, Johnson MS, Ouyang O, Chacko BK, Mitra K, Lei X, Gai Y, Moore DR, Barnes S, Zhang J, Koizumi A, Ramanadham S, Darley-Usmar. VM.
    Dysfunctional mitochondrial bioenergetics and oxidative stress in Akita+/Ins2-derived β-cells.
    Am J Physiol Endocrinol Metab. 2013 Jul 2. [Epub ahead of print] [PMID: 23820623]
  8. Ulasova E, Perez J, Hill BG, Dubuisson JG, Bradley WE, Garber DW, Landar A, Barnes S, Prasain J, Parks DA, Dell’Italia LJ, Darley-Usmar VM.
    Quercetin prevents left ventricular hypertrophy in the Apo E knockout mouse.
    Redox Biol. 2013 Jul 16;1(1):381-6. [PMID: 24024175]
  9. Wetta LA, Biggio JR, Cliver S, Abramovici A, Barnes S, Tita AT.
    Is Midtrimester Vitamin D Status Associated with Spontaneous Preterm Birth and Preeclampsia?
    Am J Perinatol. 2013 Sep 10. [Epub ahead of print] [PMID: 24022379]
  10. Han SM, El Oussini H, Scekic-Zahirovic J, Vibbert J, Cottee P, Prasain JK, Bellen HJ, Dupuis L, Miller MA.
    VAPB/ALS8 MSP Ligands Regulate Striated Muscle Energy Metabolism Critical for Adult Survival in Caenorhabditis elegans.
    PLoS Genet. 2013 Sep;9(9):e1003738. [PMID: 24039594] [doi: 10.1371/journal.pgen.1003738] Epub 2013 Sep 5.
  11. Jeevan K. Prasain, Hieu D. Hoang, Johnathan W. Edmonds, Michael A. Miller
    Prostaglandin Extraction and Analysis in Caenorhabditis elegans
    Advances in Bioinformatics, J. Vis. Exp. (76), e50447 (2013) [doi:10.3791/50447]
  12. Chiquito Crasto, Chandrahas Narne, Mikako Kawai, Landon Wilson and Stephen Barnes
    MRMPath and MRMutation, Facilitating Discovery of Mass Transitions for Proteotypic Peptides in Biological Pathways Using a Bioinformatics Approach
    Advances in Bioinformatics, vol. 2013, Article ID 527295, 10 pages, 2013. [doi: 10.1155/2013/527295]
  13. Hieu D. Hoang, Jeevan K. Prasain, Dixon Dorand, Michael A. Miller
    A Heterogeneous Mixture of F-Series Prostaglandins Promotes Sperm Guidance in the Caenorhabditis elegans Reproductive Tract
    PLoS Genet 9(1): e1003271 [doi:10.1371/journal.pgen.1003271]
  14. Jeevan K. Prasain, Alireza Arabshahi, Pam R. Taub, Scott Sweeney, Ray Moore, J. Daniel Sharer, Stephen Barnes.
    Simultaneous quantification of F2-isoprostanes and prostaglandins in human urine by liquid chromatography tandem-mass spectrometry
    Journal of Chromatography B. Volumes 913–914, 15 January 2013, Pages 161–168 [doi: 10.1016/j.jchromb.2012.12.009]

2012

  1. Prasain JK, Peng N, Rajbhandari R, Wyss JM.
    The Chinese Pueraria root extract (Pueraria lobata) ameliorates impaired glucose and lipid metabolism in obese mice.
    Phytomedicine. 2012 Nov 1. pii: S0944-7113(12)00353-4. doi: 10.1016/j.phymed.2012.09.017. [PMID: 23123226] [Epub ahead of print]
  2. He L, Kim T, Long Q, Liu J, Wang P, Zhou Y, Ding Y, Prasain J, Wood PA, Yang Q.
    Carnitine Palmitoyltransferase-1b (CPT1b) Deficiency Aggravates Pressure-Overload-Induced Cardiac Hypertrophy due to Lipotoxicity.
    Circulation. 2012 Aug 29. [Epub ahead of print] [PMID: 22932257]
  3. C. Roger White, Geeta Datta, Amanda K. W. Buck, Manjula Chaddha, Gautam Reddy, Landon Wilson, Mayakonda N. Palgunachari, Mohammad Abbasi and G. M. Anantharamaiah
    Preservation of biological function despite oxidative modifi cation of the apolipoprotein A-I mimetic peptide 4F
    J Lipid Res. Aug;53(8):1576-87 [PMID: 22589558] [DOI 10.1194/jlr.M026278]
  4. Higdon A, Landar A, Barnes S, Darley-Usmar VM.
    The Electrophile Responsive Proteome: Integrating Proteomics and Lipidomics with Cellular Function.
    Antioxidants & Redox Signaling, 2012 Feb 21 [Epub ahead of print] [PMID: 22352679]
  5. Wong WW, Taylor AA, E. Smith EO, Barnes S, Hachey DL.
    Effect of soy isoflavone supplementation on nitric oxide metabolism and blood pressure in menopausal women.
    American Journal of Clinical Nutrition. American Journal of Clinical Nutrition, 2012 Jun;95(6):1487-94. [PMID: 22552034]
  6. Li H, Cao, Z, Moore DR, Patricia L. Jackson PL, Barnes S, Lambeth JD, Thannickal VJ, Cheng G.
    Microbicidal Activity of VPO1 in Human Plasma via Generation of HOCl. Li H, Cao, Z, Moore DR, Patricia L. Jackson PL, Barnes S, Lambeth JD, Thannickal VJ, Cheng G. Microbicidal Activity of VPO1 in Human Plasma via Generation of HOCl.
    Infection and Immunity. 2012 Apr 23. [Epub ahead of print] [PMID: 22526679]
  7. Edited by: Jeevan K. Prasain
    Tandem Mass Spectrometry - Applications and Principles
    ISBN 978-953-51-0141-3, Hard cover, 794 pages
    Publisher: InTech, Free Online Book
    Publication date: February 2012
  8. McClure M, DeLucas LJ, Wilson L, Ray M, Rowe SM, Wu X, Dai Q, Hong JS, Sorscher EJ, Kappes JC, Barnes S.
    Purification of CFTR for mass spectrometry analysis: identification of palmitoylation and other post-translational modifications.
    Protein Eng Des Sel. 2012 Jan;25(1):7-14. Epub 2011 Nov 25. [PMID: 22119790] [PMCID: PMC3276306]

2011

  1. Srivastava R, Yu S, Parks BW, Black LL, Kabarowski JH.
    Autoimmune-mediated reduction of high-density lipoprotein-cholesterol and paraoxonase 1 activity in systemic lupus erythematosus-prone gld mice.
    Arthritis Rheum. 2011 Jan;63(1):201-11. doi: 10.1002/art.27764. [PMID: 20882670]
  2. Whitehouse-Tedd KM, Cave NJ, Ugarte CE, Waldron LA, Prasain JK, Arabshahi A, Barnes S, Thomas DG.
    Dietary isoflavone absorption, excretion, and metabolism in captive cheetahs (Acinonyx jubatus).
    J Zoo Wildl Med. 2011 Dec;42(4):658-70. [PMID: 22204061] [doi:10.1638/2011-0060.1]
  3. Edmonds JW, McKinney SL, Prasain JK, Miller MA.
    The gap junctional protein INX-14 functions in oocyte precursors to promote C. elegans sperm guidance.
    Dev Biol. 2011 Nov 1;359(1):47-58. Epub 2011 Aug 25. [PMID: 21889935] [PMCID: PMC3192278]
  4. Li FJ, Kubagawa Y, McCollum MK, Wilson L, Motohashi T, Bertoli LF, Barton JC, Barnes S, Davis RS, Kubagawa H.
    Enhanced levels of both membrane-bound and soluble forms of IgM Fc receptor in patients with chronic lymphocytic leukemia.
    Blood. 2011 Nov 3;118(18):4902-9. [PMID: 21908424]
  5. Buckoreelall K, Wilson L, Parker WB.
    Identification and characterization of two adenosine phosphorylase activities in Mycobacterium smegmatis.
    J Bacteriol. 2011 Oct;193(20):5668-74 [PMID: 21821769] [doi:10.1128/JB.05394-11]
  6. Frölich MA, Arabshahi A, Katholi C, Prasain J, Barnes S.
    Hemodynamic characteristics of midazolam, propofol, and dexmedetomidine in healthy volunteers. J Clin Anesth. 2011 May;23(3):218-23. [PMID: 21570617]
  7. Barnes S, Prasain J, D'Alessandro T, Arabshahi A, Botting N, Lila MA, Jackson G, Janle EM, Weaver CM.
    The metabolism and analysis of isoflavones and other dietary polyphenols in foods and biological systems.
    Food Funct. 2011 May 25;2(5):235-44. [PMID: 21779561] [DOI: 10.1039/C1FO10025D]
  8. Li F, Glinskii OV, Zhou J, Wilson LS, Barnes S, Anthony DC, Glinsky VV.
    Identification and analysis of signaling networks potentially involved in breast carcinoma metastasis to the brain.
    PLoS One. 2011;6(7):e21977. [PMID: 21779361]
  9. Anderson JT, Zeng M, Li Q, Stapley R, Moore DR 2nd, Chenna B, Fineberg N, Zmijewski J, Eltoum IE, Siegal GP, Gaggar A, Barnes S, Velu SE, Thannickal VJ, Abraham E, Patel RP, Lancaster JR Jr, Chaplin DD, Dransfield MT, Deshane JS.
    Elevated levels of NO are localized to distal airways in asthma.
    Free Radic Biol Med. 2011, 50(11):1679-88 [PMID:21419218]
  10. Floyd KA, Stella DR, Wang CC, Laurentz S, McCabe GP, Srivastava OP, Barnes S.
    Genistein and genistein-containing dietary supplements accelerate the early stages of cataractogenesis in the male ICR/f rat.
    Exp Eye Res. 2011, 92(2):120-7. [PMID: 21147102] [PMCID:PMC3034771]
  11. Rajbhandari, R, Peng, N, Moore, DR, Arabshahi, A, Wyss, JM, Barnes S, Jeevan K. Prasain JK.
    Determination of cranberry phenolic metabolites in rats by liquid chromatography-tandem mass spectrometry.
    J Agric Food Chem, 2011, 59(12):6682-8. [PMID: 21634376]
  12. Mirza S, Wilson L, Benjamin WH Jr, Novak J, Barnes S, Hollingshead SK, Briles DE.
    Serine protease PrtA from Streptococcus pneumoniae plays a role in the killing of S. pneumoniae by apolactoferrin.
    Infect Immun. 2011 79(6):2440-50. [PMID:21422179]
  13. Byer SJ, Eckert JM, Brossier NM, Clodfelder-Miller BJ, Turk AN, Carroll AJ, Kappes JC, Zinn KR, Prasain JK, Carroll SL.
    Tamoxifen inhibits malignant peripheral nerve sheath tumor growth in an estrogen receptor-independent manner.
    Neuro Oncol. 2011, 13(1):28-41. [PMID:21075781]
  14. Pressey JG, Pressey CS, Robinson G, Herring R, Wilson L, Kelly DR, Kim H.
    2D-difference gel electrophoretic proteomic analysis of a cell culture model of alveolar rhabdomyosarcoma.
    J Proteome Res. 2011, 10(2):624-36. Epub 2011 Jan 10. [PMID:21110518] [PMCID:PMC3071502]
  15. DeAngelis JT, Li Y, Mitchell N, Wilson L, Kim H, Tollefsbol TO.
    2D difference gel electrophoresis analysis of different time points during the course of neoplastic transformation of human mammary epithelial cells.
    J Proteome Res. 2011, 10(2):447-58. [PMID:21105747]

2010

  1. Edmonds JW, Prasain JK, Dorand D, Yang Y, Hoang HD, Vibbert J, Kubagawa HM, Miller MA.
    Insulin/FOXO Signaling Regulates Ovarian Prostaglandins Critical for Reproduction.
    Dev Cell. 2010 Dec 14;19(6):858-71. [PMID: 21145501]
  2. Deangelis JT, Li Y, Mitchell N, Wilson L, Kim H, Tollefsbol T.
    2D Difference Gel Electrophoresis Analysis of Different Time Points During the Course of Neoplastic Transformation of Human Mammary Epithelial Cells.
    J Proteome Res. 2010 Nov 24. [Epub ahead of print] [PMID: 21105747] [DOI: 10.1021/pr100533k]
  3. Snelgrove RJ, Jackson PL, Hardison MT, Noerager BD, Kinloch A, Gaggar A, Shastry S, Rowe SM, Shim YM, Hussell T, Blalock JE.
    A critical role for LTA4H in limiting chronic pulmonary neutrophilic inflammation.
    Science. 2010 Oct 1;330(6000):90-4. [PMID 20813919]
  4. Byer SJ, Eckert JM, Brossier NM, Clodfelder-Miller BJ, Turk AN, Carroll AJ, Kappes JC, Zinn KR, Prasain JK, Carroll SL.
    Tamoxifen inhibits malignant peripheral nerve sheath tumor growth in an estrogen receptor-independent manner.
    Neuro Oncol. 2010 Nov 12. [Epub ahead of print] [PMID: 21075781]
  5. Stella DR, Floyd KA, Grey AC, Renfrow MB, Schey KL, Barnes S.
    Tissue localization and solubilities of {alpha}A-crystallin and its numerous C-terminal truncation products in pre- and post-cataractous ICR/f rat lenses.
    Invest Ophthalmol Vis Sci. 2010 Oct;51(10):5153-61. [PMID: 20435586]
  6. Raska M, Takahashi K, Czernekova L, Zachova K, Hall S, Moldoveanu Z, Elliot MC, Wilson L, Brown R, Jancova D, Barnes S, Vrbkova J, Tomana M, Smith PD, Mestecky J, Renfrow MB, Novak J.
    Glycosylation patterns of HIV-1 gp120 depend on the type of expressing cells and affect antibody recognition.
    J Biol Chem. 2010 Jul 2;285(27):20860-9. [PMID: 20439465]

2009

  1. Pyle LC, Fulton JC, Sloane PA, Backer K, Mazur M, Prasain J, Barnes S, Clancy JP, Rowe SM.
    Activation of CFTR by the Flavonoid Quercetin: Potential Use as a Biomarker of ΔF508 CFTR Rescue
    Am J Respir Cell Mol Biol. 2009 Dec 30. [PMID: 20042712]
  2. Peng N, Prasain JK, Dai Y, Moore R, Arabshahi A, Barnes S, Carlson S, Wyss JM.
    Chronic dietary kudzu isoflavones improve components of metabolic syndrome in stroke-prone spontaneously hypertensive rats.
    J Agric Food Chem. 26;57(16):7268-73, 2009. [PMID: 19938872]
  3. Prasain JK, Peng N, Dai Y, Moore R, Arabshahi A, Wilson L, Barnes S, Michael Wyss J, Kim H, Watts RL.
    Liquid chromatography tandem mass spectrometry identification of proanthocyanidins in rat plasma after oral administration of grape seed extract.
    Phytomedicine, 16(2-3):233-43, 2009. [PMID: 19095430]
  4. Prasain JK, Peng N, Moore R, Arabshahi A, Barnes S, Wyss JM.
    Tissue distribution of puerarin and its conjugated metabolites in rats assessed by liquid chromatography-tandem mass spectrometry.
    Phytomedicine, 16(1); 65-71, 2009. [PMID: 19027277]
  5. Wong WW, Lewis RD, Steinberg FM, Murray MJ, Cramer MA, Amato P, Young RL, Barnes S, Ellis KJ, Shypailo RJ, Fraley JK, Konzelmann KL, Fischer JG, Smith EO.
    Soy isoflavone supplementation and bone mineral density in menopausal women: a 2-y multicenter clinical trial.
    Am J Clin Nutr. 2009 Sep 16. Epub 2009 Sep 16. [DOI: 10.3945/ajcn.2009.28001] [PMID: 19759166]
  6. Cox KB, Liu J, Tian L, Barnes S, Yang Q, Wood PA.
    Cardiac hypertrophy in mice with long-chain acyl-CoA dehydrogenase or very long-chain acyl-CoA dehydrogenase deficiency.
    Laboratory Investigation, 2009 Sep 7. [ DOI: 10.1038/labinvest.2009.86] [PMID: 19736549]
  7. Kim, Helen.
    Mass Spectrometry for non-mass spectroscopists.
    INVITED BOOK EDITORSHIP for Methods in Molecular Biology series, John Walker, ed. Humana Press., Slated for 2009.
  8. Kim, Helen.
    Proteomics and Mass Spectrometry approaches in the study of actions of dietary bioactive phytochemicals.
    INVITED BOOK EDITORSHIP for Methods in Molecular Biology series, John Walker, ed. Humana Press, slated for 2010.

2008

  1. Mullany LC, Khatry SK, Sherchand JB, LeClerq SC, Darmstadt GL, Katz J, Gauchan P, Adhikari RK, Rana A, Tielsch JM.
    A randomized controlled trial of the impact of chlorhexidine skin cleansing on bacterial colonization of hospital-born infants in Nepal.
    Pediatr Infect Dis J. 27(6):505-11, 2008. [PMID: 18449064]
  2. Prasain JK, Arabshahi A, Moore R, Barnes S, Carroll SL.
    A liquid chromatography mass spectrometry assay for determination of PD168393, a specific and irreversible inhibitor of erbB membrane tyrosine kinases, in rat serum.
    Journal of Chromatogr B. 876(2): 219-224, 2008
  3. Prasain J.K., Jones, K., Moore, D.R., Barnes, S., Leahy, M., Roderick, R., Juliana, M.M. and Grubbs, C.J.
    Effect of cranberry juice concentrate on chemically-induced urinary bladder cancers.
    Oncology Reports, 19: 1565-1570, 2008.
  4. Sarkar P, Sarkar S, Ramesh V, Kim H, Barnes S., Kulkarni A, Hall JC, Wilson BL, Thomas RL, Pellis NR, Ramesh GT.
    Proteomic Analysis of Mouse Hypothalamus under Simulated Microgravity.
    Neurochem Res. 33(11):2335-41, 2008.
  5. Barnes, S., Shonsey, E.M., Eliuk, S.M., Stella, D., Mafia, K., Kim, H., Srivastava, O.P., Renfrow, M.B.
    High-resolution mass spectrometry and inactivation of protein targets during oxidant stress.
    Biochemical Society Transactions, 36(Pt 5): 1037-44, 2008.
  6. Kim, H., Cope, M., Herring, R., Robinson, G., Wilson, L., Page, G.P., Barnes, S.
    2D Difference Gel Electrophoresis of Prepubertal and Pubertal Rat Mammary Gland Proteomes.
    Journal of Proteome Research, 7(11): 4638-4650, 2008.
  7. Barnes, S., Birt, D.F., Cassileth, B.R. Cefalu, W.T., Chilton, F.H., Farnsworth, N.R., Raskin, I., van Breemen, R.B., Weaver, C.M.
    Technologies and experimental approaches in the NIH Botanical Research Centers.
    American Journal of Clinical Nutrition, 87(2): 476S-80S, 2008.
  8. Shonsey, E.M., Eliuk, S.M., Johnson, M.S., Barnes, S., Falany, C.N , Darley-Usmar, V.M. and Renfrow, M.B.
    Inactivation of human liver bile acid CoA:amino acid N-acyltransferase by the electrophilic lipid, 4-hydroxynonenal.
    Journal of Lipid Research, 49(2): 282-94, 2008.
  9. Weaver, C.M., Barnes, S.,Wyss, J.M., Kim, H., Morré, D.M., Morré, D.J., Simon, J.E., Lila, M.A., Janle, E.M., Ferruzzi, M.G..
    Botanicals for age-related diseases: from field to practice.
    American Journal of Clinical Nutrition, 87(2): 493S-7S, 2008

2007

  1. Prasain, J., Peng, N., Acosta, E., Moore, D.R., Arabshahi, A., Meezan, E., Barnes, S., Wyss, J.M.
    Pharmacokinetic study of puerarin in rat serum by liquid chromatography tandem mass spectrometry.
    Biomedical Chromatography, 21:410-414, 2007.
  2. Ye, Y., Celia Quijano, C., Robinson, K.M., Ricart, K.C., Strayer, A.L., Shacka, J.J., Kirk, M., Barnes, S., Radi, R., Beckman, J.S., Estévez, A.G.
    Prevention of Peroxynitrite-induced Apoptosis of Motor Neurons and PC12 Cells by Tyrosine-containing Peptides.
    Journal of Biological Chemistry, 282: 6324-6337, 2007.
  3. Lee, S.A., Wen, W, Xiang, Y.B., Barnes, S., Liu, D.K., Cai, Q., Zheng, W., Shu, X.O.
    Assessment of dietary isoflavone intake among middle age Chinese men.
    Journal of Nutrition, 137: 1011-1016, 2007.
  4. Sites, C.K., Cooper, B.C., Toth, M.J., Gastaldelli, A., Arabshahi, A., Barnes, S.
    Effect of a Daily Supplement of Soy Isoflavones on Body Composition and Insulin Secretion in Postmenopausal Women.
    Fertility and Sterility, in press, 2007.
  5. Zhang, H-G., Kim, H., Liu, C., Yu, S., Wang, J, Zhang, L., Grizzle, W.E., Kimberly, R.P., and Barnes, S.
    Curcumin reverses breast tumor exosomes mediated immune suppression of NK cell tumor cytotoxicity.
    Biochimica et Biophysica Acta, 1773: 1116-1123, 2007.
  6. Kim H, Eliuk S, Deshane J, Meleth S, Sanderson T, Pinner A, Robinson G, Wilson L, Kirk M, Barnes S.
    2D gel proteomics: an approach to study age-related differences in protein abundance or isoform complexity in biological samples.
    Methods in Molecular Biology 371:349-391, 2007.
  7. Eliuk S.M., Renfrow, M.B., Shonsey, E., Kirk, M.C., Barnes, S., Kim, H.
    Active site modification of cytosolic creatine kinase by 4-hydroxy-2-nonenal correlates with reduction in activity.
    Chemical Research in Toxicology, 20:1260-1268, 2007.
  8. Prasain JK, Reppert A, Jones K, Moore DR 2nd, Barnes S, Lila MA.
    Identification of isoflavone glycosides in Pueraria lobata cultures by tandem mass spectrometry.
    Phytochem Anal. Jan;18(1):50-9, 2007.
  9. Prasain, J.K., Barnes, S.
    Metabolism and bioavailability of flavonoids in chemoprevention: current analytical strategies and future prospectus.
    Molecular Pharmaceutics. 4 (6), 846-864, 2007.
  10. Goldstein RF, Niraj A, Sanderson TP, Wilson LS, Rab A, Kim H, Bebok Z, Collawn JF.
    VCP/p97 AAA-ATPase Does not Interact with the Endogenous Wild-Type CFTR.
    Am J Respir Cell Mol Biol. 36: 706-714, 2007

2006

  1. Parks BW, Lusis AJ, Kabarowski JH..
    Loss of the lysophosphatidylcholine effector, G2A, ameliorates aortic atherosclerosis in low-density lipoprotein receptor knockout mice.
    Arterioscler Thromb Vasc Biol. 2006 Dec;26(12):2703-9. Epub 2006 Sep 21. [PMID: 16990555]
  2. Poonam Sarkar, Shubhashish Sarkar, Vani Ramesh, Barbara E. Hayes, Renard L. Thomas, Bobby L. Wilson, Helen Kim, Stephen Barnes, Anil Kulkarni, Neal Pellis, and Govindarajan T. Ramesh
    Proteomic Analysis of Mice Hippocampus in Simulated Microgravity Environment
    Journal of Proteome Research, 5, 548-553, 2006.
  3. Barnes, S., Prasain, J.K., Wang, C-C., Moore, D.R., II.
    Applications of LC-MS in the study of the uptake, distribution, metabolism and excretion of bioactive polyphenols from dietary supplements.
    Life Sciences, Feb 2, 2006.
  4. Landar, A., Giles, N.M., Oh, J-Y., Foxwell, A., Kirk, M., Barnes, S., and Darley-Usmar, V.M.
    A sensitive method for the quantitative measurement of protein thiol modification in response to oxidative stress.
    Free Radical Biology and Medicine, 40, 459-468,, 2006.
  5. Horn-Ross, P.L., Barnes, S., Lee, V.S., Collins, C.N., Reynolds, P., Lee, M.M., Stewart, S.L., Canchola, A.J., Wilson, L., Jones, K.
    Reliability and Validity of an Assessment of Usual Phytoestrogen Consumption.
    Cancer Causes and Control, 17:85-93, 2006.
  6. Helen Kim, Jessy Deshane, Stephen Barnes, Sreelatha Meleth
    Proteomics analysis of the actions of grape seed extract in rat brain: technological and biological implications for the study of the actions of psychoactive compounds.
    Life Sciences 78: 2060-2065, 2006.
  7. Helen Kim, Shannon Eliuk, and Jessy Deshane, Stephen Barnes, Sreelatha Meleth
    Nutriproteomics Approach to Understanding Dementia-Relevant Brain Protein Changes in Response to Grape Seed Extract, a Dietary Antioxidant
    Oxidative Stress and Age-Related Neurodegeneration edited by Yuan Luo
    CRC Press, 2006, Chapter 26, ISBN: 0849337259
  8. Huang, C.M., Wang, C.C., Kawai, M., Barnes, S., and Elmets, C.A.
    Surfactant sodium lauryl sulfate enhances skin vaccination: Molecular characterization via a novel technique using ultrafiltration capillaries and mass spectrometric proteomics.
    Molecular & Cellular Proteomics 5:523-532, 2006.
  9. Hsu, H.C., Zhou, T., Kim, H., Barnes, S., Yang, P., Wu, Q., Zhou, J., Freeman, B.A., Luo, M., Mountz, J.D.
    Production of a novel class of polyreactive pathogenic autoantibodies in BXD2 mice causes glomerulonephritis and arthritis.
    Arthritis & Rheumatism 54: 343-355, 2006.
  10. Huang, C.M., Wang, C-C., Kawai, M., Barnes, S., Elmets, C.A.
    In vivo protein sampling using capillary ultrafiltration semi-permeable hollow fiber and protein identification via mass spectrometry-based proteomics.
    J Chromatogr A, 1109: 144-151, 2006.
  11. Barnes, S.
    In the postgenomic era, can high-dimensional analyses deliver the answers we're looking for?
    Journal of Nutrition 136: 2709S-2710S, 2006.
  12. Huang CM, Ananthaswamy HN, Barnes S, Ma Y, Kawai M, Elmets CA.
    Mass spectrometric proteomics profiles of in vivo tumor secretomes: Capillary ultrafiltration sampling of regressive tumor masses.
    Proteomics 6: 6107-6116, 2006.
  13. Prasain, J.K., Reppert, A., Jones, K., Moore, D.R., II, Barnes, S., and Lila, M.A.
    Identification of Isoflavone Glycosides in Pueraria lobata Cultures by Tandem Mass Spectrometry.
    Phytochemical Analysis, 18: 50-59, 2006.
  14. Prasain, J.K., Xu, J., Kirk, M., Smith, M., Sfakianos, J., and Barnes, S.
    Differential biliary excretion of genistein metabolites following intraduodenal and intravenous infusion of genistin in female rats.
    Journal of Nutrition, 136:2975-2979, 2006.

2005

  1. Barnes, S., Prasain, J.K.
    Current Progress in the use of Traditional Medicines and Nutraceuticals.
    Current Opinions in Plant Biology, 8: 324-328, 2005.
  2. Allison, D.B., Cutter, G., Poehlman E.T., Moore, D.R. II, Barnes, S.
    Exactly which synephrine alkaloids does Citrus Aurantium (bitter orange) contain?
    International Journal of Obesity, 29:443-446, 2005.
  3. Cai, J., Zhao, Y., Glasier, J., Cullen, D., Barnes, S., Turner, C., and Weaver, C.
    Comparative effect of soy protein, soy isoflavones and 17β-estradiol on bone metabolism in adult ovariectomized rats.
    Journal of Bone and Mineral Research, 20: 828-839, 2005.
  4. Prasain JK, Moore DR, Barnes S, van Kuijk FJGM.
    Electrospray Tandem Mass Spectrometric Analysis of Carotenoids and their Oxidation Products.
    Journal of Mass Spectrometry, 40: 916-923, 2005.
  5. Hedlund, T.E., Maroni, P.D., Ferucci, P.G., Dayton, R., Barnes, S., Jones, R., Moore, D.R., Ogden, L.G., Wähälä, K., Sackett, H.M, and Gray, K.J.
    Long-term dietary habits affect soy isoflavone metabolism and accumulation in prostatic fluid in caucasian men.
    Journal of Nutrition, 135: 1400-1406, 2005.
  6. Uppala, P.T., Roy, S.K., Tousson, A., Barnes, S., Uppala, G.R., and Eastmond, D.A.
    Induction of cell proliferation, micronuclei and hyperdiploidy/polyploidy in the mammary cells of DDT- and DMBA-treated pubertal rats.
    Environmental and Molecular Mutagenesis, 46, E Pub, 2005.
  7. Chacko, B.K., Robert Chandler, R.T., Mundhekar, A., Pruitt, H.M., Kucik, D.F., Kevil, C.G., Barnes, S., Patel, R.P.
    Revealing anti-inflammatory mechanisms of soy-isoflavones by flow: modulation of leukocyte-endothelial cell interactions.
    American Journal of Physiology, 289: H908-H915, 2005.
  8. Yang, X., Wang, J., Liu, C., Grizzle, W.E., Yu, S., Zhang, S., Barnes, S., Koopman, W.J., Mountz, J.D., Kimberly, R.P., and Zhang, H-G.
    Cleavage of p53-vimentin complex enhances tumor necrosis factor-related apoptosis-inducing ligand-mediated apoptosis of rheumatoid arthritis synovial fibroblasts.
    American Journal of Pathology, 167: 705-719, 2005.
  9. Kaput, J., Ordovas, J.M., Ferguson, L., van Ommen, B, Rodriguez, R.L., Allen, L., Ames, B.N., Dawson, K., German, B., Krauss, R., Malyj, W., Archer, M.C., Barnes, S., Bartholomew, A., Birk, R., van Bladeren, P., Bradford, K.J., Brown, K.H., Caetano, R., Castle, D., Chadwick, R., Clarke, S., Clément, K., Corella. D., da Cruz, I.M., Daniel, H., Duster, T., Sven O.E. Ebbesson, S.O, Elliott, R, Fairweather-Tait, S., Felton, J., Fenech, M., Finley, J.W., Fogg-Johnson, N., Gill-Garrison, R., Gibney, M.J., Gillies, P.J., Gustafsson, J-A.,Hartman, J.L. IV, He, L., Hwang, J-K., Jang, Y., Joost, H., Junien, C., Kanter, M., Kibbe, W.A., Koletzko, B., Korf, B.R., Kornman, K., Krempin, D.W., Langin, D., Lauren, D.R., Lee, J.H., Leveille, G.A., Lin, S-J., Mathers, J., Mayne, M., McNabb, W., Milner, J.A., Morgan, P., Muller, M., Nikolsky, Y., van der Ouderaa, F., Park, T., Pensel, N., Perez-Jimenez, F., Jean-Philippe, Kaisa Poutanen, Roberts, M., Saris, W., Schuster, G., Shelling, A.N., Simopoulos, A.P., Southon, S., Tai, E.S., Towne, B, Trayhurn, P., Uauy, R., Willard J. Visek, W.J., Warden, C., Weiss, R., Wiencke, J., Winkler, J., Wolff, G.L., Zhao-Wilson, X., Zucker, J-D.
    The Case for Strategic International Alliances to Harness Nutritional Genomics for Public and Personal Health.
    British Journal of Nutrition, 94:623-632, 2005.
  10. Meezan, E., Meezan, E.M., Jones, K., Moore II, D.R., Barnes, S., and Prasain, J.K.
    Contrasting effects of the isoflavones glucosides puerarin and daidzein on glucose metabolism in mice.
    Journal of Agricultural and Food Chemistry, 53, 8760-8767, 2005.
  11. Zakharkin S.O., Kim, K., Mehta, T., Chen, L., Barnes, S., Scheirer, K.E., Parrish, R.S., Allison, D.B., and Page, G.P..
    Sources of variation in Affymetrix microarray experiments.
    BMC Bioinformatics, 6:214, 2005.
  12. Prasain, J.K., Reppert, A., Jones, K., Moore, D.R., II, Barnes, S., and Lila, M.A.
    Identification of isoflavone glycosides in Pueraria lobata cultures by tandem mass spectrometry.
    Phytochemical Analysis, accepted for publication, 2005.
  13. Huang, C.M., Elmets, C.A., van Kampen, K.R., DeSilva, T.S., Barnes, S., Kim, H., and Tang, D.C.
    Prospective highlights of functional skin proteomics.
    Mass Spectrometry Reviews, 24, 647-660, 2005.
        This is an invited review on the application of proteomics and mass spectrometry techniques to explore the proteome of the skin in disease.
  14. Helen Kim
    New Nutrition, Proteomics, and How Both Can Enhance Studies in Cancer Prevention and Therapy.
    American Society for Nutrition J. Nutr. 135:2715-2718, November 2005.

2004

  1. Schuler, A.M., Barnes, S., Gower, B.A., and Wood, P.A.
    Dietary Phytoestrogens Increase Metabolic Resistance (Cold Tolerance) in Long-Chain Acyl-CoA Dehydrogenase-Deficient Mice
    Journal of Nutrition, 134:1028-1031, May 2004.
  2. Aparna Venkatraman, Aimee Landar, Ashley J. Davis, Laura Chamlee, Todd Sanderson, Helen Kim, Grier Page, Melissa Pompilius, Scott Ballinger, Victor Darley-Usmar, and Shannon M. Bailey.
    Modification of the Mitochondrial Proteome in Response to the Stress of Ethanol-dependent Hepatotoxicity.
    The Journal of Biological Chemistry, 279: 22092-22101,2004.
  3. Stephen Barnes and Helen Kim
    Nutriproteomics: Identifying the Molecular Targets of Nutritive and Non-nutritive Components of the Diet.
    Journal of Biochemistry and Molecular Biology, 37: 59-74, 2004.
        This review concerns how to apply proteomics and mass spectrometry to the discovery of the biologically active components of the diet.
  4. Helen Kim, PhD, Grier P. Page, PhD, and Stephen Barnes, PhD
    Proteomics and Mass Spectrometry in Nutrition Research.
    Nutrition, 20:155-165, 2004.
        This paper reviews the technologies of 2D-gel proteomics and mass spectrometry (MALDI and nanoLC-tandem mass spectrometry) as they can be applied to modern nutrition research with particular reference to experimental design. It is part of a special issue of Nutrition on nutrigenomics.
  5. Prasain, J.K., Jones, K., Brissie, N., Moore, D.R. II, Wyss, J.M., Barnes, S.
    Identification of puerarin and its metabolites in rats by liquid chromatography-tandem mass spectrometry.
    Journal of Agricultural Food Chemistry, 52: 3708-3712, 2004.
        This piece of work established a quantitative LC-MRM-MS assay for the measurement of puerarin. It was applied to studies in rats of the uptake and metabolism of this Kudzu isoflavone. It was shown that puerarin was absorbed intact and rapidly excreted in urine. It underwent minor metabolism to mono- and dihydroxylated forms as well as to daidzein and equol after 2-3 days.
  6. Foxwell, A.I., Wilson, L., Kirk, M., Coward, L., Darley-Usmar, V.M. and Barnes, S.
    Modification of cytochrome c by 4-hydroxy-2-nonenal: evidence for histidine, lysine and arginine-aldehyde adducts.
    Journal of American Society of Mass Spectrometry 15: 1136-1147, 2004.
        The reaction of cytochrome c with the reactive aldehyde 4HNE formed from oxidation of unsaturated fatty acid was studied using MALDI-TOF-MS and nanoLC-tandem mass spectrometry. Formation of up to four 4HNE adducts was discernable, three of which were fully characterized. This is the first demonstration of an arginine adduct.
  7. Prasain, J., Wang, C-C., and Barnes, S.
    Mass spectrometric methods for the determination of flavonoids in biological samples.
    Free Radical Biology and Medicine, 37: 1324-1350, 2004.
        This invited paper is an extensive review of the use of mass spectrometry for the analysis of flavonoids. It includes GC-MS, LC-MS and capillary electrophoresis-MS and MALDI-TOF, ESI, ion trap and FT-ICR techniques.
  8. Kim, H., Hall, P., Smith, M., Kirk, M., Prasain, J.K., Barnes, S., Grubbs, C.
    Chemoprevention by Grape Seed Extract and Genistein in Carcinogen-induced Mammary Cancer in Rats Is Diet Dependent.
    Journal of Nutrition, 134: 3445S-3552S, 2004.
  9. Jessy Deshane, Lisa Chaves, Kiran Varma Sarikonda, Scott Isbell, Landon Wilson, Marion Kirk, Clinton Grubbs, Stephen Barnes, Sreelatha Meleth, Helen Kim
    Proteomics Analysis of Rat Brain Protein Modulations by Grape Seed Extract.
    Journal of Agricultural Food Chemistry, 52: 7872-83, 2004.

2003

  1. Lanman, J., Lam, T., Barnes, S., Sakalian, M., Emmett, M.R., Marshall, A.G., and Prevelige, P.E., Jr.
    Identification of novel interactions in HIV-1 capsid protein assembly by high resolution mass spectrometry.
    Journal of Molecular Biology, 325:759-772, 2003.
        This piece of work concerns the folding of the capsid protein in the HIV-1 virus. A critical feature of this study was the use of high resolution FT-ICR mass spec to rapidly measure deuterium isotope enrichment in pepsin-derived capsid protein peptides.
  2. Aslan, M, Barnes, S., Kirk, M, Rosenfeld, S, Townes, T, Ryan, T and BA Freeman.
    Nitric oxide-dependent generation of reactive species in sickle cell disease: renal and hepatocellular actin tyrosine nitration.
    Journal of Biological Chemistry, 278: 4194-4204, 2003.
    Journal of Biological Chemistry, accepted for publication .
        In this piece of research from Dr. Bruce Freeman's laboratory and carried out by Dr. Mutay Aslan, a ombination of MALDI peptide fingerprinting and anti-nitrotyrosine antibody immunoaffinity isolation of nitrated proteins, followed by peptide sequencing using LC-MSMS, was used for the first time to identify several specific sites of actin nitration that occur in vivo.
  3. Prasain, J.K., Jones, K., Kirk, M., Wilson, L., Smith-Johnson, M., Weaver, C.M., Barnes, S.
    Profiling and Quantification of Isoflavonoids in Kudzu Dietary Supplements by High-Performance Liquid Chromatography and Electrospray Ionization Tandem Mass Spectrometry.
    Journal of Agricultural Food Chemistry, 51:4213-4218, 2003.
        This paper explored the isoflavonoid content of dietary supplements based on the root of the Kudzu, a Japanese vine that is found covering the ground and often trees in the Deep South. The key issue was the demonstration that the principal isoflavones was puerarin, a 8-C-glucoside of daidzein. It is has a unique tandem mass spectrum compared to O-linked glucosides.
  4. Prasain, J.K., Boersma, B.J., Kirk, M., Wilson, L., Patel, R., Darley-Usmar, V.M., Botting, N. and Barnes, S.
    Mass spectrometric methods for the analysis of chlorinated and nitrated isoflavonoids: a novel class of biological metabolites.
    Journal of Mass Spectrometry, 38: 764-771, 2003.
        This paper examines the tandem mass spectra of isoflavone derivatives (chlorinated and nitrated) formed by reaction with reactive oxygen species.
  5. Carballal, S., Radi, R., Kirk, M.C., Barnes, S., Freeman, B.A. and Alvarez, B.
    Sulfenic acid formation in human serum albumin by hydrogen peroxide and peroxynitrite.
    Biochemistry, 42: 9906-9914, 2003.
        This paper utilized LC-tandem mass spectrometry to identify the oxidation of a critical cysteine residue on albumin by oxidizing agents, including peroxynitrite.
  6. Boersma, B.J., D'Alessandro, T., Benton, M.R., Kirk, M., Wilson, L.S., Prasain, J., Botting, N.P., Barnes, S., Darley-Usmar, V.M. and Patel, R.P.
    Neutrophil myeloperoxidase chlorinates soy isoflavones and enhances their antioxidant properties.
    Free Radical Biology and Medicine, 35:1417-1430, 2003.
        This paper demonstrates sing LC-MS that HL-60 cells differentiated with DMSO to form neutrophil-like cells rapidly and completely convert isoflavones to their chlorinated metabolites. These metabolites have greater antioxidant properties in Cu-stimulated LDL oxidation assays.
  7. D'Alessandro, T., Prasain, J., Botting, N.P, Moore, R., Darley-Usmar, V.M., Patel, R.P., and Barnes, S.
    Polyphenols, inflammatory response, and cancer prevention: chlorination of isoflavones by human neutrophils.
    Journal of Nutrition,133:3773S-3777S, 2003.
        The principal point of this paper was the demonstration using LC-MS that freshly isolated human neutrophils when stimulated convert the isoflavone genistein to chlorinated metabolites.
  8. He, D., Barnes, S, Falany, C.N.
    Rat liver bile acid CoA:amino acid N-acyltransferase : expression, characterization, and peroxisomal localization
    Journal of Lipid Research, on line September 1, 2003.
  9. Page G.P., Edwards J.W., Barnes S., and Allison, D.B.
    A Design and Statistical Perspective on Microarray Gene Expression Studies in Nutrition: The Need for Playful Creativity and Scientific Hard-Mindedness.
    Nutrition, 19: 997-1000, 2003.

2002

  1. Sfakianos, M., Wilson, L., Sakalian, M., Falany, C.N., and Barnes, S.
    Conserved Residues in the Putative Catalytic Triad of Human Bile Acid Coenzyme A:Amino Acid N-Acyltransferase.
    Journal of Biological Chemistry, 277: 47270-47275, 2002.
        In this paper, LC-MS was used to identify and quantitate the bile acid products formed in the reaction between bile acid CoA. glycine and taurine and wild type and mutants of the hepatic enzyme, bile acid CoA:amino acid
    N-acyltransferase.
  2. Falany, C.N., Xie, X, Wheeler, J.B., Wang, J., Smith, M., He, D., and Barnes, S.
    Molecular cloning and expression of rat liver bile acid CoA ligase.
    Journal of Lipid Research, 43: 2062-2071, 2002.
         In this paper, LC-MS was used to identify and quantitate the products formed in the reaction between bile acids and the epatic enzyme, bile acid CoA ligase.
  3. Kim, H., Chaves, L., Mills, R., Oh, J-Y., DeSilva T., Coward, L., Kirk, M. and Barnes, S.
    Effects of soy on proteins implicated in dementias and other neurodegenerative conditions: the use of proteomics technology to assess protein changes.
    In: Soy and Health, 2002: Clinical Evidence and Dietetic Applications, Ed. Descheemaeker, K., Debruyne, I., Garant Publishers, Antwerp-Apeldoorn, pp 155-166, 2002.
  4. Barnes, S.
    New technologies in soy research. What can they bring?
    In: Soy and Health 2002: Clinical Evidence and Dietetic Applications, Ed. Descheemaeker, K., Debruyne, I., Garant Publishers, Antwerp-Apeldoorn, pp 39-50, 2002.
  5. Prasain, J., Wang, C-C., and Barnes, S.
    Mass spectrometry in the analysis of phytoestrogens in biological samples.
    In: Phytoestrogens and Health, Gilani, G.S. and Anderson, J.J., editors, AOCS Press, Champaign, IL, pp 147-177, 2002.
  6. Wang, C-C., Prasain, J., and Barnes, S.
    Review of the methods used in the determination of phytoestrogens.
    Journal of Chromatography, 777: 3-28, 2002.
  7. Barnes, S. and Messina, M.
    Introduction and Satellite Session at the Fourth International Symposium on the Role of Soy in Preventing and Treating Chronic Disease.
    Journal of Nutrition, 132: 545-546, 2002.
  8. Persky, V.W., Turyk, M.E., Wang, L., Freels, S., Chatterton, R., Jr, Barnes, S., Erdman, J., Jr, Sepkovic, D.W., Bradlow, H.L. and Potter.S.
    Effect of soy protein on endogenous hormones in postmenopausal women.
    American Journal of Clinical Nutrition. 75: 145-153, 2002.

  9. Brookes, P.S., Pinner, A., Ramachandran, A., Coward, L., Barnes, S., Kim, H., and Darley-Usmar, V.M.
    High throughput two-dimensional blue-native electrophoresis: A tool for functional proteomics of mitochondria and signaling complexes.
    Proteomics, 2: 969-977, 2002.
        This paper describes the effectiveness of 2-D "blue native" electrophoresis, where integral-membrane proteins are resolved as complexes in a non-denaturing first dimension electrophoresis step, then resolved in the second dimension via standard SDS-PAGE. Individual spots are identified by routine MALDI peptide fingerprinting.
  10. Patel, R.P., Boersma, B., Crawford, J.H., Hogg, N., Kirk, M., Kalyanaraman, B., Parks, D., Barnes, S. and Darley-Usmar, V.
    Antioxidant mechanisms of isoflavones in lipid systems: Paradoxical effects of peroxyl radical scavenging.
    Free Radical Biology and Medicine, 31:1570-1581, 2002.

2001

  1. Whitaker, B.D., Schmidt, W.F., Kirk, M.C. and Barnes, S.
    Novel Fatty-Acid Esters of p-Coumaryl Alcohol in Epicuticular Wax of Apple Fruit.
    Journal of Agricultural Food Chemistry, 49; 3787-3792, 2001.
  2. Boersma, B., S. Barnes, M. Kirk, C-C. Wang, M. Smith, H. Kim, J. Xu, R. Patel and V.M. Darley-Usmar.
    Soy isoflavonoids and cancer - metabolism at the target site.
    Mutation Research, 480: 121-127, 2001.
  3. Zhang, C., Eiserich, J., Reiter, C, Parks, D.A., Darley-Usmar, V., Beckman, J.S., Barnes, S., Kirk, M., and White, C.R.
    L-Arginine chlorination products inhibit endothelial nitric oxide production.
    Journal of Biological Chemistry, 276: 27159-27165, 2001.
  4. Binsack, R., Boersma, B.J., Patel,, R.P., Kirk, M.C., White, C.R., Darley-Usmar, V.M., Barnes, S., Zhou, F., and Parks, D.A..
    Enhanced antioxidant activity following chlorination of quercetin by hypochlorous acid.
    Alcoholism: Clinical and Experimental Research, 25: 434-443, 2001.
  5. Tuma, R., Coward, L. Kirk, M.C., Barnes, S., and Prevelige, P.E., Jr.
    Hydrogen-deuterium Exchange as a Probe of Folding and Assembly in Viral Capsids
    Journal of Molecular Biology, 306: 389-396, 2001.
  6. Urban, D., Irwin, W., Kirk, M., Markiewicz, M.A., Myers, R., Smith, M., Weiss, H., Grizzle, W.E. and Barnes, S.
    The effect of isolated soy protein on plasma biomarkers in elderly men with elevated serum prostate specific antigen.
    Journal of Urology 165:294-300, 2001.

2000

  1. Novak, J., Tomana, M., Kilian, M., Coward, L., Kulhavy, R., Barnes, S. and Mestecky, J.
    Heterogeneity of O-glycosylation in the hinge region of human IgA1.
    Molecular Immunology, 37: 1047-1056, 2000.
  2. Krull, R.E., Chen, P., Novak, J., Kirk, M., Barnes, S., Baker, J., Krishna, N.R. and Caufield, P.W.
    Biochemical structural analysis of the lantibiotic mutacin II.
    Journal of Biological Chemistry 275:15845-15850, 2000.
  3. Rubbo, H., Radi, R., Anselmi, D., Kirk, M., Barnes, S., Butler, J., Eiserich, J.P., and Freeman, B.A.
    Nitric Oxide Reaction with Lipid Peroxyl Radicals Spares α-Tocopherol during Lipid Peroxidation.
    Journal of Biological Chemistry 275: 10812-10818, 2000.
  4. King, L. III, S. Barnes, U. Glufke, M.E. Henz, M. Kirk, K.A. Merkler, J.C. Vederas, B.J. Wilcoz, and D.J. Merkler.
    The Enzymatic Formation of Novel Bile Acid Primary Amides.
    Archives of Biochemistry and Biophysics, 374: 107-117, 2000.

1999

  1. Boersma, B.J., Patel, R.P., Kirk, M., Darley-Usmar, V.M. and S.Barnes.
    Chlorination and Nitration of Soy Isoflavones.
    Archives of Biochemistry and Biophysics, 368: 265-275,1999.