Professor Stephanie Hughes
Contact Details
- Phone
- +64 3 479 3761
- stephanie.hughes@otago.ac.nz
University Links
- Position
- Professor
- Department
- Department of Biochemistry
- Qualifications
- BSc(Hons) PhD
- Research summary
- Neural Development and Disease
Research
Neurodegenerative and Lysosomal disease laboratory (NLD)
We are interested in the molecular and cellular processes in neurodegenerative disease, in particular how lysosome dysfunction influences disease processes. A better understanding of these processes helps us to develop relevant model systems in which we aim to find new therapeutic targets and test treatments.
The Hughes laboratory group
BATTEN DISEASE
Developing models of childhood Batten disease
We work on a childhood brain disease called Batten disease. In Batten disease, the recycling machinery in neurons goes haywire, which leads to death of the neurons. We aim to understand what leads to the malfunctioning of the recycling system and how to rectify the faults, leading to treatment options that can rescue dying neurons. We use reprogrammed skin cells, which get differentiated into human neurons. Using these cells we take advantage of gene therapy techniques to manipulate gene expression and develop our models.
Induced pluripotent stem cells are used to model Batten disease
Indranil Basak, Postdoctoral fellow
Janet Boyu Xu, Postdoctoral fellow
Oluwatobi Eboda, PhD student
Jennifer Palmer, Honours student
Expression of Batten CLN5 in sheep brain cells
Funded from Cure Kids New Zealand and the Neurological Foundation of New Zealand
Cellular waste disposal in brain diseases
The lysosome is essential for removing cellular waste and its dysfunction is a common feature of neurodegenerative diseases. When people think of the brain cells they think of neurons, but there are also the glial cells, commonly referred to as support cells, that play a critical role in neuronal health and activity. Through the use of animal models and cell lines our research aims to determine how glial lysosome function impacts neuronal health. In addition, we are screening drugs that work to enhance lysosome function in Batten disease and test new gene therapy strategies.
Lucia Schweitzer, Research fellow
Hollie Wicky, Assistant research fellow
Jasmine Lock, PhD student
Induced pluripotent stem cell derived neurons
Funded by the Health Research Council of New Zealand and the Charlotte and Gwyneth Gray Foundation Cure Batten, USA
ALZHEIMERS DISEASE
We are interested in a protein called sAPPα which has memory enhancing, neurogenic and neuroprotective properties. Our research aims to increase our knowledge of its mechanisms of action, by identifying other genes and proteins that are involved in these processes. We hypotheise that sAPPα has therapeutic potential for Alzheimers disease.
Katie Peppercorn, PhD student (with Professor Warren Tate)
Gene therapy
We are establishing a new non-invasive treatment of Alzheimers disease (AD). Using peripheral gene therapy, we are focusing on treatments which cross the brain barrier more efficiently. Our aim is to reduce synaptic dysfunction and rescue spatial memory in peripherally gene therapy treated AD mouse models.
Sophie Mathiesen, PhD student (with Professor Cliff Abraham)
Yuanyuan (Emily) He, PhD student (with Professor Cliff Abraham)
Much of our work relies on gene therapy vectors such as lentivirus and adeno-associated virus, which we package in the Otago Viral Vector Facility with support from Brain Research New Zealand.
Kirstin McDonald, Assistant research fellow
Funded by the Health Research Council of New Zealand and Brain Research New Zealand
Human neurons express the amyloid precursor protein (APP; red)
Comparing AAV serotypes (green and red) in the mouse heart
Comparing AAV serotypes (green and red) in the mouse spinal cord
AAV gene therapy (green) in the mouse cerebral cortex
Publications
Basak, I., Harfoot, R., Palmer, J. E., Kumar, A., Quiñones‑Mateu, M. E., Schweitzer, L., & Hughes, S. M. (2023). Neuroproteomic analysis after SARS-CoV-2 infection reveals overrepresented neurodegeneration pathways and disrupted metabolic pathways. Biomolecules, 13(11), 1597. doi: 10.3390/biom13111597
Peppercorn, K., Kleffmann, T., Hughes, S. M., & Tate, W. P. (2023). Secreted amyloid precursor protein alpha (sAPPα) regulates the cellular proteome and secretome of mouse primary astrocytes. International Journal of Molecular Sciences, 24, 7165. doi: 10.3390/ijms24087165
Peppercorn, K., Kleffmann, T., Jones, O., Hughes, S., & Tate, W. (2022). Secreted amyloid precursor protein alpha, a neuroprotective protein in the brain has widespread effects on the transcriptome and proteome of human inducible pluripotent stem cell-derived glutamatergic neurons related to memory mechanisms. Frontiers in Neuroscience, 16, 858524. doi: 10.3389/fnins.2022.858524
Kip, E., Bentall, L., Underwood, C. F., Hughes, S. M., & Parr-Brownlie, L. C. (2022). Patterned stimulation of the Chrimson opsin in glutamatergic motor thalamus neurons improves forelimb akinesia in parkinsonian rats. Neuroscience, 507, 64-78. doi: 10.1016/j.neuroscience.2022.10.026
Dearborn, J. T., Nelvagal, H. R., Rensing, N. R., Takahashi, K., Hughes, S. M., Wishart, T. M., … Sands, M. S. (2022). Effects of chronic cannabidiol in a mouse model of naturally occurring neuroinflammation, neurodegeneration, and spontaneous seizures. Scientific Reports, 12, 11286. doi: 10.1038/s41598-022-15134-5
Empson, R. M., Tantirigama, M. L. S., Oswald, M. J., Hughes, S. M., & Knöpfel, T. (2015). Combined immunochemistry and live imaging of fluorescent protein expressing neurons in mouse brain. In A. Merighi & L. Lossi (Eds.), Immunocytochemistry and related techniques. (pp. 357-373). New York: Springer. doi: 10.1007/978-1-4939-2313-7_19
Chapter in Book - Research
Basak, I., Harfoot, R., Palmer, J. E., Kumar, A., Quiñones‑Mateu, M. E., Schweitzer, L., & Hughes, S. M. (2023). Neuroproteomic analysis after SARS-CoV-2 infection reveals overrepresented neurodegeneration pathways and disrupted metabolic pathways. Biomolecules, 13(11), 1597. doi: 10.3390/biom13111597
Journal - Research Article
Peppercorn, K., Kleffmann, T., Hughes, S. M., & Tate, W. P. (2023). Secreted amyloid precursor protein alpha (sAPPα) regulates the cellular proteome and secretome of mouse primary astrocytes. International Journal of Molecular Sciences, 24, 7165. doi: 10.3390/ijms24087165
Journal - Research Article
Dearborn, J. T., Nelvagal, H. R., Rensing, N. R., Takahashi, K., Hughes, S. M., Wishart, T. M., … Sands, M. S. (2022). Effects of chronic cannabidiol in a mouse model of naturally occurring neuroinflammation, neurodegeneration, and spontaneous seizures. Scientific Reports, 12, 11286. doi: 10.1038/s41598-022-15134-5
Journal - Research Article
Kip, E., Bentall, L., Underwood, C. F., Hughes, S. M., & Parr-Brownlie, L. C. (2022). Patterned stimulation of the Chrimson opsin in glutamatergic motor thalamus neurons improves forelimb akinesia in parkinsonian rats. Neuroscience, 507, 64-78. doi: 10.1016/j.neuroscience.2022.10.026
Journal - Research Article
Ohline, S. M., Chan, C., Schoderboeck, L., Wicky, H. E., Tate, W. P., Hughes, S. M., & Abraham, W. C. (2022). Effect of soluble amyloid precursor protein-alpha on adult hippocampal neurogenesis in a mouse model of Alzheimer's disease. Molecular Brain, 15, 5. doi: 10.1186/s13041-021-00889-1
Journal - Research Article
Peppercorn, K., Kleffmann, T., Jones, O., Hughes, S., & Tate, W. (2022). Secreted amyloid precursor protein alpha, a neuroprotective protein in the brain has widespread effects on the transcriptome and proteome of human inducible pluripotent stem cell-derived glutamatergic neurons related to memory mechanisms. Frontiers in Neuroscience, 16, 858524. doi: 10.3389/fnins.2022.858524
Journal - Research Article
Smyth, L. C. D., Murray, H. C., Hill, M., van Leeuwen, E., Highet, B., Magon, N. J., … Mathiesen, S. N., Mockett, B., … Clarkson, A. N., … Abraham, W. C., Hughes, S. M., … Kettle, A. J., … Hampton, M. B. (2022). Neutrophil-vascular interactions drive myeloperoxidase accumulation in the brain in Alzheimer's disease. Acta Neuropathologicca Communications, 10, 38. doi: 10.1186/s40478-022-01347-2
Journal - Research Article
Barnett, S. C., Parr-Brownlie, L. C., Perry, B. A. L., Young, C. K., Wicky, H. E., Hughes, S. M., McNaughton, N., & Dalrymple-Alford, J. C. (2021). Anterior thalamic nuclei neurons sustain memory. Current Research in Neurobiology, 2, 100022. doi: 10.1016/j.crneur.2021.100022
Journal - Research Article
Basak, I., Hansen, R. A., Ward, M. E., & Hughes, S. M. (2021). Deficiency of the lysosomal protein CLN5 alters lysosomal function and movement. Biomolecules, 11, 1412. doi: 10.3390/biom11101412
Journal - Research Article
Klionsky, D. J., Abdel-Aziz, A. K., Abdelfatah, S., Abdellatif, M., Abdoli, A., Abel, S., … Hughes, S. M., … Katare, R. G., … Tong, C.-K. (2021). Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition). Autophagy, 17(1), 1-382. doi: 10.1080/15548627.2020.1797280
Journal - Research Article
Ryan, M., Tan, V. T. Y., Thompson, N., Guévremont, D., Mockett, B. G., Tate, W. P., Abraham, W. C., Hughes, S. M., & Williams, J. (2021). Lentivirus-mediated expression of human secreted amyloid precursor protein-alpha promotes long-term induction of neuroprotective genes and pathways in a mouse model of Alzheimer’s disease. Journal of Alzheimer's Disease, 79, 1075-1090. doi: 10.3233/JAD-200757
Journal - Research Article
Seo, S., Sizemore, R. J., Reader, K. L., Smither, R. A., Wicky, H. E., Hughes, S. M., Bilkey, D. K., Parr-Brownlie, L. C., & Oorschot, D. E. (2021). A schizophrenia risk factor induces marked anatomical deficits at GABAergic-dopaminergic synapses in the rat ventral tegmental area: Essential evidence for new targeted therapies. Journal of Comparative Neurology, 529, 3946-3973. doi: 10.1002/cne.25225
Journal - Research Article
Best, H. L., Clare, A. J., McDonald, K. O., Wicky, H. E., & Hughes, S. M. (2020). An altered secretome is an early marker of the pathogenesis of CLN6 Batten disease. Journal of Neurochemistry, 157, 764-780. doi: 10.1111/jnc.15285
Journal - Research Article
Huber, R. J., Hughes, S. M., Liu, W., Morgan, A., Tuxworth, R. I., & Russell, C. (2020). The contribution of multicellular model organisms to neuronal ceroid lipofuscinosis research. Biochimica et Biophysica Acta: Molecular Basis of Disease, 1866, 165614. doi: 10.1016/j.bbadis.2019.165614
Journal - Research Article
Mathiesen, S. N., Lock, J. L., Schoderboeck, L., Abraham, W. C., & Hughes, S. M. (2020). CNS transduction benefits of AAV-PHP.eB over AAV9 are dependent on administration route and mouse strain. Molecular Therapy: Methods & Clinical Development, 19, 447-458. doi: 10.1016/j.omtm.2020.10.011
Journal - Research Article
Cain, J. T., Likhite, S., White, K. A., Timm, D. J., Davis, S. S., Johnson, T. B., … Hughes, S. M., … Weimer, J. M. (2019). Gene therapy corrects brain and behavioral pathologies in CLN6-Batten disease. Molecular Therapy, 27(10), 1836-1847. doi: 10.1016/j.ymthe.2019.06.015
Journal - Research Article
Morrissey, J. A., Bigus, E., Necarsulmer, J. C., Srinivasan, V., Peppercorn, K., O'Leary, D. J., Mockett, B. G., Tate, W. P., Hughes, S. M., … Abraham, W. C. (2019). The tripeptide RER mimics secreted amyloid precursor protein-alpha in upregulating LTP. Frontiers in Cellular Neuroscience, 13, 459. doi: 10.3389/fncel.2019.00459
Journal - Research Article
Morrissey, J. A., Mockett, B. G., Singh, A., Kweon, D., Ohline, S. M., Tate, W. P., Hughes, S. M., & Abraham, W. C. (2019). A C-terminal peptide from secreted amyloid precursor protein-α enhances long-term potentiation in rats and a transgenic mouse model of Alzheimer's disease. Neuropharmacology, 157, 107670. doi: 10.1016/j.neuropharm.2019.107670
Journal - Research Article
Schoderboeck, L., Wicky, H. E., Abraham, W. C., & Hughes, S. M. (2019). Genetic targeting and chemogenetic inhibition of newborn neurons. Human Gene Therapy Methods, 29(6), 259-268. doi: 10.1089/hgtb.2018.182
Journal - Research Article
Clare, A. J., Day, R. C., Empson, R. M., & Hughes, S. M. (2018). Transcriptome profiling of layer 5 intratelencephalic projection neurons from the mature mouse motor cortex. Frontiers in Molecular Neuroscience, 11, 410. doi: 10.3389/fnmol.2018.00410
Journal - Research Article
Mitchell, N. L., Russell, K. N., Wellby, M. P., Wicky, H. E., Schoderboeck, L., Barrell, G. K., Melzer, T. R., … Hughes, S. M., & Palmer, D. N. (2018). Longitudinal in vivo monitoring of CNS demonstrates the efficacy of gene therapy in a sheep model of CLN5 Batten disease. Molecular Therapy, 26(10), 2366-2378. doi: 10.1016/j.ymthe.2018.07.015
Journal - Research Article
Ohline, S. M., Wake, K. L., Hawkridge, M.-V., Dinnunhan, M. F., Hegemann, R. U., Wilson, A., Schoderboeck, L., Logan, B. J., … Hughes, S. M., & Abraham, W. C. (2018). Adult-born dentate granule cell excitability depends on the interaction of neuron age, ontogenetic age and experience. Brain Structure & Function, 223(7), 3213-3228. doi: 10.1007/s00429-018-1685-2
Journal - Research Article
Tan, V. T. Y., Mockett, B. G., Ohline, S. M., Parfitt, K. D., Wicky, H. E., Peppercorn, K., Schoderboeck, L., Yahaya, M. F. b., Tate, W. P., Hughes, S. M., & Abraham, W. C. (2018). Lentivirus-mediated expression of human secreted amyloid precursor protein-alpha prevents development of memory and plasticity deficits in a mouse model of Alzheimer's disease. Molecular Brain, 11, 7. doi: 10.1186/s13041-018-0348-9
Journal - Research Article
Best, H. L., Neverman, N. J., Wicky, H. E., Mitchell, N. L., Leitch, B., & Hughes, S. M. (2017). Characterisation of early changes in ovine CLN5 and CLN6 Batten disease neural cultures for the rapid screening of therapeutics. Neurobiology of Disease, 100, 62-74. doi: 10.1016/j.nbd.2017.01.001
Journal - Research Article
Clare, A. J., Wicky, H. E., Empson, R. M., & Hughes, S. M. (2017). RNA-sequencing analysis reveals a regulatory role for transcription factor Fezf2 in the mature motor cortex. Frontiers in Molecular Neuroscience, 10, 283. doi: 10.3389/fnmol.2017.00283
Journal - Research Article
Sizemore, R. J., Seeger-Armbruster, S., Hughes, S. M., & Parr-Brownlie, L. C. (2016). Viral vector-based tools advance knowledge of basal ganglia anatomy and physiology. Journal of Neurophysiology, 115, 2124-2146. doi: 10.1152/jn.01131.2015
Journal - Research Article
Tantirigama, M. L. S., Oswald, M. J., Clare, A. J., Wicky, H. E., Day, R. C., Hughes, S. M., & Empson, R. M. (2016). Fezf2 expression in layer 5 projection neurons of mature mouse motor cortex. Journal of Comparative Neurology, 524(4), 829-845. doi: 10.1002/cne.23875
Journal - Research Article
Neverman, N. J., Best, H. L., Hofmann, S. L., & Hughes, S. (2015). Experimental therapies in the neuronal ceroid lipofuscinoses. Biochimica et Biophysica Acta: Molecular Basis of Disease, 1852(10, Part B), 2292-2300. doi: 10.1016/j.bbadis.2015.04.026
Journal - Research Article
Palmer, D. N., Neverman, N. J., Chen, J. Z., Chang, C.-T., Houweling, P. J., Barry, L. A., … Hughes, S. M., & Mitchell, N. L. (2015). Recent studies of ovine neuronal ceroid lipofuscinoses from BARN, the Batten Animal Research Network. Biochimica et Biophysica Acta: Molecular Basis of Disease, 1852(10, Part B), 2279-2286. doi: 10.1016/j.bbadis.2015.06.013
Journal - Research Article
Parr-Brownlie, L. C., Bosch-Bouju, C., Schoderboeck, L., Sizemore, R. J., Abraham, W. C., & Hughes, S. M. (2015). Lentiviral vectors as tools to understand central nervous system biology in mammalian model organisms. Frontiers in Molecular Neuroscience, 8, 14. doi: 10.3389/fnmol.2015.00014
Journal - Research Article
Schoderboeck, L., Riad, S., Bokor, A. M., Wicky, H. E., Strauss, M., Bostina, M., Oswald, M. J., Empson, R. M., & Hughes, S. M. (2015). Chimeric rabies SADB19-VSVg-pseudotyped lentiviral vectors mediate long-range retrograde transduction from the mouse spinal cord. Gene Therapy, 22, 357-364. doi: 10.1038/gt.2015.3
Journal - Research Article
Seeger-Armbruster, S., Bosch-Bouju, C., Little, S. T. C., Smither, R. A., Hughes, S. M., Hyland, B. I., & Parr-Brownlie, L. C. (2015). Patterned, but not tonic, optogenetic stimulation in motor thalamus improves reaching in acute drug-induced Parkinsonian rats. Journal of Neuroscience, 35(3), 1211-1216. doi: 10.1523/jneurosci.3277-14.2015
Journal - Research Article
Hughes, S. M., Hope, K. M., Xu, J. B., Mitchell, N. L., & Palmer, D. N. (2014). Inhibition of storage pathology in prenatal CLN5-deficient sheep neural cultures by lentiviral gene therapy. Neurobiology of Disease, 62, 543-550. doi: 10.1016/j.nbd.2013.11.011
Journal - Research Article
Tantirigama, M. L. S., Oswald, M. J., Duynstee, C., Hughes, S. M., & Empson, R. M. (2014). Expression of the developmental transcription factor Fezf2 identifies a distinct subpopulation of layer 5 intratelencephalic-projection neurons in mature mouse motor cortex. Journal of Neuroscience, 34(12), 4303-4308. doi: 10.1523/jneurosci.3111-13.2014
Journal - Research Article
Oswald, M. J., Tantirigama, M. L. S., Sonntag, I., Hughes, S. M., & Empson, R. M. (2013). Diversity of layer 5 projection neurons in the mouse motor cortex. Frontiers in Cellular Neuroscience, 7, 174. doi: 10.3389/fncel.2013.00174
Journal - Research Article
Jarvis, R. M., Hughes, S. M., & Ledgerwood, E. C. (2012). Peroxiredoxin 1 functions as a signal peroxidase to receive, transduce, and transmit peroxide signals in mammalian cells. Free Radical Biology & Medicine, 53(7), 1522-1530. doi: 10.1016/j.freeradbiomed.2012.08.001
Journal - Research Article
Dottori, M., Tay, C., & Hughes, S. M. (2011). Neural development in human embryonic stem cells—Applications of lentiviral vectors. Journal of Cellular Biochemistry, 112(8), 1955-1962. doi: 10.1002/jcb.23116
Journal - Research Article
Linterman, K. S., Palmer, D. N., Kay, G. W., Barry, L. A., Mitchell, N. L., McFarlane, R. G., Black, M. A., … Hughes, S. M. (2011). Lentiviral-mediated gene transfer to the sheep brain: Implications for gene therapy in Batten disease. Human Gene Therapy, 22(8), 1011-1020. doi: 10.1089/hum.2011.026
Journal - Research Article
Chen, K., Henry, R. A., Hughes, S. M., & Connor, B. (2007). Creating a neurogenic environment: The role of BDNF and FGF2. Molecular & Cellular Neuroscience, 36(1), 108-120. doi: 10.1016/j.mcn.2007.06.004
Journal - Research Article
Chen, K., Hughes, S. M., & Connor, B. (2007). Neural progenitor cells derived from the adult rat subventricular zone: Characterization and transplantation. Cell Transplantation, 16(8), 799-810.
Journal - Research Article
Gibbons, H. M., Hughes, S. M., Van Roon-Mom, W., Greenwood, J. M., Narayan, P. J., Teoh, H. H., … Dragunow, M. (2007). Cellular composition of human glial cultures from adult biopsy brain tissue. Journal of Neuroscience Methods, 166(1), 89-98. doi: 10.1016/j.jneumeth.2007.07.005
Journal - Research Article
Gordon, R. J., Tattersfield, A. S., Vazey, E. M., Kells, A. P., McGregor, A. L., Hughes, S. M., & Connor, B. (2007). Temporal profile of subventricular zone progenitor cell migration following quinolinic acid–induced striatal cell loss. Neuroscience, 146(4), 1704-1718. doi: 10.1016/j.neuroscience.2007.03.011
Journal - Research Article
Henry, R. A., Hughes, S. M., & Connor, B. (2007). AAV-mediated delivery of BDNF augments neurogenesis in the normal and quinolinic acid-lesioned adult rat brain. European Journal of Neuroscience, 25(12), 3513-3525. doi: 10.1111/j.1460-9568.2007.05625.x
Journal - Research Article
Kells, A. P., Henry, R. A., Hughes, S. M., & Connor, B. (2007). Verification of functional AAV-mediated neurotrophic and anti-apoptotic factor expression. Journal of Neuroscience Methods, 161(2), 291-300. doi: 10.1016/j.jneumeth.2006.11.006
Journal - Research Article
Vazey, E. M., Chen, K., Hughes, S. M., & Connor, B. (2006). Transplanted adult neural progenitor cells survive, differentiate and reduce motor function impairment in a rodent model of Huntington's disease. Experimental Neurology, 199(2), 384-396. doi: 10.1016/j.expneurol.2006.01.034
Journal - Research Article
Hughes, S. M., Moroni-Rawson, P., Jolly, R. D., & Jordan, T. W. (2001). Sub-mitochondrial distribution and delayed proteolysis of subunit c of the H+-transporting ATP synthase in ovine ceroid-lipofuscinosis. Electrophoresis, 22, 1785-1794.
Journal - Research Article
Basak, I., Wicky, H. E., McDonald, K. O., Xu, J. B., Palmer, J. E., Best, H. L., … Schoderboeck, L., & Hughes, S. M. (2021). A lysosomal enigma CLN5 and its significance in understanding neuronal ceroid lipofuscinosis. Cellular & Molecular Life Sciences, 78, 4735-4763. doi: 10.1007/s00018-021-03813-x
Journal - Research Other