university of alabama at birmingham school of medicine · pdf file ·...

Jianhua Zhang, Ph.D. Curriculum Vitae

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University of Alabama at Birmingham School of Medicine faculty RANK/TITLE: Associate Professor of Pathology, UAB University Address: Department of Pathology Division of Molecular Cellular Pathology 901 19th street South, BMRII Room 534

Birmingham, AL 35294 Telephone: Tel: 205 996-5153 Fax: 205 934-7447 E-Mail Address: [email protected] EDUCATION: Institution Degree Year Department of Biology, University of Science and Technology of China, China B.Sc. 1980-1985 Department of Biochemistry, University of Texas Southwestern Medical Center at Dallas, TX, USA, with Professor Joseph Sambrook, FRS, FAA

Ph.D. 1985-1991

Post Doctoral Training: Institution

Degree

Year

Whitehead Institute for Biomedical Research with Professor Richard Young postdoc 1991-1995 ACADEMIC AND RESEARCH APPOINTMENTS: Primary Appointments: 2012-present Tenured Associate Professor, Department of Pathology, University of Alabama at

Birmingham 2011-2012 Associate Professor, Department of Pathology, University of Alabama at Birmingham 2005-2011 Tenure Track Assistant Professor, Department of Pathology, University of Alabama at

Birmingham 1996-2005 Research Assistant Professor, Department of Cell Biology, Neurobiology and

Anatomy, University of Cincinnati College of Medicine Secondary Appointments: University of Alabama at Birmingham (UAB) 2016-present 2010-present

Faculty member, Alzheimer’s Disease Center (ADC), UAB Faculty member, Center for Free Radical Biology (CFRB), UAB

2008-present Faculty member, Alzheimer’s Disease Research Center (ADRC), UAB 2007-present Faculty member, Center for Neurodegeneration and Experimental Therapeutics

(CNET), UAB 2006-present Faculty member, Center for Aging (CFA), UAB 2006-present Faculty member, Department of Cell Biology, the department changed to Department of

Cell, Developmental and Integrative Biology (CDIB) in 2012, UAB


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2006-present Associate Scientist, Civitan International Research Center (CIRC) 2005-present Faculty member, Department of Neurobiology, UAB 2016-present Faculty member, Alzheimer’s Disease Center (ADC), UAB 2016-present Faculty member, Nutrition Obesity Research Center (NORC), UAB UAB Graduate Program Affiliations: 2005-present Faculty, Integrative Biological Sciences (IBS), University of Alabama at Birmingham 2005-present Faculty, Molecular Pathology (MCP), University of Alabama at Birmingham 2005-present Faculty, Neurobiology (NB), University of Alabama at Birmingham 2005-present Faculty, Cell and Molecular Biology (CMB), University of Alabama at Birmingham 2006-present Faculty, Neuroscience (NS), University of Alabama at Birmingham 2006-present Faculty, Interdisciplinary Genetics Graduate Program (IGGP), University of Alabama at

Birmingham 2008-present Faculty, Medical scientist training program (MSTP), University of Alabama at

Birmingham University of Cincinnati Graduate Program Affiliations: 1997-2005 Faculty, Interdisciplinary Ph.D. Program in Molecular Cell Biology, University of

Cincinnati College of Medicine 1998-2005 Faculty, Interdisciplinary Ph.D. Program in Neuroscience, University of Cincinnati College

of Medicine 1998-2005 Faculty, Medical Science Scholar (MD/PhD) Program, University of Cincinnati College of

Medicine AWARDS/HONORS: 1985-1991 CUSBEA (China United States Biochemistry Examination Application) Exchange Student.

The program started in 1982 and ended in 1989 to recruit between 40 to 60 students from China to the US Universities each year.

1990 Sigma Xi Award. The University of Texas Southwestern Medical Center at Dallas. Student presentation award for that year.

2011 Young Investigator Award. Society for Free Radical Biology and Medicine conference Brazil.

2013 Selected as the receiver of the most cited paper award from Molecular Brain PROFESSIONAL SOCIETIES: 2001-2006 American Association for Cancer Research 1996-2013 Society for Neuroscience 2012-2013 American Physiology Society 2005-present Chinese Biologic Investigator Society 2006-present Society of Chinese Bioscientists in America 2006-present Birmingham Chinese Professor Association (president from 2006-2016) 2010-present Association for Neurons and Diseases 2010-present Society for Free Radical Biology and Medicine (mentor for mentee, Women in Science

committee, Awards Committee, reviewer for abstracts, finance and marketing committee, council member, program committee)

COUNCILS AND COMMITTEES: Ad hoc reviewer: 1998 Ohio Cancer Research Associates, USA


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2004 Philip Morris External Research Program 2004-2005 National Natural Sciences Foundation of China (NNSFC), PRC 2004-2006 University Research Council, University of Cincinnati 2006-2012 Department of Defense CET-1 (Cancer Experimental Therapeutics-1) 2008 NSF 2009-2012 American Heart Association, Region 2 Brain Study Sections 2010 Louisiana Board of Regents’ Research 2010 The Wellcome Trust-DBT India Alliance 2010 VA merit award NURC 2009-present Alzheimer’s Association (application several cycles each year) 2012 NIH Brain Disorders and Related Neurosciences Fellowship Study Section (F01) study

sections 2012 Review for Pennsylvania Department of Health 2012 Review for CARIPARO Foundation 2012 Review for European Research Council (ERC) IDEA program 2013-present Parkinson's UK (applications each year) 2013 The Fund for Scientific Research (F.R.S.-FNRS), Brussels, Belgium 2014 NIH Director’s Transformative Research Award initiative 2014 NIH ad hoc Special Emphasis Panel (SEP) 2014-2015 NIH CDIN study section 2015 The Netherlands Organisation for Scientific Research (NWO) 2015 European Research Council (ERC) 2015 ‘Sino-Dutch Joint Research Projects: Stem Cell Research’ 2015 The Fund for Scientific Research (F.R.S.-FNRS), Brussels, Belgium 2015 National Science Centre, Poland 2015 Action Medical Research for children, UK 2015-present The French National Research Agency 2015 Alzheimer's Society, UK 2015 NIH “Support of Competitive Research (SCORE)” applications 2016 NIHLBI PPG 2016 VA Aging and neurodegenerative disease, RR&D MERIT REVIEW AWARD (PARENT I01) 2016 The Motor Neuron Disease Association UK 2016 NIH NOMD study section 2016 UK Biotechnology and Biological Sciences Research Council (BBSRC) Institute Strategic

Programme Grant (ISPG) applications 2016 BioTechMed-Graz applications National and International Service: 2012-present Council, Society for Free Radical Biology and Medicine EDITORIAL BOARD MEMBERSHIPS: 2010-present Brain Research Bulletin 2013-present Redox Biology 2013-present American Journal of Pathology 2013-present PLoS ONE Reviewer for Research Articles:

Aging and Diseases: Aging and disease, BBA Molecular Basis of Diseases,


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Apoptosis and Autophagy and Cell Biology: Apoptosis, Autophagy, BBA Molecular Cellular Research, BMC Cell Biology, Cell Death and Differentiation, Cell Research, Experimental Cell Research, Molecular Biology of the Cell, Molecular Cell Biology,

Biochemistry and Pharmacology: Biochemistry and Biophysics Reports, Biochemical Pharmacology, British Journal of Pharmacology, Journal of Biological Chemistry, Toxicological Sciences,

Bioenergetics and Redox biology: Antioxidants & Redox Signaling, Free Radical Biology & Medicine, Free Radical Research, Mitochondrion, Nitric Oxide, Redox Biology, Oxidative Medicine and Cellular Longevity,

Biomedical sciences: Biofactors, Nature Communications, PLoS One, Proc Nat Acad Sci, Scientific Report,

Cancer: BMC cancer, Cancer Research, Molecular Cancer,

Genetics: Human Molecular Genetics, Physiological Genomics,

Neurobiology and Neurodegeneration: BMC Neuroscience, Brain Research, Brain Research Bulletin, Journal of Gerontology, Journal of Neurochemistry, Journal of Neuroscience, Journal of Neuroscience Research, Molecular Brain, Molecular Neurodegeneration, Molecular Pain, Nature Reviews Neurobiology of Aging, Neurobiology and Diseases, Neurotoxicity Research, Neurochemistry International, Neuroscience, Neuroscience letters, Neurogenetics, Pharmacology Biochemistry & Behavior,

Pathology: Acta Neuropathologica, American Journal of Pathology, J of Histochemistry,

Physiology: American Journal of Physiology, Journal of physiology RESEARCH INTERESTS: My long-term research interests are to understand the cellular and molecular mechanisms responsible for autophagy and cell death, in the context of a variety of human diseases. We are approaching this by generating and characterizing novel mouse models that are capable of dissecting the role of key cell death and autophagy-lysosomal proteins in protein and organelle homeostasis, cellular bioenergetics and cellular response to oxidative stress in degenerative diseases and aging, with particular focus on Parkinson’s disease, and with collaborative efforts on Alzheimer’s disease, diabetes, cardiovascular and lung diseases. TEACHING EXPERIENCE: University of Alabama at Birmingham Lecturer: 2006-present NEUR 720, CMB 763, Developmental Neuroscience (Programmed Cell Death in Development) 2014-present GBS 749 Mitochondria in health and disease (Mitophagy) 2011-present GBS731-PCN Principles of Neuroscience Course (Bioenergetics and diseases in the nervous system) Course director: 2007-present (1 credit hour, 1 contact hour weekly): NBL 786 Cell Death Mechanisms/Autophagy Journal Club 2011-present (3 credit hours, 4 contact hours weekly): 56177 GBS 754 Autophagy in Disease & Med


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MENTORING EXPERIENCES: Previous postdocs and Visiting Scholars Current position 2002-2004 Yong-Fei Wu, MD/MS (Visiting Scholar) Research Associate, Northwestern

University 2002-2004 Mei Dong, PhD (Junior Research Associate) Research Associate, Children’s Hospital

Research Foundation, Cincinnati 2006-2006 Canquan Mao, PhD (Visiting Scholar) Director, School of Bioengineering Southwest Jiaotong University 2006-2006 Jun Lu, MD (Visiting Scholar) Surgeon, Military Med Hospital, Beijing, 2007-2007 Jiyu Yan, PhD (Visiting Scholar) Research Associate, Dept Medicine, UAB 2006-2007 Liyan Qiao, MD/PhD (Visiting Scholar) Physician, Tsinghua University Hospital 2007-2008 Stephen Crimmins, PhD (Postdoc) Postdoc, US Army Medical Corps 2009-2009 Weibin Shi, MD/PhD (Postdoc) Intern, NY hospital 2011-2012 Jisun Lee, PhD (postdoc) Research associate, The Catholic University of Korea 2012-2013 Michaël Boyer-Guittaut, PhD Faculty, Université de Franche-Comté (visiting scientist) 2008-2014 Qiuli Liang, PhD postdoc, UAB public health 2013-2015 Israr Ahmad Research Associate, UAB anesthesiology PhD students Current position 2007-2012 Donna Crabtree (Pathology, UAB) postdoc, Duke University Dr. Becher 2008-2012 Lonnie Schneider (Pathology, UAB) postdoc, U of Colorado Dr. Patel, and then

UAB traumatic brain injury, Dr. Floyd 2010-2014 Samantha Giordano (Pathology, UAB) postdoc, UAB hypertension, Dr. Oparil 2011-2015 Matthew Dodson (CMDB, UAB) postdoc, University of Arizona, Dr. Zhang Past graduate students in UAB: 2007-2012 Donna Crabtree (Integrative Biological Sciences, UAB) studied a mouse model of lysosomal deficiency in pathogenesis of Parkinson’s disease and validation of strategies to enhance lysosomal activities using adeno-associated virus and lenti-virus to attenuate neurodegeneration in α-synuclein and MPTP/MPP+ based cell and animal models. She passed his qualifying exam August 2009, published 1 first authored review article, 1 co-authored research article, and 2 first-authored research articles. She gave several presentations in national conferences and university-wide retreats and research day symposiums, won a UAB graduate research presentation third place prize in 2012, received Department of Pathology and UAB graduate student travel awards to present in Experimental Biology conference in 2012, and defended her PhD thesis June 25, 2012. She started her postdoc position on pediatric cancer with Dr. Becher at Duke University in August 2012. 2008-2012 Lonnie Schneider (Integrative Biological Sciences, UAB) studied molecular and cellular mechanisms of general and selective macroautophagy in decreasing the accumulation of damaged proteins and organelles, in the contexts of Parkinson’s and Huntington’s disease using cell lines, primary neurons, and mouse models. He previously co-authored 5 research articles as a technician in Arizona, before joining UAB. He passed his qualifying exam May 2010, published 3 co-authored articles, 1 first authored review, and 1 co-first authored research article. He gave a well-received lecture in the Autophagy course for which I have been a course master. He won a Department of Pathology and a Center for Free Radical Biology travel award to present in Society for Free Radical Biology and Medicine conference in 2011. He defended his PhD thesis May 25, 2012. He joined Dr. Manisha Patel (U of Colorado)’s laboratory as a postdoc


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working on epilepsy in June 2012, and joined Candace Floyd’s laboratory (UAB) for a second postdoc working on traumatic brain injury in July 2013. 2010-2014 Samantha Giordano (Integrative Biological Sciences, UAB) worked on neurotoxin rotenone-induced mitochondrial dysfunctions and cell death; and the protective role of autophagy. In my lab, she has published 1 co-first authored research article, 1 co-first authored review article, 1 co-authored method paper, 1 first author review, and 1 first author research article. She received travel awards from Department of Pathology, UAB graduate school, Center for Free Radical Biology, and Society for Free Radical Biology and Medicine, to present in Society for Free Radical Biology and Medicine conference in 2010, 2011, 2012, and 2013. She also won a Graduate School retreat poster presentation 2nd place award. She was also trained in giving lectures to graduate students, and reviewing manuscript. She joined UAB Vascular Biology as a postdoc, and was awarded a T32 postdoctoral fellowship on hypertension in May 2014. 2011-2015 Matthew B Dodson (Cell, Molecular and Developmental Biology, UAB) is studying the signaling pathways between autophagy, oxidative stress and glycolytic activities. He passed his qualifying exam October 1, 2012. He won a Department of Pathology and a Center for Free Radical Biology travel awards to present in Society for Free Radical Biology and Medicine conference in 2011, 2012, and 2013. He received a poster presentation award in Center for Aging conference at UAB, and a young investigator award in Society for Free Radical Biology and Medicine conference in 2012. He has one first author Review article published in FRBM, and another first author Research Article in Autophagy, and 3 co-authored research articles in J Neurochemistry and FRBM, and 2 co-authored reviews. He has also been trained in giving lectures to graduate students, and reviewing manuscript. He has been chosen to be recognized as the recipient of the Department of Cell, Developmental, and Integrative Biology Outstanding Student Award for 2015. He joined University of Arizona Toxicology program as a postdoc, and was awarded a T32 postdoctoral fellowship in June 2015.

Current postdoc: 2010-present Xiaosen Ouyang, MD (Research Associate) Xiaosen is studying the role of autophagy regulation and neurodegeneration in mouse knock-out and knock-in models. She had 8 years of postdoc experience in pathology and oxidative stress field, and published 16 papers prior to joining my lab. She is essential for all lab management and assisting everybody in research techniques and has contributed as a co-author in 10 research articles in my lab. 2014-present Willayat Wani, PhD (postdoc) Willayat received his PhD June 2013 from Postgraduate Institute of Medical Education and Research (PGIMER), Chandigarh, India. He worked on cloning of an enantioselective lipase from Bacillus subtilis, role of PARP1 activation in organophophate-induced neuronal cell death and its protection by PJ34 (a PARP1 inhibitor) in PC12 cells, as well as role of microglial activation in organophosphate and aluminium-induced cell death in rat models and the effect of TEMPOL, Quercetin and MitoQ in neuroprotection. He has published 15 papers, 2 as first author in Neuropharmacology and Neuroscience. He is working on mouse models of neuroinflammation in my lab, and is first author on a review in Lab Investigation. He received travel award to attend SFRBM 2015 and abstract selected for oral presentation. Current graduate students in UAB: 2013-present Matthew Redmann (Cell, Molecular and Developmental Biology, UAB) joined my lab May 1, 2013 to study effects of oxidative stress and antioxidants in regulation of autophagy in aging and degenerative diseases. He won a Department of Pathology and a Center for Free Radical Biology travel awards to present in Society for Free Radical Biology and Medicine conference in 2013. He has 2 co-author


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research articles in Autophagy and J Neurochemistry, and 1 first author review in International Journal of Biochemistry and Cell Biology.

GRANT SUPPORT: Ongoing Research Support: Focus area: Autophagy-lysosomal pathway in diseases 1 P30 G050886-01 (PI: Steven Austad) 7/1/2015-6/30/2020 Nathan Shock Center (NIA) “Comparative Energetics and Aging” Role: Core D co-investigator 1 I01 BX003056-01A1 (PI: Thannickal) 10/1/2015-9/30/2019 VA merit award Sirtuins in Lung Aging and Fibrosis Role: Co-investigator UAB AMC21 Reload Multi-investigator Grant (PI: Chatham) 7/1/2015-6/30/2017 “Protein O-GlcNAcylation a central mediator of metabolic induced cardiovascular complications” Role: Project 3 co-investigator 1R01DK108836-01 (PI: White) 4/01/2016-3/31/2020 HDL and Cellular Repair Mechanisms Role: Co-Investigator Past grant support: University of Alabama at Birmingham (funding from 2006)

NIH R01 (Zhang) 4/15/2010-3/31/2016 (NCE) “Alpha-synuclein degradation mechanisms” $1,090,000 total direct cost Autophagy-lysosomal pathway is important for degradation of intracellular damaged and aged proteins. Alpha-synuclein aggregation is a hallmark of Parkinson’s and other Lewy body diseases. Mutations of alpha-synuclein or its gene triplication are responsible for a subset of familial Parkinson’s disease. We study how cathepsin D haploinsufficiency and AAV-mediated cathepsin overexpression in mouse models affect alpha-synuclein accumulation and dopaminergic neuron death in alpha-synuclein transgenic mice. R21ES024027 (PI: Sadis Matalon) 9/24/2013-8/31/2015 “Mitochondrial Bioenergetic Dysfunction and Chlorine Toxicity” $250,000 Chlorine (Cl2) is a highly irritant and reactive gas produced in large quantities throughout the world for pulp bleaching, waste sanitation and in the manufacturing of pharmaceuticals. We will establish the sequelae of mitochondria injury and autophagy following exposure of human airway epithelial cells to Cl2. Furthermore, we will determine if administration of MitoQ, rapamycin, trehalose, alone or in combination to mice post Cl2 exposure decreases airway and distal lung epithelial injury. Role: Co-Investigator


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PI: Zhang VA Merit Award 2010- 6/30/14 (NCE) "Novel mechanism of neuroprotection against neurotoxins" $565,328 total direct cost (5/8 effort) Autophagy-lysosomal pathway is important for degradation of intracellular damaged and aged proteins. Mitochondrial neurotoxins induce dopaminergic neurodegeneration in mouse models. We study how cathepsin D haploinsufficiency and AAV-mediated cathepsin overexpression in mouse models affect susceptibility of dopaminergic neurons to neurotoxins. PI: Dell’Italia VA instrument grant 2014 $440,000 Our VA investigators would be much more in favor of the resonant two photon confocal intravital imaging system. This allows much deeper analyses in live samples with very fast capture rate and thus it is especially important for dynamic processes. A resonant two photon confocal system would greatly expand the dynamic live-cell research capabilities at VA especially for intravital analysis in animal models and thick live samples. Most important dynamic in vivo processes can be evaluated with full frame capture rates of around 30-50 fps. We are also currently limited to analysis of peripheral regions of tissues (<100 µM). The depth of analysis is much increased through two photon approaches. Thus dynamic processes can be visualized using deep optical sections. Additionally, as it involves two-photon microscopy the amount of photo-damage associated with image can be greatly diminished. Role: co-Investigator PI: Darley-Usmar UCDC Seed Funding Program/UAB 2013-2014 Role: Co-Investigator Mechanisms of dysfunctional mitophagy in beta cells $30,000 PI: Dell’Italia VA instrument grant 2013 $440,000 The application was awarded for funding of purchasing of “Image Stream”. The ImageStream System from Amnis Corporation is the only commercially available instrument for the sensitive fluorescence imaging of cells in flow that combines high-speed automated image capture and quantitative image analysis tools in a single platform. Thus, as opposed to flow cytometry or confocal microscopy alone, the ImageStream can identify subcellular localization of subcellular probes and changes in shape, while capturing statistical data on events occurring within populations of cells, such as stem cells or circulating tumor cells or macrophages. Role: co-Investigator (PI: K Roth) NIH Alabama Neuroscience Blueprint Core Center 2006-2011 (my role is transgenic core co-I) $6,991,337 total direct costs The major mission of this Center is to provide neuroscientists in academic institutions in Alabama access to the broad array of tools and expertise required to generate and characterize novel genetically modified small animal models of neurological and psychiatric function and dysfunction. PI: Zhang High Q Foundation 2008--2009 “Validation of members of the Cathepsin family as targets for Huntington’s disease therapy” $60,000 total direct cost PI: Zhang Michael J Fox Foundation target validation 2007-2009


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“Validation of cathepsin D as a target for PD therapy” $250,000 total direct cost PI: Zhang Alzheimer’s Disease Research Center 2007-2008 “A novel model to study Lewy Body diseases” $35,000 total direct cost Dr. Stephen Crimmins Civitan Eminent Scholar Award 2007-2008 (as his postdoc mentor) “Role of an autophagy regulator VPS34 in neurodevelopmental disorders” $25,000 total direct cost PI: Zhang UAB faculty development grant program 2006-2007 “Progressive Parkinson’s disease and lysosomal dysfunction” $10,000 total direct cost

PI: Zhang American Parkinson Disease Association 2006-2007 “Lysosomal dysfunction, cell death and Parkinson’s disease” $50,000 total direct cost In University of Cincinnati, I worked on 3 focus areas as PI or collaborators and had continued funding on

these topics as PI Focus 1: Apoptosis in cancer and autoimmunity Focus 2: Transcription factor c-Fos in neuroplasticity and cell death Focus 3: Dopamine receptor signaling Focus 1: Apoptosis in cancer and autoimmunity (continued funding from 2000-2005) PI: Zhang Lupus Research Institute 2002-2006 Defective DNA degradation and systemic lupus erythematosus $225,000 total direct cost PI: Zhang ACS Ohio Division 2005-2006 Apoptosis regulation by Wnt signaling in ovarian cancer $27,273 total direct cost PI: Zhang Center for Environmental Genetics Pilot project 2004-2005 An endonuclease in breast cancer development $25,000 total direct costs PI: Zhang DOD-DAMD 17-01-1-0723 2001-2005 The Roles of DNA Fragmentation Factor 45 in Ovarian Cancer $300,000 total direct cost PI: Zhang Cell Biology Microscopy core challenging fund 2003-2003 “EndoG in mitochondrial morphogenesis” $850 PI: Zhang University Research Council, University of Cincinnati 2001-2002


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“The roles of DNA fragmentation factor 45 in systemic lupus erythematosus” $5,000 total direct cost PI: Zhang Ruth Lyons Cancer Research Award 2000-2001 “The roles of DNA fragmentation factor 45 in ovarian cancer” $12,000 total direct cost Focus 2: Transcription factor c-Fos in neuroplasticity and cell death (funding from 2003-2005) PI: Zhang Epilepsy Foundation 2005-2006 “c-Fos in neuroprotection against seizure and excitotoxicity” $40,000 total direct cost (PI: W. Kao) NIH-R01EY 010556-05 A2 2004-2005 As co-Investigator, terminated for my part since I moved to UAB “K12 Expression: cornea-type epithelium Differentiation” $1,564,390 total direct cost PI: Zhang Dean’s Discovery Fund 2003-2004 c-Fos and BDNF in neuroprotection $20,000 total direct cost Focus 3: Dopamine receptor signaling (continued funding since 1996 to 2005) (PI: M. Xu) NIH-R01DA14644 2002-2005 As co-Investigator, 25% salary, terminated for my part since I moved to UAB Molecular determinants of compulsive cocaine-taking $1,250,000 total direct cost (PI: N Richtand) VA Medical Research Equipment Grant 1998-1998 Co-Investigator. $71,195 total direct cost PI: Zhang NIH R29-DA11284 1997-2002 “D1 dopamine receptor signaling and effects of cocaine”. $350,000 total direct cost PI: Zhang NARSAD Young Investigator Award 1997-1999 “Identification of D3 dopamine receptor-interacting proteins using yeast two-hybrid system” $60,000 total direct cost PI: Zhang University Research Council, University of Cincinnati 1996-1997 “Identification of D3 dopamine receptor-interacting proteins using yeast two-hybrid system” $3,836 total direct cost BIBLIOGRAPHY:


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MANUSCRIPTS (total 108 papers, H-factor 41, i10-index 78, total citation 9818): 1. Zhang J, Liu Z-P, Jones TA, Gierasch L, Sambrook JF (1992) Mutating the charged residues in the

binding site of cellular retinoic acid-binding protein (CRABP) simultaneously increases its thermostability and reduces its binding affinity. Protein: Structure, Function, and Genetics 13:87-99 (with cover)

2. Zhang J, Liao S-M, Jeffrey DA, Koleske AJ, Thompson CM, Chao DM, Viljoen M, van Vuuren HJJ,Young RA (1995) A kinase-cyclin pair in the RNA polymerase II holoenzyme. Nature 374:193-196 (co-first author) (with news and views by O'Neill EM and Erin O’Shea: “Transcriptional regulation. Cyclins in initiation” )

3. Clark PL, Liu Z-P, Zhang J, Gierasch LM (1996) Intrinsic tryptophans of CRABPI as probes of structure and folding. Prot Sci 5:1108-1117

4. Hengartner CJ, Thompson CM, Zhang J, Chao DM, Liao S-M, Koleske AJ, Young RA (1995) Association of an activator with an RNA polymerase II holoenzyme. Genes & Dev 9:897-910

5. Zhang J, Liu X, Scherer DC, Van Kaer L, Wang X, Xu M (1998) Resistance to DNA fragmentation and chromatin condensation in mice lacking the DNA fragmentation factor 45. Proc Natl Acad Sci USA 95: 12480-12485 (with commentary by Susan Cory: “Cell death throes”) PMCID:PMC22856

6. Zhang J, Wang X, Bove K, Xu M (1999) DNA fragmentation factor 45 deficient cells are more resistant to apoptosis and exhibit different dying morphology than wild-type control cells. J Biol Chem 274:37450-37454

7. Slane J, Lee H, Vorhees CV, Zhang J, Xu M (2000) DNA fragmentation factor 45 deficient mice exhibit enhanced spatial learning and memory compared to wild-type control mice. Br Res 867:70-79

8. Zhang J, Lee H, Lou DW, Boivin GP, Xu M (2000) Lack of obvious 50 kilobase pair DNA fragments in DNA fragmentation factor 45 deficient thymocytes upon activation of apoptosis. Biochem Biophy Res Comm 274:225-229

9. Xu M, Guo Y, Vorhees CV, Zhang J (2000) Behavioral responses to cocaine and amphetamine administration in mice lacking the dopamine D1 receptor. Br Res 852:198-207

10. Yakovlev AG, Di X, Movsesyan V, Mullins PGM, Wang G, Boulares H, Zhang J, Xu M, Faden AI (2001) Presence of DNA fragmentation and lack of neuroprotective effect in DFF45 knockout mice subjected to traumatic brain injury. Mol Medicine 7:205-216 PMCID:PMC1950023

11. Zhang J, Lee H, Agarwala A, Lou DW, Xu M (2001) DNA fragmentation factor 45 mutant mice exhibit resistance to kainic acid-induced neuronal cell death. Biochem Biophy Res Comm 285:1143-1149

12. Hobbs JA, Cho SY, Roberts TJ, Sriram V, Zhang J, Xu M, Brutkiewicz R. (2001) Selective loss of natural killer T cells by apoptosis following infection with lymphocytic choriomeningitis virus. J Virol 75:10746-10754 PMCID:PMC114656

13. Zhang J, McQuade JS, Vorhees C, Xu M (2002) Hippocampal expression of c-fos is not essential for spatial learning. Synapse 46:91-99

14. Zhang J, Zhang D, McQuade JS, Behbehani M, Tsien J, Xu M (2002) C-fos regulates neuronal excitability and survival. Nature Genet 30:416-420

15. Jin W, Zhang J, Lou D, Chavkin C, Xu M (2002) c-fos-deficient hippocampal CA3 pyramidal neurons exhibit both enhanced basal and kainic acid-induced excitability. Neurosci Lett 331:151-154

16. McQuade JS, Vorhees C, Xu M, Zhang J (2002) DNA fragmentation factor 45 knockout mice exhibit longer memory retention in the novel object recognition task compared to wild-type mice. Physiol & Beh 76:315-320

17. Zhang J, Xu M, Aronow B (2002) Expression profiles of 109 apoptosis pathway-related genes in 82 mouse tissues and experimental conditions. Biochem Biophy Res Comm 297:537-544

18. Zhang D, Zhang L, Lou D, Nakabeppu Y, Zhang J, Xu M (2002) The dopamine D1 receptor is a critical mediator for cocaine-induced gene expression. J Neurochem 82:1453-1464


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19. Pritchard LM, Logue AD, Hayes S, Welge JA, Xu M, Zhang J, Berger SP, Richtand NM (2003) 7-OH-DPAT and PD 128907 selectively activate the D3 dopamine receptor in a novel environment. Neuropsychopharmacol 28:100-107

20. Zheng W, Xie W, Zhang J, Strong JA, Wang L, Yu L, Xu M, Lu L (2003) Function of gamma-aminobutyric acid receptor/channel rho 1 subunits in spinal cord. J Biol Chem 278:48321-48329

21. Zhang J, Dong M, Li L, Fan Y, Pathrie P, Dong J, Olivares-Villagom D, Lou D, Wells J, Van Kaer L, Wang X, Xu M (2003) Endonuclease G is required for early embryogenesis and normal apoptosis in mice. Proc Natl Acad Sci USA 100:15782-15787 co-corresponding author

22. Zhang L, Lou D, Jiao H, Zhang D, Wang X, Xia Y, Zhang J, Xu M (2004) Cocaine-induced intracellular signaling and gene expression are oppositely regulated by the dopamine D1 and D3 receptors. J Neurosci 24:3344-3354

23. Zhang J, Moseley A, Jegga AJ, Gupta A, Witte DP, Sartor M, Williams SS, Ley-Ebert C, Coolen L, Egnaczyk G, Genter MB, Lehman M, Lingrel J, Maggio J, Parysek L, Walsh R, Xu M, Aronow BJ (2004) Neural system-enriched gene expression, relationship to biological pathways and neurological diseases. Physiological Genomics 18, 167-183 co-corresponding author

24. Wu Y, Zhang D, Lou D, Fan Y, Aronow B, Xu M, Zhang J (2004) c-fos regulates neuropeptide Y expression in mouse dentate gyrus. Neurosci Lett 363:6-10

25. Wu Y, Dong M, Toepfer NJ, Fan F, Xu M, Zhang J (2004) Role of Endonuclease G in neural excitotoxicity in mice. Neurosci Lett 364:203-207

26. Rui T, Feng Q, Lei M, Peng T, Zhang J, Xu M, Abel ED, Xenocostas A, Kvietys PR (2005) Erythropoietin prevents the acute myocardial inflammatory response induced by ischemia/reperfusion induction of AP-1. Cardiovascular Research 65:719-27

27. Zhang D, Zhang L, Zhang Q, Tang Y, Lou D, Sharp FR, Zhang J, Xu M (2005) Repeated cocaine administration induces gene expression through the dopamine D1 receptors. Neuropsychopharmacol 30:1443-1454

28. Zhang J, Zhang L, Jiao H, Zhang Q, Zhang D, Lou D, Katz JL, Xu M (2006) c-Fos facilitates the acquisition and extinction of cocaine-induced persistent changes. J Neurosci 26:13287-13296

29. Dong M, Wu Y, Fan Y, Xu M, Zhang J (2006) c-fos modulates brain-derived neurotrophic factor mRNA expression in mouse hippocampal CA3 and dentate gyrus neurons. Neurosci Lett 400:177-180

30. McQuade JS, Tamashiro K, Wood G, Herman JP, McEwen BS, Sakai RR, Zhang J, Xu M (2006) Deficient hippocampal c-fos expression results in reduced anxiety and altered response to chronic stress in female mice. Neurosci Lett 403:125-30 (co-corresponding author)

31. McNamara RK, Logue A, Stanford K, Xu M, Zhang J, Richtand NM (2006) Dose-response analysis of locomotor activity and stereotypy in dopamine D3 receptor mutant mice following acute amphetamine. Synapse 60:399-405 PMCID:PMC1815379

32. Li Q, Li H, Blitvich BJ, Zhang J (2007) The Aedes albopictus inhibitor of apoptosis 1 gene protects vertebrate cells from bluetongue virus-induced apoptosis. Insect Mol Biol 16:93-105

33. Shacka J, Lu J, Xie Z, Uchiyama Y, Roth K, Zhang J (2007) Kainic acid induces early and transient autophagic stress in mouse hippocampus. Neurosci lett 414:57-60. PMCID: PMC1839881

34. Zhou Y, Adomako-Mensah J, Yuferov V, Ho A, Zhang J, Xu M, Kreek MJ (2007) Effects of acute "binge" cocaine on mRNA levels of mu opioid receptor and neuropeptides in dopamine D1 or D3 receptor knockout mice. Synapse 61:50-9

35. Pritchard L, Newman AH, McNamara RK, Logue AD, Taylor B, Welge JA, Xu M, Zhang J, Richtand NM (2007) The dopamine D3 receptor antagonist NGB 2904 increases spontaneous and amphetamine-stimulated locomotion. Pharm Biochem Beh 86:718-26

36. Dong M, Fan Y, Toepfer NJ, Zhang J (2007) Deficiency of DNA fragmentation factor 45 results in reduced oocyte apoptosis in response to doxorubicin. Cell Res 17:735-6


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37. Jiao H, Gao F, Lou D, Zhang J, Xu M (2007) Dopamine D1 and D3 receptors oppositely regulate NMDA- and cocaine-induced MAPK signaling via NMDA receptor phosphorylation. J Neurochem 102:840-848

38. Caine SB, Thomsen M, Gabriel KI, Berkowitz JS, Gold LH, Koob GF, Tonegawa S, Zhang J, Xu M (2007) Lack of self-administration of cocaine in dopamine D1 receptor knock-out mice. J Neurosci 27:13140-13150 PMCID:PMC2747091

39. Ness J, Harvey C, W Jason, Roth K, Carroll S, Zhang J (2008) Differential activation of c-Fos and caspase-3 in hippocampal neuron subpopulations following neonatal hypoxia-ischemia. J Neuroscience Res 86:1115-24

40. Qiao L, Hamamichi S, Caldwell KA, Caldwell GA, Yacoubian TA, Wilson S, Xie ZL, Speake LD, Parks R, Crabtree D, Liang Q, Crimmins S, Schneider L, Uchiyama Y, Iwatsubo T, Zhou Y, Peng L, Lu YM, Standaert DG. Walls KC, Shacka JJ, Roth KA, Zhang J (2008) Lysosomal enzyme cathepsin D protects against α-synuclein aggregation and toxicity. Molecular Brain 1:17. PMCID:PMC2600785

41. Hu XT, Nasif FJ, Zhang J, Xu M (2008) Fos regulates neuronal activity in the nucleus accumbens. Neurosci Lett 448:157-60

42. Qiao L, Zhang J (2009) Inhibition of lysosomal functions reduces proteasomal activity. Neurosci Lett 456:15-19

43. Xiong L, Zhao P, Guo Z. Zhang J, Li D, Mao C (2010) Alpha-synuclein gene structure, evolution, and protein aggregation. Neural Regeneration Research 5, 1423-1428

44. Walls KC, Ghosh AP, Franklin AL, Klocke BJ, Ballestas M, Shacka JJ, Zhang J, Roth KA (2010) Lysosome dysfunction triggers Atg7-dependent neural apoptosis. J Biol Chem 285:10497-507. PMCID:PMC2856257

45. Jegga A, Schneider L, Ouyang X, Zhang J (2011) Systems biology of the autophagy-lysosomal pathway. Autophagy 7:5, 1-13. PMCID:PMC3127210

46. Liang Q, Ouyang X, Schneider L, Zhang J (2011) Reduction of mutant huntingtin accumulation and toxicity by lysosomal cathepsins D and B in neurons. Molecular Neurodegeneration 6:37. PMCID:PMC3164227

47. Dranka BP, Benavides GA, Diers AR, Giordano S, Zelickson BR, Reily C, Zou L, Chatham J, Hill BG, Zhang J, Landar A, and Darley-Usmar VM (2011) Assessing bioenergetic function in response to oxidative stress by metabolic profiling. Free Radical Biology and Medicine 51:1622-1635 PMCID:PMC3548422

48. Schneider L, Giordano S, Zelickson BR, Johnson MA, Benavides GA, Ouyang X, Fineberg N, Darley-Usmar VM, Zhang J (2011) Differentiation of SH-SY5Y cells to a neuronal phenotype changes cellular bioenergetics and the response to oxidative stress. Free Radical Biology and Medicine 51:2007-2017. PMCID:PMC3208787

49. Jaber N, Dou Z, Chen JS, Catanzaro J, Jiang YP, Ballou LM, Selinger E, Ouyang X, Lin R, Zhang J, Zong WX (2012) The Class III PI3K Vps34 plays an essential role in autophagy and in the heart and liver function. Proc Nat Acad Sci USA 109:2003-2008. Co-corresponding author. PMCID: PMC3277541

50. Jaber N, Dou Z, Lin RZ, Zhang J, Zong WX (2012) Mammalian PIK3C3/VPS34: The key to autophagic processing in liver and heart. Autophagy 8:4, 707-708

51. Higdon AN, Benavides GA, Chacko B, Ouyang X, Johnson MS, Landar A, Zhang J, Darley-Usmar VM (2012) Hemin causes mitochondrial dysfunction in endothelial cells through promoting lipid peroxidation: the protective role of autophagy. American Journal of Physiology 302(7):H1394-409. PMCID:PMC3330785

52. Klionsky et al (Zhang J as one of 1270 co-authors) (2012) Guidelines for the Use and Interpretation of Assays for Monitoring Autophagy in Higher Eukaryotes. Autophagy 8:4, 445-544. PMCID:PMC3404883

53. Giordano S, Lee J, Darley-Usmar VM, Zhang J (2012) Distinct effects of rotenone, 1-methyl-4-phenylpyridinium and 6-hydroxydopamine on cellular bioenergetics and cell death. PlosOne 7(9):e44610. PMCID:PMC3435291

http://www.scopus.com/authid/detail.url?authorId=35849545500&eid=2-s2.0-79960382934

http://www.landesbioscience.com/journals/autophagy/article/19627/

http://www.landesbioscience.com/journals/autophagy/article/19627/


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54. Cummins TD, Higdon AN, Kramer PA, Chacko B, Riggs DW, Salabei JK, Dell’Italia LJ, Zhang J, Darley-Usmar VM, Hill BG (2012) Utilization of fluorescent probes to identify subcellular proteomes and processes regulated by lipid peroxidation products. Free Radical Biology and Medicine 59:56-68. PMCID:PMC3522791

55. Errami Y, Naura AS, Kim H, Ju J, Suzuki Y, El-Bahrawy, AH, Ghonim MA, Hemeida RA, Mansy MS, Zhang J, Xu M, Boulares AH (2013) Apoptotic DNA fragmentation may be a cooperative activity between caspase-activated DNase and the PARP-regulated DNas1L3, an ER-localized endonuclease that translocates to the nucleus during apoptosis. J Biol Chem 288(5):3460-8 PMCID:PMC3561564

56. Errami Y, Brim H Oumouna-Benachour K, Oumouna M, Naura AS, Kim H, Ju J, Kim JG, Ashktorab H, Fallon K, Xu M, Zhang J, Del Valle L, Boulares AH (2013) ICAD deficiency in human colon cancer and predisposition to colon tumorigenesis: linkage to apoptosis resistance and genomic instability. PlosOne 8:e57871 PMCID:PMC3579889

57. Crabtree D, Boyer-Guittaut M, Ouyang X, Fineberg N, Zhang J (2013) Dopamine and its metabolites in cathepsin D heterozygous mice before and after MPTP administration. Neuroscience Letters 538: 3-8 PMCID: PMC3645893

58. Parekh VV, Wu L, Boyd KL, Williams, JA, Gaddy JA, Olivares-Villagomez D, Cover TL, Zong WX, Zhang J, Van Kaer L (2013) Impaired autophagy, defective T cell homeostasis and a wasting syndrome in mice with a T cell-specific deletion of Vps34. Journal of Immunity 190(10):5086-101. PMCID:PMC3646937

59. Le Grand JN, Bon K, Fraichard A, Zhang J, Jouvenot M, Risold P-Y, Boyer-Guittaut M, Delage-Mourroux R (2013) Specific distribution of the autophagic protein GABARAPL1/GEC1 in the developing and adult mouse brain and identification of neuronal populations expressing GABARAPL1/GEC1. PlosOne 8(5):e63133 PMCID:PMC3655077

60. Mitchell T, Johnson MS, Ouyang X, Chacko BK, Mitra K, Lei X, Gai Y, Moore DR, Barnes S, Zhang J, Koizumi A, Ramanadham S, Darley-Usmar VM (2013) Dysfunctional mitochondrial bioenergetics and oxidative stress in Akita+/Ins2-derived β-cells. American J of Physiology 305(5):E585-99. PMCID:PMC3761167

61. Liang Q, Benavides G, Vasilopoulos A, Gius D, Darley-Usmar V, Zhang J (2013) Bioenergetic and autophagic control by Sirt3 in response to nutrient deprivation in mouse embryonic fibroblasts. Biochemical Journal 454:249-257 NIHMSID#554367

62. Benavides GA, Liang Q, Dodson M, Darley-Usmar V, Zhang J (2013) Inhibition of autophagy and glycolysis by nitric oxide during hypoxia-reoxygenation impairs cellular bioenergetics and promotes cell death in primary neurons. Free Radical Biology and Medicine 65:1215-1228 PMCID:PMC3859859

63. Dodson M, Liang Q, Johnson M, Redmann M, Fineberg N, Darley-Usmar V, Zhang J (2013) Inhibition of glycolysis attenuates 4-hydroxynonenal-dependent autophagy and exacerbates apoptosis in differentiated SH-SY5Y neuroblastoma cells. Autophagy 9:1996-2008. PMCID:PMC4028343

64. Crabtree D, Dodson M, Ouyang X, Boyer-Guittaut M, Liang Q, Ballestas M, Fineberg N, Zhang J (2013) Overexpression of an inactive mutant cathepsin D increases endogenous alpha-synuclein and cathepsin B activity in SH-SY5Y cells. Journal of Neurochemistry 128:950-61. PMCID:PMC3951679

65. Boyer-Guittaut M, Poillet L, Liang Q, Bôle-Richard E, Ouyang X, Benavides GA, Chakrama F-Z, Fraichard A, Darley-Usmar VM, Despouy G, Jouvenot M, Delage-Mourroux R, Zhang J (2014) The role of GABARAPL1 (GEC1) in autophagic flux and mitochondrial quality control in MDA-MB-436 breast cancer cells. Autophagy 10:6,986-1003 PMCID:PMC4091181

66. Chacko B, Kramer P, Ravi S, Benavides G, Mitchell T, Dranka BP, Ferrick D, Singal A, Ballinger S, Bailey SM, Hardy R, Zhang J, Zhi D, Darley-Usmar VM (2014) The Bioenergetic Health Index: A new concept in translational research. Clinical Science 127:367-373 PMCID:PMC4202728

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3645893/?tool=nihms


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67. Giordano S, Dodson M, Ravi S, Ouyang X, Redmann M, Darley-Usmar, Zhang J (2014) Bioenergetic adaptation in response to autophagy regulators during rotenone exposure. J Neurochem 131:625-33 PMCID:PMC4454361

68. Sheshadri N, Catanzaro J, Bott A, Sun Y, Ullman E, Chen E, Pan J-A, Wu S, Crawford H, Zhang J, Zong WX (2014) SCCA1/SerpinB3 promotes epithelial-mesenchymal transition and oncogenic transformation via unfolded protein response and IL-6 signaling. Cancer Research 74:6318-29 PMCID:PMC4216755

69. Jurkuvenaite A, Benavides GA, Komarova S, Doaran SF, Johnson M, Aggarwal S, Zhang J, Darley-Usmar VM, Matalon S (2015) Upregulation of autophagy decreases chlorine gas induced mitochondrial injury and lung inflammation. Free Radical Biology and Medicine 85:83-94 PMCID:PMC4508227

70. Rangarajan S, Kurundkar A, Kurundkar D, Bernard K, Sanders Y, Ding Q, Antony VB, Zhang J, Zmijewski J, Thannickal VJ (2016) Novel mechanisms for the anti-fibrotic action of Nintedanib. American Journal of Respiratory Cell and Molecular Biology (AJRCMB) 54:51-59 PMCID: PMC4742925

71. Klionsky et al (Zhang J as one of ~2000 co-authors) (2016) Guidelines for the use and interpretation of assays for monitoring autophagy in higher eukaryotes. Autophagy 12:1, 1-222 PMCID:PMC4835977

72. Radhakrishnan RK, Narasimhan M, Shanmugam G, Devarajan A, Palaniappan S, Zhang J, Halade G, Darley-Usmar VM, Hoidal JR, Rajasekaran NS (2016) Abrogation of Nrf2 impairs antioxidant signaling and promotes atrial hypertrophy in response to high-Intensity exercise stress. Journal of Translational Medicine 14:86 PMCID:PMC4822244

REVIEW ARTICLES: 73. Zhang J, Xu M (2000) DNA fragmentation in apoptosis. Cell Res 10:205-211 74. Zhang J, Xu M (2001) Toward a molecular understanding of psychostimulant actions using

genetically engineered dopamine receptor knockout mice as model systems. J Addictive Diseases 20:7-18

75. Zhang J, Xu M (2002) Apoptotic DNA degradation and tissue homeostasis. Trends Cell Biol 12:84-89

76. Xu M, Zhang J (2004) Molecular genetic probing of dopamine receptors in drug addiction. Current Opinion in Drug Discovery & Development 7:703-708

77. Shacka J, Roth K, Zhang J (2008) The autophagy-lysosomal degradation pathway: role in neurodegenerative disease and therapy. Frontiers in Bioscience 13:718-36

78. Schneider L, Zhang J (2010) Lysosomal function in macromolecular homeostasis and bioenergetics in Parkinson's disease. Molecular Neurodegeneration 5:14. PMCID: PMC2867960

79. Crabtree D, Zhang J (2012) Genetically engineered mouse models for Parkinson’s diseases. Brain Research Bulletin 88:13-32. PMCID:PMC3244549

80. Lee J, Giordano S, Zhang J (2012) Autophagy, mitochondrial and oxidative stress: cross-talk and redox signaling. Biochemical Journal 441:523-540. PMCID:PMC3258656

81. Hill B, Benavides G, Lancaster J, Ballinger S, Dell’Italia L, Zhang J, Darley-Usmar VM (2012) Integration of cellular bioenergetics with mitochondrial quality control and autophagy. Biological Chemistry 393:1485-1512. PMCID:PMC3594552

82. Mitchell T, Chacko B, Ballinger SW, Bailey SM, Zhang J, Darley-Usmar VM (2013) Convergent mechanisms for mitochondrial dysfunction in metabolic disease; insights from mitochondrial therapeutics. Biochemical Society Transactions 41:127-133 PMCID:PMC3582193

83. Zhang J (2013) Autophagy and mitophagy in cellular damage control. Redox Biology 1:19-23. PMCID:PMC3740586


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84. Dodson M, Darley-Usmar V, Zhang J (2013) Cellular Metabolic and Autophagic Pathways: Traffic Control by Redox Signaling. Free Radical Biology and Medicine 63:207-221 PMCID:PMC3729625

85. Giordano S, Darley-Usmar V, Zhang J (2013) Autophagy as an essential cellular antioxidant pathway in neurodegenerative disease. Redox Biology 2:82–90. PMCID:PMC3909266

86. Levonen AL, Hill BG, Kansanen E, Zhang J, Darley-Usmar VM (2014) Redox regulation of antioxidants, autophagy and the response to stress; implications for electrophile therapeutics. Free Radical Biology and Medicine 71:196–207. PMCID:PMC4042208

87. Redmann M, Dodson M, Boyer-Guittaut M, Darley-Usmar VM, Zhang J (2014) Mitophagy mechanisms and role in human diseases. International Journal of Biochemistry and Cell biology 53C:127-133. PMCID:PMC4111979

88. Allison D, Antoine L, Ballinger S, Bamman M, Biga P, Darley-Usmar V, Fisher G, Gohlke J, Halade G, Hartman J, Hunter G, Messina J, Nagy T, Plaisance E, Roth K, Sandel M, Schwartz T, Smith D, Sweatt JD, Tollefsbol T, Watts S, Yang Y, Zhang J, Austad S (2014) Aging and Energetics’ ‘Top 40’ Future Research Opportunities 2010-2013. F1000Research 12;3:219 PMCID:PMC4197746

89. Wani W, Boyer-Guittaut M, Dodson M, Chatham J, Darley-Usmar V, Zhang J (2015) Regulation of autophagy by protein post-translational modification. Laboratory Investigation 95:14-25. PMCID:PMC4454381

90. Zhang J (2015) Teaching the basics of autophagy and mitophagy to redox biologists—mechanisms and experimental approaches. Redox Biology 4:242-259 PMCID:PMC4803799

91. Dodson M, Redmann M, Rajasekaran, NS, Darley-Usmar V, Zhang J (2015) KEAP1-NRF2 signaling and autophagy in protection against oxidative and reductive proteotoxicity. Biochem Journal 469:347-355.

92. Redmann M, Darley-Usmar V, Zhang J (2016) The role of autophagy, mitophagy and lysosomal functions in modulating cellular bioenergetics and survival in the context of redox and proteotoxic damage: implications for age dependent neurodegenerative diseases. Aging and Disease 7:150-162 PMCID:PMC4809607

93. Hjelmeland A, Zhang J (2016) Metabolic, autophagic and mitophagic activities in cancer initiation and progression. Biomedical Journal 39:98-106

94. Wani W, Chatham J, Darley-Usmar V, McMahon L, Zhang J (2016) O-GlcNAcylation and neurodegeneration. BRB in press NIHMS 809957

95. Wende AR, Young M, Chatham J, Zhang J, Rajasekaran NS, Darley-Usmar VM (2016) Redox biology and the interface between bioenergetics, autophagy and circadian control of metabolism. Free Radical Biology and Medicine In press

96. Aggarwal S, Mannam P, Zhang J (2016) Autophagy and mitophagy in pulmonary diseases. AJP lung in press

BOOKS AND BOOK CHAPTERS: 97. Zhang J, Walsh R, Xu M (2000) Probing the role of the dopamine D1 receptor in psychostimulant

addiction. Annals of New York Academy of Sciences, SF Ali and Y Takahashi, eds. (New York: The New York Academy of Sciences) 914:13-21

98. Zhang J, Zhang D, Xu M (2002) Identification of target genes regulated by repeated cocaine exposure through the DA D1 receptor using cDNA microarrays. Annals of New York Academy of Sciences, SF Ali and Y Takahashi, eds. (New York: The New York Academy of Sciences). 965:1-9

99. Xu M, Zhang J (2003) DNA fragmentation in apoptosis and tissue homeostasis. Molecular Mechanisms of Programmed Cell Death, Y Shi, eds. (Kluwer Academic) pp 171-184

100. Zhang J, Xu M (2003). Generating gene knockout mice for studying mechanisms underlying drug addiction. Methods in Molecular Medicine J Wang, eds. (Humana Press) 79:351-363


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101. Gulbahar H. Beckett and Jianhua Zhang (2006) Moderation, Modesty, Creativity, and Criticalness: A Chinese-American Medical Professor Speaks. "Strangers" of the Academy Asian Women Scholars in Higher Education, G Li and GH Beckett, eds. (Stylus Publishing, LLC) pp 233-248

102. Jegga AG, Kong S, Zhang J, Moseley A, Gupta A, Williams SS, Genter MB, Aronow BJ (2006) Comparative genomics of tissue specific gene expression. Gene Expression and Regulation, A Current Scientific Frontiers Book, J Ma, eds. (Higher Education Press and Springer, USA) pp 393-408

103. Zhang J, Zong W-X (2006) Cell death and transcription. Gene Expression and Regulation, A Current Scientific Frontiers Book, J Ma, eds. (Higher Education Press and Springer, USA) pp 421-432

104. Zhang J, Xu M (2006) Opposite regulation of cocaine-induced intracellular signaling and gene expression by dopamine D1 and D3 receptors. Annals of New York Academy of Sciences, SF Ali and Y Takahashi, eds. (New York: The New York Academy of Sciences) 1074:1-12

105. Liang Q, Zhang J (2009) Apoptosis in neurodegenerative diseases. “Essential of Apoptosis”, 2nd edition, XM Yin and Z Dong, eds. pp 489-504

106. Zhang J, Darley-Usmar VM (2012) Mitochondrial dysfunction in neurodegenerative disease; protein aggregation, autophagy and oxidative stress. Mitochondrial Dysfunction in Neurodegenerative Disorders, AJ Reeve, KJ Krishnan, MR Duchen, DM Turnbull, eds. (Springer) pp95-112

107. Zelickson BR, Ballinger S, Dell’Italia L, Zhang J, Darley-Usmar VM (2013) Reactive Oxygen and Nitrogen Species; Interactions with Mitochondria and Pathophysiology. The Encyclopedia of Biological Chemistry, WJ Lennarz, MD Lane, (eds.) Vol. 4, pp. 167-171. Waltham, MA: Academic Press.

108. Hervouet E, Zhang J, Boyer-Guittaut (2015) ROS and epigenetics. Reactive oxygen species, pp519-533, Ahmad S (eds.) Taylor and Francis.

PUBLISHED ABSTRACTS: 1. Zhang J, Jones TA, Sambrook JF (1989) Studies on the retinoic acid-binding protein (CRABP) by site-

specific mutagenesis. ASCB Abs. 2. Liu Z-P, Gierasch LM, Zhang J, Sambrook JF (1990) Studies of folding and unfolding of cellular retinoic

acid binding protein and its binding mutant. AAAS Abs. 3. Zhang J, Liao S-M, Jeffrey DA, Koleske AJ, Thompson CM, Chao DM, Viljoen M, van Vuuren HJJ, Young RA

(1995) A kinase-cyclin pair in the RNA polymerase II holoenzyme. Gordon Research Conference (Biological Regulatory Mechanisms) Abs.

4. Zhang J, Wang X, Liu X, Scherer DC, Van Kaer L, Wang X, Xu M (1999) Functions of DNA fragmentation factor 45 in vivo. Abs. #284. UCLA symposium on Apoptosis and Programmed Cell Death.

5. Zheng W, Zhang J, Xu M, Lu L (1999) Genomic cloning and genetic manipulations of γ-aminobutyric acid type C (GABAC) receptor ρ1 subunit---the molecular construction of ρ1 knockout mice. Abs. #1138.B46. Association for Research in Vision and Ophthalmology.

6. Zhang J, Guo Y, Vorhees C, Xu . (1999) Behavioral responses to cocaine and amphetamine administration in mice lacking the dopamine D1 receptor. Abs. #4. Satellite Meeting of the International Society for Neurochemistry.

7. Walsh R, Zhang J, Guo Y, Vorhees C, Xu M. (1999) The dopamine D1 receptor is crucial in molecular and behavioral responses to chronic administration of cocaine. Abs. #489.7. Soc. for Neurosci. Abs. 25, 1218.

8. Slane J, Zhang J, Tsien J, Vorhees C, Xu M (1999) Probing the role of immediate early gene c-fos in spatial learning using a region-specific knockout mouse. Abs. #862.8. Soc. for Neurosci. Abs. 25, 2159.

9. Zhang J, Slane JM, Lee HS, Wang X, Vorhees C, Xu M (2000) DNA Fragmentation Factor 45 In Apoptosis and Neuronal Function. The Third International Cell Death Symposium. Abs. #175


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10. Slane J, Lee H, Vorhees CV, Zhang J, Xu M (2000) DNA fragmentation factor 45 (DFF45/ICAD) mutant mice exhibit enhanced spatial learning and memory compared to wild-type control mice. Abs. #565.15. Soc. for Neurosci. Abs. 26, 1513.

11. McQuade J-A, Zhang J, Xu M, Seeley RJ (2000) Body weight phenotype of mice with a targeted deletion of the dopamine D3 receptor. Abs. #370.17. Soc. for Neurosci. Abs. 26, 993.

12. Richtand NM, Welge JA, Hayes SA, Logue AD, Zhang J, Berger SP, Xu M (2001) Locomotor sensitization to amphetamine is inhibited in D3 dopamine receptor knockout mice. Soc. Biol. Psych. Abs.

13. Gabriel KI, Caine SB, Berkowitz JS, Zhang J, Xu M (2001) Training and evaluating operant behavior in dopamine D1 receptor knockout mice: implications for cocaine self-administration studies. College on Problems of Drug Dependence Abs.

14. Xu M, Guo Y, Walsh R, Zhang, D, Vorhees C, Zhang J (2001) Chronic cocaine-induced changes via dopamine D1 receptors. Gordon Research Conference (Catecholamine).

15. Xu M, Walsh R, Zhang D, Zhang J (2001) Chronic cocaine-induced molecular changes via dopamine D1 receptors. International Society for Neurochemistry/American Society for Neurochemistry Sponsored Satellite Meeting.

16. McQuade JS, Tamashiro K, Sakai R, Zhang J, Xu M (2001) Stress response in mice deficient in hippocampal c-fos. Soc. for Neurosci.

17. Ran R, Lu A, Tang Y, Reilly M, Clark J, Zhang J, Sharp F R (2001) Retinoic acid induced hsp70 as a potential endogenous neuroprotective molecular chaperone against serum withdrawal-mediated injury. Soc. for Neurosci.

18. Zhang J, Moseley A, Jegga AJ, Williams SS, Ley-Ebert C, Coolen L, Egnaczyk G, Genter MB, Lehman M, Lingrel J, Maggio J, Parysek L, Walsh R, Xu M, Aronow BJ (2002) Compositional repertoire, gene discovery, and whole mouse patterning of nervous system-expressed genes. Genome Tri-conference (Gene functional analysis).

19. Zhang J, Zhang D, McQuade JS, Jin W, Lou D, Chavkin C, Behbehani M, Tsien JZ, Xu M (2002) c-fos regulates neuronal excitability and survival. Gordon Research Conference (Molecular and cellular neurobiology).

20. Pritchard LM, Logue AD, Hayes S, Welge JA, Xu M, Zhang J, Berger SP, Newman AH, Richtand NM (2002) D3 dopamine receptor stimulation inhibits locomotion. Soc. for Neurosci.

21. Xu M, Zhang J (2002) DNA fragmentation in apoptosis and homeostasis. 2nd International Symposium on Apoptosis.

22. Zhang J (2002) Defective DNA degradation and systemic lupus erythematosus. Lupus Research Institute Scientific Conference.

23. Zhang J, Li L, Dong M, Pathre P, Fan Y, Dong J, Olivares-Villagom D, Lou D, Van Kaer L, Wells J, Wang X, Xu M (2003) In vivo functions of apoptotic endonucleases. UCLA symposium on Molecular Mechanisms of Apoptosis (B6).

24. Zhang J, Moseley A, Jegga AJ, Williams SS, Ley-Ebert C, Coolen L, Egnaczyk G, Genter MB, Lehman M, Lingrel J, Maggio J, Parysek L, Walsh R, Xu M, Aronow BJ (2003) Creation and mining of a mouse nervous system gene expression database. UCLA symposium on Functional Genomics: Global Analysis of Complex Biological Systems (C6).

25. Aronow BJ, Jegga A, Kong S, Sakthivel B, Williams S, Gupta A, Carman J, Pinski A, Meller J, Wagner M, Hutton J, Bates M, Reichling T, Groden J, Zhang J, Moseley A, Genter MB, Ebert C (2003) Creation and Mining of Large Scale Tissue-Specific and Developmental Gene Expression Databases. Cold Spring Harbor meeting. Systems Biology: Genomic Approaches to Transcriptional Regulation.

26. Yuferov V, Zhou Y, Ho A, Zhang J, Xu M, Kreek MJ (2003) Effects of acute "binge" cocaine on mu-opioid receptor and dynorphin mRNA levels in the brain of dopamine receptor D1 knockout mice. College on Problems of Drug Dependence Abs.

27. Caine SB, Gabriel KI, Berkowitz JS, Zhang J, Xu M (2003) Cocaine self-administration in dopamine D3 receptor knockout mice. College on Problems of Drug Dependence Abs.

28. Fan Y, Saxena V, Xu M, Singh R, Zhang J (2003) Defective DNA degradation and systemic lupus erythematosus. Lupus Research Institute Annual meeting Abs.

http://www.symposia.com/Meetings/ViewMeetings.cfm?MeetingID=635





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29. Boulares A, Zoltoski A, Yakovlev A, Tao R, Zhang J, Xu M, Sherif Z (2004) Experimental Biology Meeting. 30. Kleene NK, Zhang J, Pixley SK, Soleimani M, Kleene SJ (2004) Pendrin, a chloride transporter, is expressed

in olfactory receptor neurons. 26th Annual Meeting of the Association for Chemoreception Sciences. 31. Zhang J, Dong M, Li L, Fan Y, Pathrie P, Dong J, Olivares-Villagom D, Lou D, Wells J, Van Kaer L, Wang X, Xu

M (2004) Endonuclease G is required for early embryogenesis and normal apoptosis in mice. UCLA symposium on Apoptosis in Biochemistry and Structural Biology (J6).

32. Dong M, Wu Y, Toepfer NJ, Fan F, Xu M, Zhang J (2004) Role of Endonuclease G in neuronal excitotoxicity. Ohio Miami Valley Chapter of The Society for Neuroscience Annual meeting.

33. Nasif FJ, Zhang J, Zhang L, White FJ, Xu M, Hu XT (2004) Region-Specific Knockout of c-Fos in dopamine D1 receptor (D1R)-expressing cells alters evoked activity and D1R-mediated responses in mouse nucleus accumbens (NAc) neurons. Soc. for Neurosci.

34. Dong M, Li L, Fan Y, Pathre P, Dong J, Lou D, Wang X, Xu M, M Guan M, Zhang J (2004) Endonuclease G and the mitochondrion. Mitochondrial Medicine, Pittsburgh.

35. Brooks J; Fry, HR; Dong M; Fan Y; Zhang J (2004) Effects of DFF-45, BIM, and EndoG in neuronal excitotoxicity and cell apoptosis in mouse hippocampus. Annual Biomedical Research Conference for Minority Students (ABRCMS), November 10-13, 2004 in Dallas, Texas.

36. Fan, Y., Saxena V., Xu, M., Singh, R., & Zhang, J. (2004) Defective DNA degradation and systemic lupus erythematosus. Lupus Research Institute Annual meeting Abs.

37. J. Choi, Y. Zhou, A. Ho, J. Zhang, M. Xu, M.J. Kreek (2005) Increased sensitivity in D3 dopamine receptor-deficient mice to stress-responsive hypothalamic POMC gene expression and HPA activity by acute binge cocaine. College on Problems of Drug Dependence Abs.

38. Fan, Y. & Zhang, J. (2005) c-Fos confers neuroprotection in neuroblastoma cell lines through BDNF-AKT-mediated survival mechanism. Soc. for Neurosci.

39. Ness JN, Harvey CR, Meyn DF, Washington JD and Zhang J. (2006) Regulation of c-fos, p53 and AIF in neonatal hypoxia-ischemia. Child Neurology Society.

40. JM Ness, CR Harvey, J Zhang (2006) Regulation of c-Fos in neonatal hypoxia-ischemia. Soc. for Neurosci. 41. English M, Olander J, Xie ZL, Zhang J (2006) summer Spin: Novel Mouse Models for Studying Epilepsy and

Excitotoxicity. Annual Biomedical Research Conference for Minority Students (ABRCMS), November 8 - 11, 2006 in Anaheim, California, number C93.

42. Crabtree D, Xie ZL, and Zhang J (2008) Cathepsin D haploinsufficiency exacerbates the phenotype of mice exposed to 1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine. Society for Neuroscience Annual Meeting,

43. Zhang J (2008) Lysosomal enzyme cathepsin D protects against α-synuclein aggregation and toxicity. Cold Spring Harbor Neurodegeneration conference .

44. Qiao L, Hamamichi S, Caldwell KA, Caldwell GA, Wilson S, Yacoubian T, Xie ZI, Speake L, Parks R, Crabtree D, Crimmins S, Uchiyama Y, Zhou Y, Peng L, Lu Y, Standaert DG, Walls KC, Shacka JJ, Roth K, Zhang J (2008) A neuroprotective role of lysosomal enzyme cathepsin D against a-synuclein pathogenesis. Movement Disorders, 23, S8.

45. Zhang J (2009) Lysosomal enzyme cathepsin D protects against α-synuclein aggregation and toxicity, the 9th International Conference - AD/PD 2009 - Prague, Czech Republic, March 11-15, 2009.

46. Giordano S, Schneider L, Zelickson B, Benavides G, Ouyang X, Darley-Usmar V, Zhang J (2010) Differentiation of SH-SY5Y cells alters mitochondrial bioenergetics and provides protection against oxidative stress. SFRBM 2010 Orlando, USA.

47. Liang Q, Ouyang X, Zhang J (2010) Reduction of mutant Huntingtin toxicity and aggregation by lysosomal cathepsins D and B. SFRBM 2010 Orlando, USA.

48. Zhang J (2011) Reduction of mutant huntingtin aggregation and toxicity by lysosomal cathepsins d and b in primary neurons. The 10th International Conference on Alzheimer's & Parkinson's Diseases, Barcelona, Spain, March 9-13, 2011.

49. Dodson M, Giordano S, Zhang J (2011) Inhibition of glycolysis exacerbates 4-hydroxynonenal-induced mitochondrial dysfunction and apoptosis. South American SFRBM August 2011 Sao Paolo, Brazil.

http://www.keystonesymposia.org/Meetings/ViewMeetings.cfm?MeetingID=675


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50. Giordano S, Zelickson B, Darley-Usmar V, Zhang J (2011) Differential effects of dopaminergic neurotoxins on differentiated SH-SY5Y cells. SFRBM 2011 Atlanta USA.

51. Dodson M, Giordano S, Zhang J (2011) Inhibition of glycolysis exacerbates 4-hydroxynonenal-induced mitochondrial dysfunction and apoptosis. SFRBM 2011 Atlanta USA.

52. Ouyang X, Giordano S, Darley-Usmar V, Zhang J (2011) Effects of brain specific over-expression of human lysosomal cathepsin D on intracellular reactive oxygen species, mitochondrial, autophagic and lysosomal activities in mice. SFRBM 2011 Atlanta USA.

53. Liang Q, Zhang J (2011) Decrease of mutant huntingtin-induced excitotoxicity by cathepsin D in primary hippocampal neurons. SFRBM 2011 Atlanta USA.

54. Schneider L, Liang Q, Ouyang X, Luong D, Zhang J (2011) Role of lysosomal cathepsin D in maintaining mitochondrial integrity in a mouse knockout model. SFRBM 2011 Atlanta USA.

55. Crabtree D, Ouyang X, Zhang J (2012) Cathepsin D D295N mutation exerts a dominant negative effect on Eendogenous α-synuclein accumulation. Experimental Biology March 2012 San Diego, USA

56. Liang Q, Benavides G, Darley-Usmar V, Zhang J (2012) Neuronal hypoxia-reoxygenation and nNitric oxide; a protective role of autophagy. The 7th International Conference on the Biology, Chemistry and Therapeutic Application of Nitric Oxide. Edinburgh, July 2012

57. Zhang J (2012) Autophagic response to bioenergetic and oxidative stress. Oxidative stress and autophagy in health and disease” Society for Free Radical Research International (SFRRI), London UK, September 2012

58. Giordano S, Zhang J (2012) Neuronal bioenergetics and mitophagy in response to an environmental toxin. Graduate Student in Biomedical Sciences Retreat , September 2012, Giordano won Second Place Poster Presentation

59. Dodson M, Benavides G, Kramer P, Darley-Usmar V, Zhang J (2012) Autophagy plays a protective role against decreased glucose metabolism and oxidative stress in differentiated SH-SY5Y cells. Center for Aging mini-symposium, UAB. October 20. Dodson won 1st place poster competition

60. Benavides GA, Liang Q, Zhang J, Darley-Usmar VM (2012) A natural H2S donor found in garlic attenuates ischemia-reperfusion damage in neurons by protecting mitochondrial respiration. SFRBM 2012 San Diego USA

61. Liang Q, Zhang J (2012) Role of Sirt3 in autophagy. SFRBM 2012 San Diego USA. Liang won travel award from SFRBM.

62. Liang Q, Benavides GA, Darley-Usmar VM, Zhang J (2012) Apoptosis and cellular bioenergetics in response to nitric oxide and autophagy inhibition during hypoxia-reoxygenation. SFRBM 2012 San Diego USA.

63. Dodson M, Benavides GA, Philip A Kramer P, Darley-Usmar V, Zhang J (2012) Autophagy plays a protective role in the response to decreased glucose metabolism and oxidative stress in neurons. SFRBM 2012 San Diego USA. Dodson won young investigator award from SFRBM.

64. Giordano S, Zhang J (2012) Mitophagy plays an important role in preserving neuronal bioenergetics and cell survival in response to an environmental toxin. SFRBM 2012 San Diego USA. Giordano won travel award from SFRBM, and abstract selected for an oral presentation.

65. Le Grand JN, Bôle-Richard E, Bon K, Fraichard A, Zhang J, Jouvenot M, Risold PY, Boyer-Guittaut M, Delage-Mourroux R (2012) Study of the autophagic protein GABARAPL1. Second scientific meeting of the French Autophagy society (CFATG), September 2012 (La Grande Motte, France).

66. Liang Q, Benavides GA, Victor Darley-Usmar V, Zhang J (2013) Apoptosis and autophagy in response to nitric oxide during hypoxia-reoxygenation. Nitric Oxide Gordon Research Conference, Ventura, USA, February 2013

67. Dodson M, Liang Q, Benavides GA, Victor Darley-Usmar V, Zhang J (2013) Autophagy in neuronal bioenergetics and survival. Experimental Biology, Boston, April 2013

68. Rangarajan S, Dodson MB, Zhang J, Thannickal VJ (2013) Enhanced autophagy as a potential mechanism for the anti-fibrotic effects of BIBF-1120 in IPF. American Thoracic Society International Conference May 2013 Philadelphia USA


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69. Boyer-Guittaut M, Poillet L, Liang Q, Bôle-Richard E, Ouyang X, Benavides GA, Chakrama FZ, Fraichard A, Darley-Usmar VM, Despouy G, Jouvenot M, Delage-Mourroux R, Zhang J (2013) The role of GABARAPL1 (GEC1) in autophagic flux and mitochondrial quality control in MDA-MB-436 breast cancer cells. Third scientific meeting of the French Autophagy society (CFATG) (CFATG), September 2013 (Grasse, France).

70. Redmann M, Ouyang X, Benavides GA, Liang Q, Darley-Usmar V, Zhang J (2013) Novel contributions of the lysosomal pathway to autophagy, neuronal bioenergetics, oxidative stress and neurodegeneration; the role of Cathepsin D. SFRBM 2013 San Antonio USA

71. Dodson M, Benavides GA, Kramer P, Darley-Usmar V, Zhang J (2013) Inhibition of glucose metabolism exacerbates reactive species-induced bioenergetic stress and cell death in primary neurons through inhibition of autophagy. SFRBM 2013 San Antonio USA.

72. Giordano S, Darley-Usmar V, Zhang J (2013) α-synuclein decreases mitochondrial function in intact cells. SFRBM 2013 San Antonio USA.

73. Rangarajan S, Kurundkar A, Zhang J, Thannickal VJ (2014) Non-canonical autophagy and the anti-fibrotic effects of BIBF-1120 in IPF. American Thoracic Society International Conference May 2014 Philadelphia USA

74. Redmann R, Ravi S, Darley-Usmar V, Zhang J (2014) Pharmacological modulators of autophagy have diverse and distinct impact on neuronal bioenergetic function; implications for interpretation of autophagy research. SFRBM 2013 Seattle, USA. Received travel awards from Seahorse Biosciences.

75. Dodson M, Benavides GA, Darley-Usmar V, Zhang J (2014) Metabolic regulation of neuronal bioenergetics and the autophagic response to oxidative stress. SFRBM 2013 Seattle, USA. Received travel awards from Seahorse Biosciences.

76. Ahmad I, Ouyang X, Wani WY, Zhang J (2014) NRBF2 regulates autophagic flux and plays an important role in neuronal survival. SFRBM 2013 Seattle, USA. Received travel awards from Seahorse Biosciences.

77. Benavides GA, Jurkuvenaite A, Komarova S, Doran SF, Zhang J, Matalon S, Darley-Usmar VM (2014) Autophagy enhancement improves mitochondria bioenergetics following chlorine gas exposure. SFRBM 2014 Seattle, USA.

78. Rangarajan S, Kurundkar A, Kurundkar D, Bernard K, Sanders Y, Ding Q, Zhang J, Zmijewski J, Thannickal VJ (2015) Anti-fibrotic Effects of Nintedanib on Lung Fibroblasts. American Thoracic Society International Conference May 2015 USA

79. Dodson M, Benavides GA, Johnson M, Wani W, Darley-Usmar V, Zhang J (2015) Autophagy as an essential antioxidant pathway in neuronal oxidative and bioenergetic stress” International Workshop on “Biochemistry, Physiology and Pharmacology of Oxidative Stress" Rome, Italy July 2015

80. Wani WY, Benavides GA, Ahmad I, Shacka J, Chatham J, Paterson AJ, Darley-Usmar V, Zhang J (2015) Role of O-GlcNAcylation in Autophagy, Protein Homeostasis, and Neuronal Bioenergetics SFRBM, Boston, USA. Wani won travel award from SFRBM and his abstract was selected for and oral presentation.

81. Redmann M, Wani W, Chacko B, Darley-Usmar, Zhang J (2015) Autophagy as an essential antioxidant pathway in neuronal oxidative and bioenergetic stress. SFRBM, Boston, USA.

82. Wright J, Kramer P, Benavides G, Johnson MS, Zhang J, Darley- Usmar V, Chatham J (2016) The Role of O-GlcNAcylation in Regulating Mitochondrial Function in Cardiomyocytes. Univ. of Alabama at Birmingham FASEB J April 2016 30:1273.11

83. Wani WY, Benavides GA, Ahmad I, Shacka J, Chacko B, Chatham J, Paterson AJ, Darley-Usmar V, Zhang J (2016) Increased O-GlcNAcylation attenuates autophagic flux, induces mitochondrial dysfunction and leads to accumulation of alpha-synuclein in neurons. FASEB J April 2016 30:742.2

84. He L, Brewer R, Shanmugam G, Rajasekaran NS, Darley-Usmar V, Chatham JC, Zhang J, Young ME (2016) Influence of the Cardiomyocyte Circadian Clock on Autophagy in the Heart. FASEB J April 2016 30:1279.8


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85. McGinnis GR, Brewer R, Shanmugam G, Rajasekaran N, Abel ED, Wende AR, Darley-Usmar V, Chatham JC, Zhang J, Young ME (2016) Time-of-day and cardiomyocyte circadian clock dependent regulation of rhythms in myocardial autophagy. Society for Heart and Vascular Metabolism meeting in October

86. Wani WY, Chatham J, Zhang J (2016) Hyper-O-GlcNAcylation attenuates autophagic flux in an mTOR-dependent manner and leads to accumulation of α-Synuclein in neurons. SFRBM, San Francisco, USA. November

ORAL PRESENTATIONS: International: 1. “c-fos regulates neuronal excitability and survival”, Gordon Research Conference (Molecular and

Cellular Neurobiology), Hong Kong, 2002 2. “Introduction of UAB”,中国科学院新疆理化技术研究所 Xinjiang Technical Institute of Physics &

Chemistry, Chinese Academy of Sciences And University of Alabama at Birmingham Inaugural Joint Symposium, 2007

3. “Protein clearance and Parkinson’s Disease---pathogenesis and therapy”, 中国科学院新疆理化技术

研究所 Xinjiang Technical Institute of Physics & Chemistry, Chinese Academy of Sciences And University of Alabama at Birmingham Inaugural Joint Symposium, 2007

4. “Protein clearance and Parkinson’s Disease---pathogenesis and therapy”, Shihezi University and University of Alabama at Birmingham Inaugural Joint Symposium, 2007

5. “Protein clearance and Parkinson’s Disease---pathogenesis and therapy”, Southwest Jiaotong University, China, 2007

6. “Protein clearance and Parkinson’s Disease---pathogenesis and therapy”, International Conference of Neurons and Brain Disease. Toronto, Canada, 2007

7. “Lysosomal enzyme cathepsin D protects against neuronal α-synuclein aggregation and toxicity”, Seoul, Korea, 2008

8. “Neuroprotection against mutant huntingtin by the cathepsins”. Neurons and Diseases. Bristol, UK, 2010

9. “Oxidative stress and clearance in neurodegenerative diseases”. Free Radical Society meeting. Seoul, Korea, 2010

10. “Oxidative stress and protein clearance in neurodegenerative diseases”. 2011 International Conference on Molecular Neurodegeneration. Shanghai, China 2011

11. “Dopaminergic neuron response to metabolic and oxidative stress” the 17th International Biophysics Congress (17th IBC) (IUPAB), Satellite Meeting 1 The 4th International Symposium on Natural Antioxidants - Molecular Mechanisms and Health Effects, Section I, Beijing, 2011

12. “Neuronal Hypoxia-Reoxygenation and Nitric Oxide; A Protective role of Autophagy “The 7th International Conference on the Biology, Chemistry and Therapeutic Application of Nitric Oxide. Edinburgh, July 2012

13. “Autophagic response to bioenergetic and oxidative stress” Society for Free Radical Research International (SFRRI), London, September 2012

14. “Autophagy in neuronal response to oxidative stress and mitochondrial toxins” 4th military medical school, Xijing Hospital, PRC, May 2013

15. “Autophagy as a neuroprotective mechanism” NeuroTalk 2013, Xi’An, May 2013 16. “The potential of autophagy as an anti-oxidative stress pathway” 15th ISANH Anniversary

Congress, Paris July, 2013 17. “Metabolic regulation of autophagy and bioenergetics” Society for Free Radical Research

International (SFRRI), Japan, March 2014


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18. “The effects of hypoxia-reoxygenation on neuronal bioenergetic response to nitric oxide and perturbation of glycolysis” ISOTT oxygen meeting, London, July 2014

19. “New insights into modulation of autophagy in response to oxidative and nitrosative stress in primary neurons”. The 2nd International Chinese Symposium on Free Radical Research. November 2014, Hong Kong

20. “Redox and metabolic regulation of autophagy and bioenergetics” Neurocon January 2015, Haldia, India

21. “The expected and unexpected impact of Nrf2 knockout and endurance exercise on autophagy and mitochondria in aging mouse brain.” SFRRAustraliasia/Japan, December 2015, Christchurch, New Zealand,

National: 22. “Defective DNA degradation and systemic lupus erythematosus”, Lupus Research Institute Scientific

Conference, New York Academy of Sciences, 2002 23. “Defective DNA degradation and systemic lupus erythematosus”, Lupus Research Institute Scientific

Conference, Harvard Club, New York City, 2003 24. “Defective DNA degradation and systemic lupus erythematosus”, Lupus Research Institute Scientific

Conference, Yale Club, New York City, 2004 25. “Apoptosis---how to keep a sound body and a clear head”, The Michigan/Ohio SCBA (Society for

Chinese Bioscientists in America) annual conference "Frontiers in Biomedical Research", 2004 26. “c-Fos in neuroprotection”, Chinese Biologic Investigator Society (Ray Wu society) biannual

meeting, Boulder, Colorado, December 2005 27. “Protein clearance and Parkinson’s disease---GTCbio, San Francisco, 2007 28. “Protein clearance and Parkinson’s disease---CBI Neurodegeneration and Therapeutics, DC, 2008 29. “Validation of cathepsin D as a therapeutic target for Parkinson’s disease”, MJFF, New York, 2008 30. “Lysosomal enzyme cathepsin D protects against neuronal α-synuclein accumulation and toxicity”,

MJFF, NYC, 2009 31. “Lysosomal cathepsins in neuroprotection against mutant huntingtin”, CHDI therapy conference for

emerging topics in early clinical studies. Palm Spring, 2010 32. “A new paradigm for metabolic and oxidative stress in neurons; the interaction of autophagy and

bioenergetic dysfunction in cell survival.” Oxygen Radicals Gordon Research Conference, Ventura, USA, February 2012

33. “How to Examine the Effect of Oxidative Stress on Autophagic Processes” Society for Free Radical Biology and Medicine annual conference Pre-meeting workshop, San Diego, November, 2012

34. “Autophagy regulates neuronal bioenergetic health in response to ROS/RNS” Seahorse User meeting, March, 2015

35. “How to assess Autophagy and Mitophagy” APS First International Conference on Physiological Bioenergetics; From Bench to Bedside, September 9-12, 2015, Tampa Florida

Seminars at Research Institutes and Universities: 1. “A kinase-cyclin pair in the RNA polymerase II holoenzyme”, Department of Cell Biology,

Neurobiology and Anatomy, University of Cincinnati, 1995 2. “The role of DNA fragmentation factor 45 in apoptosis and neuronal function”, Department of Cell

Biology, Neurobiology and Anatomy, University of Cincinnati, 1998 3. “Functions of DNA fragmentation factor 45 in vivo”, Department of Pathology and Laboratory

Medicine, University of Cincinnati, 2000 4. “Molecular genetic studies of apoptosis”, Institute of Biosciences and Technology, The Center for

Environmental and Genetic Medicine, Houston, 2003 5. “The mediators and protectors of neuronal cell death”, Department of Environmental Medicine,

University of Rochester, New York, 2003


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6. “The common and contrasting roles of two endonucleases in tissue homeostasis”, Department of Molecular and Cellular Oncology, The University of Texas M. D. Anderson Cancer Center, 2004

7. “Apoptotic endonucleases”, Department of Radiation Biology, City of Hope National Medical Center and Beckman Research Institute, 2004

8. “Endonucleases and cancer”, Institute for Cancer Prevention, One Dana Road, Valhalla, NY, 2004 9. “Apoptosis---does DNA fragmentation play a role?”, University of Kentucky, School of Pharmacy,

2004 10. “Apoptosis---does DNA fragmentation play a role?”, University of Hawaii, Honolulu, 2005 11. “Lysosomal enzyme cathepsin D protects against neuronal α-synuclein aggregation and toxicity”,

UCLA Neurogenetics, 2008 12. “Lysosomal enzyme cathepsin D protects against neuronal α-synuclein aggregation and toxicity”, U

Penn, 2008 13. “Lysosomal enzyme cathepsin D protects against neuronal α-synuclein aggregation and toxicity”,

Department of Biological Sciences at the Pontifical Catholic University of Ecuador (PUCE), 2009 14. “Lysosomal enzyme cathepsin D protects against neuronal α-synuclein accumulation and toxicity”,

LSU, 2009 15. “Lysosomal enzyme cathepsin D protects against neuronal α-synuclein accumulation and toxicity”,

Rutgers, 2009 16. “Lysosomal function and bioenergetics in neurodegenerative diseases”, Pittsburgh Institute for

Neurological Diseases, 2010 17. “Cellular response to oxidative and metabolic stress, implication in Parkinson’s disease.” St Johns

University, New York, 2011 18. “Autophagy in cellular response to bioenergetic and oxidative stress” Pharmacology and

Neuroscience Dept University of North Texas Health Science Center, April 2013 19. “Autophagy in response to oxidative stress and mitochondrial dysfunction in neuronal” Department

of Pharmaceutical Sciences, College of Pharmacy, Nursing and Allied Sciences, North Dakota State University, April 2013

20. “Autophagy in neuronal survival” Institute of Biophysics, Beijing, PRC, May 2013 21. “Autophagy in neuronal survival” Institute of Nutrition, Shanghai, PRC, May 2013 22. “Autophagy and bioenergetic regulation by reactive species and metabolic activities in neurons”

Univ of Southern California School of Pharmacy, Oct 2013 23. “The potential of autophagy as an anti-oxidative stress pathway” Doshisha Univ. Japan, March 2014 24. “Lysosomal cathepsin D in neuronal protein homeostasis and toxicity”, Universite de Franche-

Comte, March 2015 25. “Regulation of autophagy impacts bioenergetics in neurons” Universite de Franche-Comte, March

2015

Course development (2011-present): I developed a graduate course 56177 GBS 754 Autophagy in Disease & Med, section VT. This was one of the first new-style “flipped classroom” courses in which the students lecture and run the classes and are engaged in selection of topics and discussions. The class evaluation is overall very positive. The students like the smaller class size (we have 4 students each year for the 4 years the course was given: 2011, 2012, 2013, 2015), the flexibility, the discussion and the chance to present views and overviews on selective topics related to their work. Also importantly, the former graduate students will keep an ongoing discussion with the course director and are invited to teach new students on selective topics once they have taken the course. 9 students: Lonnie Schneider, Sam Giordano, Matt Dodson, Emily Libby, Victor Du, Danielle Yancey, Jalessa Wright,


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Gwendolyn Gunn, and Matthew Weaver have given lectures to new students in the years after they themselves took the class. Course description: Autophagy is a highly regulated process. Understanding how autophagy is regulated in health and diseases will help translational research on developing effective therapies over a variety of diseases. This is an elective course designed for graduate students in their second year or above who are interested in the subject, from essentially any of the UAB graduate themes. The class will meet to discuss the most current reviews and primary research articles. The objectives are to provide an overview and basic understanding of the field, to analyze the most interesting recent and high impact discoveries on autophagy in disease and medicine, and to stimulate and facilitate thoughts and plans on topics relevant to everybody’s current research. The course will cover molecular and cellular mechanisms of autophagy, transcriptional and post-transcriptional regulation, signal transduction, recognition of specific protein and organelle targets, and autophagic involvement in diseases. It also provides a forum for students to become actively involved in discussions of concepts, hypothesis and approaches in autophagy research. Each student will have an opportunity to present a 30 minute review of a selected topic in autophagy, and a 30 minute recent paper discussion describing what is new in the particular topic. All class participants will ask questions and provide comments. Grading will be based on attendance, quiz scores, presentations and participations in discussions. The course is for three (3) credit hours, and will be given in the fall semester. It is provisionally scheduled to meet for two hours a week from Tuesday and Thursday morning 9:00 to 11:00 am at Shelby 1015, but this time may be changed depending on the schedules of the participants. Prior students will be invited to teach current class as well. Syllabus in 2015: Syllabus: Sept 15 Introduction to the course, outline and objective— Sept 17 Autophagy overview and method- Sept 22 Autophagy regulation by mTOR complexes-- Sept 24 Autophagy regulation by PI3K complexes- Sept 29 Autophagy regulation by Beclin-Bcl2 – October 1 DFCP, WIPI, Alfy and omegasome -- Oct 6 Mitophagy -- Oct 8 Autophagy regulation by oxidative stress and metabolism- Oct 13 Autophagy and OGlcNAc— Oct 15 Target recognition—p62— Oct 20 Autophagosome-lysosome fusion— Oct 22 Autophagy in nutrition and longevity-- Oct 27 Autophagy and cancer— Oct 29 Autophagy in inflammation-- Nov 3 Summary

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