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Student Publications

Publications are the fruits to our students' labor and ultimately speak to the impact our students have in the science community. We recognize students for their hard work and contributions to science. Students present their work each year at the annual Fall Research Retreat and Research Day each spring.

Students are in bold, while mentors are marked with an asterisk.

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Student Publications by Year

Sara E. HanleyStephen D. WillisSteven J. Doyle, Randy Strich* & Katrina F. Cooper*. Ksp1 is an autophagic receptor protein for the Snx4-assisted autophagy of Ssn2/Med13. Autophagy. 2023 Sep 21. doi10.1080/15548627.2023.2259708.

Thornton, JM, Padovani, CM, Rodriguez, A, Spur, BW, Yin, K*. Lipoxin A4 promotes antibiotic and monocyte bacterial killing in established Pseudomonas aeruginosa biofilm formed under hydrodynamic conditions. FASEB Journal. 2023 Aug;37(8):e23098. doi: 10.1096/fj.202300619R. PMID: 37462621.

Hinds, N. M., Wojtas, I. D., Gallagher, C. A., Corbett, C. M. & Manvich, D. F.* Effects of sex and estrous cycle on intravenous oxycodone self-administration and the reinstatement of oxycodone-seeking behavior in rats. Frontiers in Behavioral Neuroscience. 2023 Jul 3;17:1143373. eCollection 2023. doi: 10.3389/fnbeh.2023.1143373. PMID: 37465001. PMCID: PMC10350507.

CM Corbett, EN Miller, EE Wannen, BD Rood, DJ Chandler & JA Loweth*.  Cocaine exposure increases excitatory synaptic transmission and intrinsic excitability in the basolateral amygdala in male and female rats and across the estrous cycle.  Neuroendocrinology 1. 2023 June 2.

AA Reyes & DJ Chandler*.  Convergence of pro-stress and pro-inflammatory signaling in the central noradrenergic system:  implications for mood and anxiety disorders.  Neuroglia 4(2), 87-101. 2023 April 29.

Hansen E., Holaska J. M.* The nuclear envelope and metastasis. Oncotarget. 2023 Apr 14; 14: 317-320.

Corbett CM, Miller END, Loweth JA*. mGlu5 inhibition in the basolateral amygdala prevents estrous cycle-dependent changes in cue-induced cocaine seeking. Addict Neurosci. 2023 Mar;5:100055. doi: 10.1016/j.addicn.2022.100055. Epub 2022 Dec 6. PMID: 36778664; PMCID: PMC9915145.

Kyle A Hubble, Michael F Henry*. DPC29 promotes post-initiation mitochondrial translation in Saccharomyces cerevisiae. Nucleic Acids Research. 2023 Feb 22;51(3):1260-1276. Epub 2023 Jan 9. doi: 10.1093/nar/gkac1229. PMID: 36620885. PMCID: PMC9943650.


Kadiyam Sundarasivarao PY, Walker JM, Rodriguez A, Spur BW, Yin K*. Resolvin D2 induces anti-microbial mechanisms in a model of infectious peritonitis and secondary lung infection. Frontiers in Immunology vol. 13. 2022 December 01. DOI: 10.3389/fimmu.2022.1011944​

Waterhouse, B. D.*, Predale, H. K., Plummer, N. W., Jensen, P., & Chandler, D. J. Probing the structure and function of locus coeruleus projections to CNS motor centers [Hypothesis and Theory]. Frontiers in Neural Circuits. 2022 Sept 29. 

Sutormin D, Galivondzhyan A, Musharova O, Travin D, Rusanova A, Obraztsova K, Borukhov S*, Severinov K. Interaction between transcribing RNA polymerase and topoisomerase I prevents R-loop formation in E. coli. Nature Communications. 2022 Aug 4;13(1):4524. doi: 10.1038/s41467-022-32106-5. PMID: 35927234. PMCID: PMC9352719.

Patel TN, Caiola HO, Mallari OG, Blandino KL, Goldenthal AR, Dymecki SM, Rood BD*. Social Interactions Increase Activation of Vasopressin-Responsive Neurons in the Dorsal Raphe. Neuroscience. 2022 Jul 15;495:25-46. Epub 2022 May 30. doi:10.1016/j.neuroscience.2022.05.032. PMID: 35654294.

Retzbach, E.P., Sheehan, S.A., Krishnan, H., Zheng, H., Zhao, C., and Goldberg, G.S.* Independent effects of Src kinase and podoplanin on anchorage independent cell growth and migration. Molecular Carcinogenesis. 2022 Jul;61(7):677-689. Epub 2022 Apr 26. doi: 10.1002/mc.23410. PMID: 35472679. PMCID: PMC9233000. (available on 2023-07-01)

Tkaczynski JA, Borodovitsyna O, Chandler DJ*. Delta Opioid Receptors and Enkephalinergic Signaling within Locus Coeruleus Promote Stress Resilience. Brain Sciences. 12(7):860. 2022 June 29.

Rehn M, Wenzel A, Frank AK, Schuster MB, Pundhir S, Jorgensen N, Vitting-Seerup K, Ge Y, Jendholm J, Michaut M, Schoof EM, Jensen TL, Rapin N, Sapio RT, Andersen KL, Lund AH, Solimena M, Holzenberger M, Pestov DG*, Porse BT. PTBP1 promotes hematopoietic stem cell maintenance and red blood cell development by ensuring sufficient availability of ribosomal constituents. Cell Reports. 2022 May 10;39(6):110793. doi: 10.1016/j.celrep.2022.110793. PMID: 35545054.

Walker, J. M., Kadiyam Sundarasivarao, P., Thornton, J. M., Sochacki, K., Rodriguez, A., Spur, B. W., Acharya, N. K., & Yin, K*. Resolvin D2 promotes host defense in a 2 - hit model of sepsis with secondary lung infection. 2022 April. Prostaglandins & other lipid mediators159, 106617. Advance online publication.​

Willis SD, Hanley SE, Doyle SJ, Beluch K, Strich R* and Cooper KF*. Cyclin C-Cdk8 Kinase Phosphorylation of Rim15 Prevents the Aberrant Activation of Stress Response Genes. Frontiers in Cell and Developmental Biology. 2022 Mar 31; 10:867257. doi: 10.3389/fcell.2022.867257

Goldwaser EL, Swanson RL 2nd, Arroyo EJ, Venkataraman V, Kosciuk MC, Nagele RG*, Hong LE, Acharya NK. A preliminary report: the hippocampus and surrounding temporal cortex of patients with schizophrenia have impaired blood-brain barrier. Frontiers in Human Neuroscience. 2022 Mar 31;16:836980. eCollection 2022. doi: 10.3389/fnhum.2022.836980.

Borodovitsyna O, Tkaczynski JA, Corbett CM, Loweth JA*, Chandler DJ*. Age- and sex-dependent changes in locus coeruleus physiology and anxiety-like behavior following acute stressor exposure. Frontiers in Behavioral Neuroscience. 2022 Feb 25;16:808590. eCollection 2022. doi: 10.3389/fnbeh.2022.808590. 

Chang KT, Jezek J, Campbell AN, Stieg DC, Kiss ZA, Kemper K, Jiang P, Lee HO, Kruger WD, van Hasselt PM, Strich R* (2022) Aberrant cyclin C nuclear release induces mitochondrial fragmentation and dysfunction in MED13L syndrome fibroblasts. 2022 Feb 18. iScience 25:103823.PMC8844603

Sheehan, S.A., Retzbach, E.P., Shen, Y., Krishnan, H., and Goldberg, G.S.* Heterocellular N-cadherin junctions enable nontransformed cells to inhibit the growth of adjacent transformed cells. Cell Communication and Signaling. 2022 Feb 17;20(1):19. doi: 10.1186/s12964-021-00817-9.

Vincent J. MannaHana ChoiShawna M. Rotoli and Salvatore J. Caradonna*. The dynamic nature of the coronavirus receptor, angiotensin-converting enzyme 2 (ACE2) in differentiating airway epithelia. BBA Advances. 2022 February 12, Volume 2, 100044. DOI: 10.1016/j.bbadva.2022.100044.

Hills-Muckey K, Martinez MAQ, Stec N, Hebbar S, Saldanha J, Medwig-Kinney TN, Moore FEQ, Ivanova M, Morao A, Ward JD, Moss EG*, Ercan S, Zinovyeva AY, Matus DQ, Hammell CM. An engineered, orthogonal auxin analog/AtTIR1(F79G) pairing improves both specificity and efficacy of the auxin degradation system in Caenorhabditis elegans.  Genetics. 2022 Feb 4;220(2):iyab174. Epub 2021 Oct 12. doi: 10.1093/genetics/iyab174. PMID: 34739048. PMCID: PMC9097248.

Anikin L, Pestov DG*. 9-Aminoacridine inhibits ribosome biogenesis by targeting both transcription and processing of ribosomal RNA. International Journal of Molecular Sciences. 2022 Jan 23; 23:1260. doi: 10.3390/ijms23031260.

Vincent Manna and Salvatore Caradonna*. Isolation, expansion, differentiation, and histological processing of human nasal epithelial cells. 2021 December 17. STAR Protocols 2(4). doi: 10.1016/j.xpro.2021.100782.

Trainor BM, Pestov DG, Shcherbik N*. (2021) Development, validation, and application of the ribosome separation and reconstitution system for protein translation in vitro. RNA. 2021 Dec;27(12):1602-1616. Epub 2021 Aug 27. doi: 10.1261/rna.078852.121. PMID: 34452990. PMCID: PMC8594471.

Hong JY, Cassel J, Yang J, Lin H, Weiser BP*. High-Throughput Screening Identifies Ascorbyl Palmitate as a SIRT2 Deacetylase and Defatty-Acylase Inhibitor. ChemMedChem. 2021 Nov 19;16(22):3484-3494. Epub 2021 Sep 2. doi: 10.1002/cmdc.202100343. PMID: 34382754. 

Thornton, J.M., Yin, K*. Role of Specialized Pro-Resolving Mediators in Modifying Host Defense and Decreasing Bacterial Virulence. 2021 November 18. Molecules, 26(22): 6970.

Hanley, S.E., Willis, S.D., Cooper, K.F.* (2021). Snx4-assisted vacuolar targeting of transcription factors defines a new autophagy pathway for controlling ATG expression. Autophagy. 2021 Nov;17(11):3547-3565. Epub 2021 Mar 8. doi: 10.1080/15548627.2021.1877934. PMID: 33678121. PMCID: PMC8632336.

Friedson B, Cooper KF*. Cdk8 Kinase Module: A Mediator of Life and Death Decisions in Times of Stress. 2021 October 15. Microorganisms, 9(10):2152.

Sarfallah A, Zamudio-Ochoa A, Anikin M, Temiakov D*. Mechanism of transcription initiation and primer generation at the mitochondrial replication origin OriL. EMBO Journal. 2021 Oct 1;40(19):e107988. Epub 2021 Aug doi: 10.15252/embj.2021107988. PMID: 34423452. PMCID: PMC8488568.

Nieto, B., Gaspar, S. G., Sapio, R.T., Clavaín, L., Bustelo, X. R., Pestov, D.G.*, & Dosil, M. Efficient fractionation and analysis of ribosome assembly intermediates in human cells. 2021 Oct 15;18(sup1):182-197. Epub 2021 Sep 17;1-16. doi: 10.1080/15476286.2021.1965754. PMID: 34530680. PMCID: PMC8682975.

Brandon M. Trainor, Anton A. Komar, Dimitri G. Pestov, and Natalia Shcherbik​*. Cell-free Translation: Preparation and Validation of Translation-competent Extract From Saccharomyces cerevisiae. Bio Protoc. 2021 Sep 20;11(18):e4093. doi: 10.21769/BioProtoc.4093. eCollection 2021 Sep 20.PMID: 34692902

Trainor BM, Shcherbik N*. Short and sweet: viral 5`-UTR as a canonical and non-canonical translation initiation switch. Journal of Cellular Immunology. 2021 Sep 17;3(5):296-304. doi: 10.33696/immunology.3.110. 

Wilson R. M., Walker, J. M. and Yin, K*. Different Concentrations of Lactobacillus acidophilus Cell Free Filtrate Have Differing Anti-Biofilm and Immunomodulatory Effects. Front. Cell. Infect. Microbiol. 11:737392. 13 September 2021. doi:10.3389/fcimb.2021.737392.

Corbett CM, Dunn E, Loweth JA* (2021). Effects of Sex and Estrous Cycle on the Time Course of Incuation of Cue-induced Craving Following Extended-Access Cocaine Self-Administration. eNeuro. 2021 Aug 11;8(4): ENEURO.0054-21.2021. doi: 10.1523/ENEURO.0054-21.2021. PMID: 34290059. PMCID: PMC8362687.

Sheehan SA, Hamilton KL, Retzbach EP, Balachandran P, Krishnan H, Leone P, Lopez-Gonzalez M, Suryavanshi S, Kumar P, Russo R, Goldberg GS*. Evidence that Maackia amurensis seed lectin (MASL) exerts pleiotropic actions on oral squamous cells with potential to inhibit SARS-CoV-2 infection and COVID-19 disease progression. Exp Cell Res. 2021 Jun 1;403(1):112594. doi: 10.1016/j.yexcr.2021.112594. Epub 2021 Apr 3. PMID: 33823179; PMCID: PMC8019238.

Sapio, R. T., Burns, C. J., & Pestov, D. G.* (2021). Effects of Hydrogen Peroxide Stress on the Nucleolar Redox Environment and Pre-rRNA Maturation. Frontiers in Molecular Biosciences. 2021 Apr 26;8:678488. eCollection 2021. doi: 10.3389/fmolb.2021.678488. PMID: 33981726. PMCID: PMC8107432.

Wang, X., Zhang, H., Sapio, R., Yang, J., Wong, J., Zhang, X., Guo, J. Y., Pine, S., Van Remmen, H., Li, H., White, E., Liu, C., Kiledjian, M., Pestov, D. G.*, & Steven Zheng, X. F. (2021). SOD1 regulates ribosome biogenesis in KRAS mutant non-small cell lung cancer. Nature Communications. 2021 Apr 15;12(1):2259. doi: 10.1038/s41467-021-22480-x. PMID: 33859191. PMCID: PMC8050259.

Hillen H.S., Markov D.A., Wojtas I.D., Hofmann K.B., Lidschreiber M., Cowan A.T., Jones J.L., Temiakov D., Cramer P., and Anikin M*. The pentatricopeptide repeat protein Rmd9 recognizes the dodecameric element in the 3'-UTRs of yeast mitochondrial mRNAs (2021) Proc Natl Acad Sci U S A Apr 13;118(15):e2009329118.

Trainor BM, Ghosh A, Pestov DG, Hellen CUT, Shcherbik N*. A translation enhancer element from black beetle virus engages yeast eIF4G1 to drive cap-independent translation initiation. Scientific Reports. 2021. Jan 28; 11(1): 2461. doi: 10.1038/s41598-021-82025-6.

Zhang, J.; Krishnan, A.; Wu, H.; Venkataraman, V*. Calcium-Dependent Translocation of S100B Is Facilitated by Neurocalcin Delta. Molecules 202126 (5 Jan), 227.

Hanley, S.E., Cooper, K.F.Sorting Nexins in Protein Homeostasis. Cells 2020 Dec 24;10(1):17.

Borodovitsyna, O. and D. J. Chandler* (2020)."Age- and sex- dependent changes in locus coeruleus physiology and anxiety-like behavior in response to acute stress." bioRxiv: 2020.2011.2010.377275.

Borodovitsyna O, Duffy BC, Pickering AE & Chandler DJ*.  2020.  Anatomically and functionally distinct locus coeruleus efferents mediate opposing effects on anxiety-like behaviorNeurobiology of Stress

Hamilton, K.L., Sheehan, S.A., Retzbach, E.P., Timmerman, C.A., Gianneschi, G.B., Tempera, P.J., Balachandran, P., and Goldberg, G.S.* (2020) Effects of Maackia amurensis seed lectin (MASL) on oral squamous cell carcinoma (OSCC) gene expression and transcriptional signaling pathways. Journal of Cancer Research and Clinical Oncology. PMID: 33205348.

Thornton, J.M., Walker, J.M., Kadiyam Sundarasivarao, P.Y., Spur, B.W., Rodriguez, A., Yin, K*. (2020) Lipoxin A4 promotes reduction and antibiotic efficacy against Pseudomonas aeruginosa biofilm. Prostaglandins & Other Lipid Mediators. 152: 106505.

Bi D, Yang J, Hong JY, Parikh P, Hinds N, Infanti J, Lin H, Weiser BP* (2020) Substrate-dependent modulation of SIRT2 by a fluorescent probe, 1-aminoanthracene. Biochemistry 59: 3869-3878.

Stieg DC, Cooper K*, & Strich R. (2020) The extent of cyclin C promoter occupancy directs changes stress-dependent transcription. J Biol Chem. 2020 Nov 27;295(48):16280-16291. doi: 10.1074/jbc.RA120.015215. Epub 2020 Sep 15.PMID: 32934007.

Vincent J. Manna and Salvatore J. Caradonna*. (2020). The heterogeneous nature of the Coronavirus receptor, angiotensin-converting enzyme 2 (ACE2) in differentiating airway epithelia. 2020 August 27. bioRxiv preprint doi: 1101/2020.07.09.190074.

Willis, S.D., S.E. Hanley, T. Beishke, P.D. Tati, and K.F. Cooper*. Ubiquitin-proteasome-mediated cyclin C degradation promotes cell survival following nitrogen starvation. Mol Biol Cell. 31:1015-1031, 2020 May 1.

Goldwaser ELAcharya NKWu HGodsey GASarkar ADeMarshall CA, Kosciuk MC, Nagele RG*. Evidence that Brain-Reactive Autoantibodies Contribute to Chronic Neuronal Internalization of Exogenous Amyloid-β1-42 and Key Cell Surface Proteins During Alzheimer's Disease Pathogenesis.  Journal of Alzheimer's Disease, 2020 Feb 5.

Kheirkhah, RDeMarshall CA, Sieber F, Oh E, Nagele RG*. The origin and nature of the complex autoantibody profile in cerebrospinal fluid.  Brain, Behavior, and Immunity - Health, 2019 Dec 27.

Munshi S, Rosenkranz JA, Caccamise A, Wolf ME, Corbett CM, Loweth JA*. Cocaine and chronic stress exposure produce an additive increase in neuronal activity in the basolateral amygdala. Addiction Biology, 2019 Nov 21.

DeMarshall C, Oh E, Kheirkhah R, Sieber F, Zetterberg H, Blennow K, Nagele RG*. Detection of early-stage Alzheimer's pathology using blood-based autoantibody biomarkers in elderly hip fracture repair patients. PLoS One, 2019 Nov 15.

Wang F, Wu H, Venkataraman V*, Hu X.  Silk fibroin-poly(lactic acid) biocomposites: Effect of protein-synthetic polymer interactions and miscibility on material properties and biological responses. Materials Science and Engineering C, 2019 Nov​.

Hillman GA, Henry MF*.  The yeast protein Mam33 functions in the assembly of the mitochondrial ribosome.  Journal of Biological Chemistry, 2019 Jun 21.

Rotoli SM, Caradonna SJ*.​  Combining Non-reducing SDS-PAGE Analysis and Chemical Crosslinking to Detect Multimeric Complexes Stabilized by Disulfide Linkages in Mammalian Cells in Culture. Journal of Visualized Experiments, 2019 May 2.

Stieg D, Chang KT, Cooper K*, & Strich R. (2019) Cyclin C Regulated Oxidative Stress Responsive Transcriptome in Mus musculus Embryonic Fibroblasts. G3:Genes/Genomes/Genetics, 9(6), 1901. Doi:10.1534/g3.119.400077

Julia L. Jones, Katharina B. Hofmann, Andrew T. Cowan, Dmitry Temiakov, Patrick Cramer, and Michael Anikin*. (2019). Yeast mitochondrial protein Pet111p binds directly to two distinct targets in COX2 mRNA, suggesting a mechanism of translational activation. The Journal of Biological Chemistry. 2019 Mar. doi: 10.1074/jbc.RA118.005355

Partyka PP, Jin Y, Bouyer J, DaSilva A, Godsey GA, Nagele RG, Fischer I, Galie PA. Harnessing neurovascular interaction to guide axon growth. Scientific Reports, 2019 Feb 18.

Ježek J, Smethurst DGJ, Stieg DC, Kiss ZAC, Hanley SE, Ganesan V, Chang K-T, Cooper KF*, Strich R. Cyclin C: The Story of a Non-Cycling Cyclin. Biology. 2019; 8(1):3.

Romer-Seibert JS, Hartman NW, Moss EG. The RNA-binding protein LIN28 controls progenitor and neuronal cell fate during postnatal neurogenesis. FASEB J. 2018 Nov 13:fj201801118R.

Shawna M. RotoliJulia L. Jones, and Salvatore Caradonna*. (2018). Cysteine residues contribute to the dimerization and enzymatic activity of human nuclear dUTP nucleotidohydrolase (nDut). Protein Science. 10.1002/pro.3481.

Zinskie JA, Ghosh A, Trainor BM, Shedlovskiy D, Pestov DG, Shcherbik N*. Iron-dependent cleavage of ribosomal RNA during oxidative stress in the yeast Saccharomyces cerevisiae. J Biol Chem. 2018 Jul 18. pii: jbc.RA118.004174. doi: 10.1074/jbc.RA118.004174. [Epub ahead of print]

Stephen D. Willis, David C. Stieg, Kai Li Ong, Ravina Shah, Alexandra K. Strich, Julianne H. Grose and Katrina F. Cooper*. (2018). Snf1 cooperates with the CWI MAPK pathway to mediate the degradation of Med13 following oxidative stress. Microbial Cell, Vol. 5, No. 8, pp. 357 - 370; doi: 10.15698/mic2018.08.641

Borodovitsyna, O., Joshi, N., & Chandler, D.J.* Persistent stress-induced neuroplastic changes in the locus coeruleus/norepinephrine system. Neural Plasticity, 2018 May 27

Harini Krishnan, Julie Rayes, Tomoyuki Miyashita, Genichiro Ishii, Edward P. RetzbachStephanie A. Sheehan, Ai Takemoto, Yao‐Wen Chang, Kazue Yoneda, Jun Asai, Lasse Jensen, Lushun Chalise, Atsushi Natsume, and Gary S. Goldberg*. Podoplanin: An emerging cancer biomarker and therapeutic target. Cancer Science. 2018 May;109:1292–1299.

Patel, M. J., Yilmaz, G., Bhatia, L., Biswas-Fiss, E. E., & Biswas, S. B.* (2018). Site-specific fluorescence double-labeling of proteins and analysis of structural changes in solution by Fluorescence Resonance Energy Transfer (FRET). MethodsX, 5, 419-430. doi:10.1016/j.mex.2018.03.006

Retzbach EP, Sheehan SA, Nevel EM, Batra A, Phi T, Nguyen ATP, Kato Y, Baredes S, Fatahzadeh M, Shienbaum AJ, Goldberg GS*.
Podoplanin emerges as a functionally relevant oral cancer biomarker and therapeutic target. Oral Oncology; 2018 Mar.

Stieg DC, Willis SD, Ganesan V, Ong KL, Scuorzo J, Song M, Grose J, Strich R, Cooper KF*.  A complex molecular switch directs stress-induced cyclin C nuclear release through SCFGrr1-mediated degradation of Med13.
Mol Biol Cell. 2018 Feb 1;29(3):363-375. doi: 10.1091/mbc.E17-08-0493. Epub 2017 Dec 6.

Borodovitsyna OFlamini MD, Chandler DJ*. Acute Stress Persistently Alters Locus Coeruleus Function and Anxiety-like Behavior in Adolescent Rats. Neuroscience; 2018 Jan 16.

Yilmaz G, Biswas-Fiss EE, Biswas SB* (2017)  Genetic variations in the DNA replication origins of human papillomavirus family correlate with their oncogenic potential.  Biochim Biophys Acta. 2017 Dec 27. pii: S0304-4165(17)30398-7. doi: 10.1016/j.bbagen.2017.12.010. [Epub ahead of print]

Shedlovskiy D, Zinskie JA, Gardner E, Pestov DG*, Shcherbik N*. Endonucleolytic cleavage in the expansion segment 7 of 25S rRNA is an early marker of low-level oxidative stress in yeast. Journal of Biological Chemistry, 2017 Nov 10.

Hillen HS, Morozov YISarfallah A, Temiakov D*, Cramer P. Structural Basis of Mitochondrial Transcription Initiation. Cell; 2017 Nov 16.

Chang AD, Vaidya PV, Retzbach EP, Chung SJ, Kim U, Baselice K, Maynard K, Stepanian A, Staley M, Xiao L, Blouin A, Han S, Lee J, Worley PF, Tamashiro KL, Hempstead BL, Martinowich K, Ann Wilson M, Baraban JM, Reti IM.
Narp Mediates Antidepressant-Like Effects of Electroconvulsive Seizures. Neuropsychopharmacology; 2017 Oct 20.

Hillen HS, Parshin AV, Agaronyan KMorozov YI, Graber JJ, Chernev A, Schwinghammer K, Urlaub H, Anikin M, Cramer P, Temiakov D*. Mechanism of Transcription Anti-termination in Human Mitochondria. Cell. 2017 Oct 7. pii: S0092-8674(17)31129-7. doi: 10.1016/j.cell.2017.09.035. [Epub ahead of print]

Sapio RT, Nezdyur AN, Krevetski M, Anikin LManna VJ, Minkovsky N, Pestov DG* (2017) Inhibition of post-transcriptional steps in ribosome biogenesis confers cytoprotection against chemotherapeutic agents in a p53-dependent manner. Scientific Reports 7(1):9041. doi: 10.1038/s41598-017-09002-w.

Patel, M. J., Bhatia, L., Yilmaz, G., Biswas-Fiss, E. E., & Biswas, S. B.* (2017). Multiple conformational states of DnaA protein regulate its interaction with DnaA boxes in the initiation of DNA replication. Biochimica et Biophysica Acta (BBA) - General Subjects,1861(9), 2165-2174. doi:10.1016/j.bbagen.2017.06.013

Tsialikas J, Romens MA, Abbott A, Moss EG*. Stage-Specific Timing of the microRNA Regulation of lin-28 by the Heterochronic Gene lin-14 in Caenorhabditis elegans. Genetics. 2017 Jan;205(1):251-262.

DeMarshall C, Goldwaser ELSarkar AGodsey GAAcharya NK, Thayasivam U, Belinka BA, Nagele RG*. Autoantibodies as diagnostic biomarkers for the detection and subtyping of multiple sclerosis. Journal of Neuroimmunology; 15 August 2017

Borodovitsyna OFlamini M, Chandler D*. Noradrenergic modulation of cognition in health and disease Neural Plasticity; Accepted 18 April 2017.

Acharya NK, Qi X, Goldwaser ELGodsey GAWu H, Kosciuk MC, Freeman TA, Macphee CH, Wilensky RL, Venkataraman V*, Nagele RG*. Retinal pathology is associated with increased blood-retina barrier permeability in a diabetic and hypercholesterolaemic pig model: Beneficial effects of the LpPLA2 inhibitor Darapladib. Diabetes and Vascular Disease Research, 2017 March 1.

Eunju Kang, Jun Wu, Nuria Marti Gutierrez, Amy Koski, Rebecca Tippner-Hedges, Karen Agaronyan, Aida Platero-Luengo, Paloma Martinez-Redondo, Hong Ma, Yeonmi Lee, Tomonari Hayama, Crystal Van Dyken, Xinjian Wang, Shiyu Luo, Riffat Ahmed, Ying Li, Dongmei Ji, Refik Kayali, Cengiz Cinnioglu, Susan Olson, Jeffrey Jensen, David Battaglia, David Lee, Diana Wu, Taosheng Huang, Don P. Wolf, Dmitry Temiakov*, Juan Carlos Izpisua Belmonte, Paula Amato, & Shoukhrat Mitalipov.
Mitochondrial replacement in human oocytes carrying pathogenic mitochondrial DNA mutations. Nature (Nov. 30, 2016). DOI:10.1038/nature20592.

Partyka PP, Godsey GA, Galie JR, Kosciuk MC, Acharya NK, Nagele RG*, Galie PA. Mechanical stress regulates transport in a compliant 3D model of the blood-brain barrier. Biomaterials. November 2016. DOI: 10.1016/j.biomaterials.2016.11.012

Wu H, Rodriguez AR, Spur BW*, Venkataraman V.* An Acute Retinal Model for Evaluating Blood Retinal Barrier Breach and Potential Drugs for Treatment. Journal of Visualized Experiments (JoVE), 2016 Sep 13;(115). DOI: 10.3791/54619.

Stieg, D., & Cooper, K.* (2016). Parkin New Cargos: a New ROS Independent Role for Parkin in Regulating Cell Division. Reactive Oxygen Species, 2(5), 315-324.

Goldwaser ELAcharya NKSarkar AGodsey G, Nagele RG*. Breakdown of the Cerebrovasculature and Blood-Brain Barrier: A Mechanistic Link Between Diabetes Mellitus and Alzheimer's Disease. J Alzheimers Dis. 2016 Aug 1. [Epub ahead of print]

Kim SJ & Strich R.* Rpl22 is required for IME1 mRNA translation and meiotic induction in S. cerevisiae. Cell Div. 2016 Jul 29;11:10. doi: 10.1186/s13008-016-0024-3. eCollection 2016.

Krishnan A, Viviano JMorozov Y, Venkataraman V*. Data on the Identity and Myristoylation State of Recombinant, Purified Hippocalcin.​Data Brief. 2016 May 20. doi:10.1016/j.dib.2016.04.024

Viviano J, Krishnan A, Scully J, Wu H, Venkataraman V*. Datasets depicting mobility retardation of NCS proteins observed upon incubation with calcium, but not with magnesium, barium or strontium​. ​Data Brief. 2016 April 21. 7:1606-1608. doi:10.1016/j.dib.2016.04.035.

Morozov YI & Temiakov D*. Human Mitochondrial Transcription Initiation Complexes Have Similar Topology on the Light and Heavy Strand Promoters. ‎J. Biol. Chem. 2016 May 13. doi: 10.1074/jbc.C116.727966.

Viviano J, Krishnan A, Wu H, Venkataraman V*. Data on the calcium-induced mobility shift of myristoylated and non-myristoylated forms of neurocalcin delta. Data Brief. 2016 Mar 11; 7:630-3. doi: 10.1016/j.dib.2016.03.021.

DeMarshall C, Nagele E​, Sarkar AAchayra NGodsey GGoldwaser E, Kosciuk M, Thayasivam U, Han M, Belinka B, Nagele R*, and on behalf of the Alzheimer’s Disease Neuroimaging Initiative (2016). Detection of Alzheimer’s disease at Mild Cognitive Impairment and disease progression using autoantibodies as blood-based biomarkers. Alzheimer’s & Dementia: Diagnosis, Assessment & Disease Monitoring, 12 Apr 2016, ISSN 2352-8729,

Krishnan A, Viviano JMorozov Y, Venkataraman V*. Single-Column Purification of the Tag-free, Recombinant Form of the Neuronal Calcium Sensor Protein, Hippocalcin Expressed in E. coli. Protein Expr Purif. 2016 Mar 18. pii: S1046-5928(16)30040-7. doi: 10.1016/j.pep.2016.03.005.

Wu B, Capilato J, Pham MP, Walker J, Spur B, Rodriguez A, Perez LJ, Yin K.* Lipoxin A4 augments host defense in sepsis and reduces Pseudomonas aeruginosa virulence through quorum sensing inhibition. FASEB J. 2016 Mar 10. pii: fj.201500029R. [Epub ahead of print] PMID:26965685

Wu HBrown EVAcharya NK, Appelt DM, Marks A, Nagele RG*, Venkataraman V*. Age-dependent increase of blood-brain barrier permeability and neuron-binding autoantibodies in S100B knockout mice. Brain Res 2016 Feb 22. pii: S0006-8993(16)30085-3. doi: 10.1016/j.brainres.2016.02.026.

Goldberg, K.H. Yin, A.C., Mupparapu, A., Retzbach, E.P., Goldberg, G.S.*, and Yang, C.F. (in press) Components in aqueous Hibiscus rosa-sinensis flower extract inhibit in vitro melanoma cell growthJournal of Traditional and Complementary Medicine.

Viviano JWu H, Krishnan A, Ramanujachary K, Venkataraman V*. Data on final calcium concentration in native gel reagents determined accurately through inductively coupled plasma measurements. Data Brief. 2016 Jan 29;6:820-2. doi: 10.1016/j.dib.2016.01.030.

Yang Y, Krishnan A, Viviano J, Venkataraman V.* Unraveling the Dynamics of the EF1 Hand Upon Ca2+ Binding in Neurocalcin Delta. Biophysical Journal. 2015;108(2):380A-A. WOS:000362849400322.

Parshin A, Shiver AL, Lee J, Ozerova M, Schneidman-Duhovny D, Gross CA, Borukhov S*. DksA regulates RNA polymerase in Escherichia coli through a network of interactions in the secondary channel that includes Sequence Insertion 1. Proc Natl Acad Sci U S A. 2015 Dec 15;112(50):E6862-71. doi: 10.1073/pnas.1521365112. Epub 2015 Nov 24.

Krishnan, H. and Goldberg G.S.* (2015) Contact normalization or escape from the matrix. In: Kandous, M. (Eds.) Intercellular communication and Cancer. pp. 297-342. Heidelberg: Springer-Verlag.

Chunyan Jin, Stephen K. Kim, Stephen D. Willis, and Katrina F. Cooper*. 2015. The MAPKKKs Ste11 and Bck1 jointly transduce the high oxidative stress signal through the cell wall integrity MAP kinase pathway. Microbial Cell, Vol. 2, No. 9, pp. 329 - 342; DOI: 10.15698/mic2015.09.226.

Sedeyn JCWu H, Hobbs RD, Levin EC, Nagele RG*, Venkataraman V*. Biomed Res Int. 2015;2015:937148. Histamine Induces Alzheimer's Disease-Like Blood Brain Barrier Breach and Local Cellular Responses in Mouse Brain Organotypic Cultures. doi: 10.1155/2015/937148. Epub 2015 Nov 30. PMID: 26697497 

Viviano J, Krishnan A, Wu H, Venkataraman V*. Electrophoretic mobility shift in native gels indicates calcium-dependent structural changes of neuronal calcium sensor proteins. Anal Biochem. 2016 Feb 1;494:93-100. doi: 10.1016/j.ab.2015.11.005. Epub 2015 Nov 23. PMID: 26617128​

Goldwaser EL, Acharya NK, Nagele RG*. Cerebrovascular and Blood-Brain Barrier Compromise: A Mechanistic Link between Vascular Disease and Alzheimer’s Disease Subtypes of Neurocognitive Disorders. J Parkinsons Dis Alzheimer Dis. 2015;2(2): 10.

Cassandra A DeMarshall, Abhirup Sarkar, Robert G Nagele*. Serum Autoantibodies as Biomarkers for Parkinson’s Disease: Background and Utility. AIMS Medical Science, 2015, 2(4): 316-327. doi: 10.3934/medsci.2015.4.316

Roloff, G.A., and Henry, M.F.* (2015). Mam33 promotes cytochrome c oxidase subunit I translation in Saccharomyces cerevisiae mitochondria. Molecular Biology of the Cell 26, 2885-2894.

DeMarshall CA, Han M
, Nagele EP, Sarkar A, Acharya NK, Godsey G, Goldwaser EL, Kosciuk M, Thayasivam U, Belinka B, Nagele RG*; Potential utility of autoantibodies as blood-based biomarkers for early detection and diagnosis of Parkinson's disease. Parkinson's Study Group Investigators. Immunol Lett. 2015 Sep 16. pii: S0165-2478(15)30034-1. doi: 10.1016/j.imlet.2015.09.010. [Epub ahead of print]
PMID: 26386375

Tsialikas J, Romer-Seibert J. LIN28: roles and regulation in development and beyond. Development. 2015 Jul 15;142(14):2397-404. doi:10.1242/dev.117580

Krishnan, H., Retzbach, E.P., Ramirez, M.I., Liu, T., Li, H., Miller, W.T., Goldberg, G.S.* (2015) PKA and CDK5 can phosphorylate specific serines on the intracellular domain of podoplanin (PDPN) to inhibit cell motility. Experimental Cell Research. 335: 115-122.

Cassandra DeMarshall, Abhirup Sarkar, Eric P. Nagele, Eric Goldwaser, George Godsey, Nimish K. Acharya, & Robert G. Nagele*. Utility of Autoantibodies as Biomarkers for Diagnosis and Staging of Neurodegenerative Diseases. Int Rev Neurobiol. 2015;122:1-51. doi: 10.1016/bs.irn.2015.05.005. Epub 2015 Jun 19.

Wang M., Parshin A.V., Shcherbik N., and Pestov D.G*. Reduced expression of the mouse ribosomal protein Rpl17 alters the diversity of mature ribosomes by enhancing production of shortened 5.8S rRNA. RNA 21: 1240-1248, 2015.

Acharya NK, Goldwaser EL, Godsey GA, Johnson CA, Sarkar A, DeMarshall C, Kosciuk MC, Dash JM, Hale CP, Leonard DM, Appelt DM, Forsberg MM, and Nagele RG*. Sevoflurane and Isoflurane induce structural changes in brain vascular endothelial cells and increase blood-brain barrier permeability: Possible link to postoperative delirium and cognitive decline. Brain Research. 2015 May 8. PubMed PMID: 25960348

Ochoa-Alvarez, J.A., Krishnan, H., Pastorino, J.G., Nevel, E.M., Kephart, D., Lee, J.J., Retzbach, E.P., Shen, Y., Fatahzadeh, M., Baredes, S., Kalyoussef, E., Honma, M., Adelson, M.E., Kaneko, M.K., Kato, Y, Young, M.A., Deluca-Rapone, L., Shienbaum, A.J., Yin, K., Jensen, L.D., and Goldberg, G.S.* Antibody and lectin target podoplanin to inhibit oral squamous carcinoma cell migration and viability by distinct mechanisms. Oncotarget. 2015 Apr 20;6(11):9045-60.

Ellis, R. E.* and Wei, Q. 2015. Size isn’t everything. eLife 4:e07604.

Gong, H., K. Wang, R. Strich*, and J.G. Zhou. 2015. In vitro biodegradation behavior, mechanical properties, and cytotoxicity of biodegradable Zn-Mg alloy. Journal of biomedical materials research. Part B, Applied biomaterials. D.O.I. 10.1002/jbm.b.33341

Morozov YI, Parshin AV, Agaronyan K, Cheung AC, Anikin M, Cramer P, Temiakov D*. A model for transcription initiation in human mitochondria. Nucleic Acids Res. 2015 Mar 23. pii: gkv235. [Epub ahead of print] PMID: 25800739

Wang, K., R. Yan, K.F. Cooper, and R. Strich*. 2015. Cyclin C mediates stress-induced mitochondrial fission and apoptosis. Mol Biol Cell. 2015 Mar 15;26(6):1030-43. doi: 10.1091/mbc.E14-08-1315. Epub 2015 Jan 21.

Zaroff S, Leone P, Markov V, Francis JS*. (2015) Transcriptional regulation of N-acetylaspartate metabolism in the 5xFAD model of Alzheimer's disease: Evidence for neuron-glia communication during energetic crisis. Journal of Mol Cell Neuroscience, Volume 65,March 2015, Pages 143-52.

Wu B, Walker J, Spur BW, Rodriguez A, Yin K*. Effects of Lipoxin A4 on antimicrobial actions of neutrophils in sepsis. Prostaglandins, Leukotrienes and Essential Fatty Acids 2015 Mar;94:55-64. doi: 10.1016/j.plefa.2014.11.005. Epub 2014 Nov 21.

Gong, H., B. Anasori, C.R. Dennison, K. Wang, E.C. Kumbur, R. Strich*, and J.G. Zhou. 2015. Fabrication, biodegradation behavior and cytotoxicity of Mg-nanodiamond composites for implant application. Journal of materials science. J Mater Sci Mater Med. 2015 Feb;26(2):110. doi: 10.1007/s10856-015-5441-3. Epub 2015 Feb 11.

Goodson III, W.H., Lowe, L., Carpenter, D.O., Gilbertson, M., Ali, A.M., Salsamendi, A.L., Lasfar, A., Carnero, A., Azqueta, A., Amedei, A., Charles, A.K., Collins, A.R., Ward, A., Salzberg, A.C., Colacci, A., Olsen, A.-K., Berg, A., Barclay, B.J., Zhou, B.P., Blanco-Aparicio, C., Baglole, C., Dong, C., Mondello, C., Hsu, C.-W., Naus, C.C., Yedjou, C., Curran, C.S., Laird, D.W., Koch, D.C., Carlin, D.J., Felsher, D.W., Roy, D., Brown, D., Ratovitski, E., Ryan, E.P., Corsini, E., Rojas, E., Moon, E.-Y., Laconi, E., Marongiu, F., Al-Mulla, F., Chiaradonna, F., Darroudi, F., Martin, F.L., Van Schooten, F.J., Goldberg, G.S.*, Wagemaker, G., Nangami, G., Rice, G., Calaf, G.M., Williams, G., Wolf, G.T., Koppen, G., Brunborg, G., Lyerly, H.K., Krishnan, H., Hamid, H.A., Yasaei, H., Sone, H., Kondoh, H., Salem, H.K., Hsu, H.-Y., Park, H.H., Koturbash, I., Miousse, I.R., Scovassi, I.,Klaunig, J.E., Vondráček, J., Raju, J., Roman, J., Wise, J.P., Whitfield, J.R., Woodrick, J., Christopher, J., Ochieng, J., Martinez-Leal, J.F., Weisz, J., Kravchenko, J., Sun, J., Prudhomme, K.R., Narayanan, K.B., Cohen-Solal, K.A., Moorwood, K., Gonzalez, L., Soucek, L., Jian, L., D’Abronzo, L.S., Lin, L.-T., Li, L., Gulliver, L., McCawley, L.J., Memeo, L., Vermeulen, L., Leyns, L., Zhang, L., Valverde, M., Khatami, M., Romano, M.F., Chapellier, M., Williams, M.A., Wade, M., Manjili, M.H., Lleonart, M., Xia, M., Gonzalez, M.J., Karamouzis, M.V., Kirsch-Volders, M., Vaccari, M., Kuemmerle, N.B., Singh, N., Cruickshanks, N., Kleinstreuer, N., van Larebeke, N., Ahmed, N., Ogunkua, O., Krishnakumar, P.K., Vadgama, P., Marignani, P.A., Ghosh, P.M., Ostrosky-Wegman, P., Thompson, P., Dent, P., Heneberg, P., Darbre, P., Leung, P.S. Nangia-Makker, P., Cheng, Q., Robey, R.B., Al-Temaimi, R., Roy, R., Andrade-Vieira, R., Sinha, R.K., Mehta, R., Vento, R., Di Fiore, R., Ponce-Cusi, R., Dornetshuber-Fleiss, R., Nahta, R., Castellino, R.C., Palorini, R., Hamid, Langie, S.A.S., Eltom, S., Brooks, S.A., Ryeom, S., Wise, S.S., Bay, S.N., Harris, S., Papagerakis, S., Romano, S., Pavanello, S., Eriksson, S., Forte, S., Casey, S.C., Luanpitpong, S., Lee, T.-J., Otsuki, T., Chen, T., Massfelder, T., Sanderson, T., Guarnieri, T., Hultman, T., Dormoy, V., Odero-Marah, V., Sabbisetti, V., Maguer-Satta, V., Rathmell, W.K., Engström, W., Decker, W.K., Bisson, W.H., Rojanasakul, Y., Luqmani, Y., Chen, Z, Hu, Z (in press) Assessing the carcinogenic potential of low dose exposures to chemical mixtures in the environment: the challenge ahead. Carcinogenesis (2015) 36 (Suppl 1): S254-S296 doi:10.1093/carcin/bgv039

Nahta, R., Al-Mulla, F., Al-Temaimi, R., Amedei, A., Andrade-Vieira, R., Bay, S., Brown, D., Calaf, G.M., Castellino, R.C., Cohen-Solal, K.A., Colacci, A., Cruickshanks, N., Dent, P., Di Fiore, R., Forte, S., Goldberg, G.S.*, Hamid, R.A., Krishnan, H., Laird, D.W., Lasfar, A., Marignani, P.A., Memeo, L., Mondello, C., Naus, C.C., Ponce-Cusi, R., Raju, J., Roy, D., Roy, R., Ryan, E., Salem, H.K., Scovassi, I., Singh, N., Vaccari, M., Vento, R., Vondráček, J., Wade, M., Woodrick, J., and Bisson, W.H. (in press) Mechanisms of environmental chemicals that enable the cancer hallmark of evasion of growth suppression. Carcinogenesis (2015) 36 (Suppl 1): S2-S18. doi: 10.1093/carcin/bgv028

Agaronyan K, Morozov YI, Anikin M, Temiakov D*. Mitochondrial biology. Replication-transcription switch in human mitochondria. Science. 2015 Jan 30;347(6221):548-51. doi: 10.1126/science.aaa0986.PMID: 25635099

Kolar, K., Freitas-Andrade, M., Bechberger, J.F., Krishnan, H., Goldberg, G.S.*, Naus, C.C., and Sin, W.C. (2015) Podoplanin: a marker of reactive gliosis in gliomas and brain injury.Journal of Neuropathology and Experimental Neurology, 2015 Jan; 74(1): 64-74. doi: 10.1097/NEN.0000000000000150. (Highlighted in issue cover art).

Wei, Q., Zhao, Y., Guo, Y., Stomel, J., Stires, R. and Ellis, R. E.* (2014) Co-option of alternate sperm activation programs in the evolution of self-fertile nematodes. Nat Commun. 2014 Dec 19;5:5888. doi: 10.1038/ncomms6888.

Shuang Wu, Munevver Aksoy, Jianting Shi, Hristo Botev Houbaviy*. (2014) Evolution of the miR-290-295/miR-371-373 Cluster Family Seed Repertoire. PLOS ONE 9, e108519.

Molodtsov V, Anikin M, McAllister WT*. (2014) The Presence of an RNA:DNA Hybrid That Is Prone to Slippage Promotes Termination by T7 RNA Polymerase. Journal of Molecular Biology, Volume 426, Issue 18, 9 September 2014, Pages 3095–3107.

Wang M, Anikin L, Pestov DG*. Two orthogonal cleavages separate subunit RNAs in mouse ribosome biogenesis. Nucleic Acids Res. 2015 Jan 1;42(17):11180-91. doi: 10.1093/nar/gku787. Epub 2014 Sep 4.

Moss, E.G.* and Romer-Seibert, J. (2014) Cell-intrinsic timing in animal development. Wiley Interdisciplinary Reviews: Developmental Biology Volume 3, Issue 5, pages 365–377, September/October 2014. Published Online: Jul 24 2014.

Khakhina S, Cooper KF, Strich R*. (2014) Med13p prevents mitochondrial fission and programmed cell death in yeast through nuclear retention of cyclin C. Mol Biol Cell 25:2807-2816. (PMID 25057017).

Markov DA*, Wojtas ID, Tessitore K, Henderson S and McAllister WT. (2014) Yeast DEAD Box Protein Mss116p Is a Transcription Elongation Factor That Modulates the Activity of Mitochondrial RNA Polymerase. Published ahead of print 14 April 2014, doi: 10.1128/MCB.00160-14 Mol. Cell. Biol. July 2014 vol. 34 no. 13 2360-2369.

Chen X, Shen Y, Ellis RE*. (2014) Dependence of the Sperm/Oocyte Decision on the Nucleosome Remodeling Factor Complex Was Acquired during Recent Caenorhabditis briggsae Evolution. Mol. Biol. Evol. 31(10): 2573-2585. doi: 10.1093/molbev/msu198. First published online: July 1, 2014

Jin, C., Strich, R. and Cooper, K.F.* (2014) Slt2p phosphorylation induces cyclin C nuclear to cytoplasmic translocation in response to oxidative stress. Mol Biol Cell. 2014 Apr;25(8):1396-1407. doi: 10.1091/mbc.E13-09-0550. Epub 2014 Feb 19.

Wei, Q., Shen, Y., Chen, X., Shifman, Y. and Ellis, R. E.* (2014) Rapid creation of forward-genetics tools for C. briggsae using TALENs: lessons for non-model organisms. Mol. Biol. Evol. 31(2): 468-73.

Cooper, K. F*, Khakhina, S,. Kim, S. K. and Strich, R*. (2014) Stress-Induced Nuclear to Cytoplasmic Translocation of Cyclin C Promotes Mitochondrial Fission in Yeast. Developmental Cell 28:161–173 PMID: 24439911. Highlighted in Developmental Cell, Volume 28, Issue 2, 112-114, 27 January 2014 “Cyclin C: An Inducer of Mitochondrial Division Hidden in the Nucleus” by Yoshihiro Adachi and Hiromi Sesaki. Also was featured as Editors Choice in Science Signaling 2014, Vol.7 page-ec33 “Cyclin C Moves Out of the Nucleus” by VanHook, A.M.

Morozov YI, Agaronyan K, Cheung AC, Anikin M, Cramer P, Temiakov D*. A novel intermediate in transcription initiation by human mitochondrial RNA polymerase. Nucleic Acids Res. 2014 Apr;42(6):3884-93. doi: 10.1093/nar/gkt1356. Epub 2014 Jan 6.