Paul Gideon Thomes

Dr. Paul Gideon Thomes


Research Focus & Metrics

Academic Career Length

9Years (2018-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

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16 November 2018 in Biomolecules
Verified
Journal Article
Open access
PDF file
Carol CaseyCarol Casey
Carol Casey
PTPaul Gideon Thomes
Paul Gideon Thomes
SMSonia Manca
Sonia Manca
APArmen Petrosyan
Armen Petrosyan
In hepatocytes and alcohol-metabolizing cultured cells, Golgi undergoes ethanol (EtOH)-induced disorganization. Perinuclear and organized Golgi is important in liver homeostasis, but how the Golgi remains intact is unknown. Work from our laboratories showed that EtOH-altered cellular function could be reversed after alcohol removal; we wanted to determine whether this recovery would apply to Golgi. We used alcohol-metabolizing HepG2 (VA-13) cells (cultured with or without EtOH for 72 h) and rat hepatocytes (control and EtOH-fed (Lieber–DeCarli diet)). For recovery, EtOH was removed and replenished with control medium (48 h for VA-13 cells) or control diet (10 days for rats). Results: EtOH-induced Golgi disassembly was associated with de-dimerization of the largest Golgi matrix protein giantin, along with impaired transport of selected hepatic proteins. After recovery from EtOH, Golgi regained their compact structure, and alterations in giantin and protein transport were restored. In VA-13 cells, when we knocked down giantin, Rab6a GTPase or non-muscle myosin IIB, minimal changes were observed in control conditions, but post-EtOH recovery was impaired. Conclusions: These data provide a link between Golgi organization and plasma membrane protein expression and identify several proteins whose expression is important to maintain Golgi structure during the recovery phase after EtOH administration.

11 October 2021 in Biomolecules
Verified
Journal Article
Open access
PDF file
Moses New-AaronMoses New-Aaron
Moses New-Aaron
PTPaul Gideon Thomes
Paul Gideon Thomes
MGMurali Ganesan
Murali Ganesan
Raghubendra S DagurRaghubendra S Dagur
Raghubendra S Dagur
TDTerrence Donohue
Terrence Donohue
Natalia A OsnaNatalia A Osna
Natalia A Osna
Although the causes of hepatotoxicity among alcohol-abusing HIV patients are multifactorial, alcohol remains the least explored “second hit” for HIV-related hepatotoxicity. Here, we investigated whether metabolically derived acetaldehyde impairs lysosomes to enhance HIV-induced hepatotoxicity. We exposed Cytochrome P450 2E1 (CYP2E1)-expressing Huh 7.5 (also known as RLW) cells to an acetaldehyde-generating system (AGS) for 24 h. We then infected (or not) the cells with HIV-1ADA then exposed them again to AGS for another 48 h. Lysosome damage was assessed by galectin 3/LAMP1 co-localization and cathepsin leakage. Expression of lysosome biogenesis–transcription factor, TFEB, was measured by its protein levels and by in situ immunofluorescence. Exposure of cells to both AGS + HIV caused the greatest amount of lysosome leakage and its impaired lysosomal biogenesis, leading to intrinsic apoptosis. Furthermore, the movement of TFEB from cytosol to the nucleus via microtubules was impaired by AGS exposure. The latter impairment appeared to occur by acetylation of α-tubulin. Moreover, ZKSCAN3, a repressor of lysosome gene activation by TFEB, was amplified by AGS. Both these changes contributed to AGS-elicited disruption of lysosome biogenesis. Our findings indicate that metabolically generated acetaldehyde damages lysosomes and likely prevents their repair and restoration, thereby exacerbating HIV-induced hepatotoxicity.

1 January 2021 in Journal of Lipid Research
Verified
Journal Article
Open access
CCCarol A. Casey
Carol A. Casey
TDTerrence M. Donohue
Terrence M. Donohue
JKJacy L. Kubik
Jacy L. Kubik
VKVikas Kumar
Vikas Kumar
MNMichael J. Naldrett
Michael J. Naldrett
PTPaul Gideon Thomes
Paul Gideon Thomes
Lipid droplets (LDs) are composed of neutral lipids enclosed in a phospholipid monolayer, which harbors membrane-associated proteins that regulate LD functions. Despite the crucial role of LDs in lipid metabolism, remodeling of LD protein composition in disease contexts, such as steatosis, remains poorly understood. We hypothesized that chronic ethanol consumption, subsequent abstinence from ethanol, or fasting differentially affects the LD membrane proteome content and that these changes influence how LDs interact with other intracellular organelles. Here, male Wistar rats were pair-fed liquid control or ethanol diets for 6 weeks, and then, randomly chosen animals from both groups were either refed a control diet for 7 days or fasted for 48 h before euthanizing. From all groups, LD membrane proteins from purified liver LDs were analyzed immunochemically and by MS proteomics. Liver LD numbers and sizes were greater in ethanol-fed rats than in pair-fed control, 7-day refed, or fasted rats. Compared with control rats, ethanol feeding markedly altered the LD membrane proteome, enriching LD structural perilipins and proteins involved in lipid biosynthesis, while lowering LD lipase levels. Ethanol feeding also lowered LD-associated mitochondrial and lysosomal proteins. In 7-day refed (i.e., ethanol-abstained) or fasted-ethanol-fed rats, we detected distinct remodeling of the LD proteome, as judged by lower levels of lipid biosynthetic proteins, and enhanced LD interaction with mitochondria and lysosomes. Our study reveals evidence of significant remodeling of the LD membrane proteome that regulates ethanol-induced steatosis, its resolution after withdrawal and abstinence, and changes in LD interactions with other intracellular organelles.

6 February 2022 in Alcohol, Clinical and Experimental Research
Verified
Journal Article
Closed access
PDF file
Natalia A OsnaNatalia A Osna
Natalia A Osna
MNMoses New‐Aaron
Moses New‐Aaron
RDRaghubendra S. Dagur
Raghubendra S. Dagur
PTPaul Gideon Thomes
Paul Gideon Thomes
LSLiz Simon
Liz Simon
MGMurali Ganesan
Murali Ganesan

6 October 2025 in Redox Biology
Verified
Journal Article
Open access
ABAhmed Bakheet
Ahmed Bakheet
MAMurugadas Anbazhagan
Murugadas Anbazhagan
SBShirish Barve
Shirish Barve
SDSrinivasan Dasarathy
Srinivasan Dasarathy
JDJohn J. Dickinson
John J. Dickinson
PTPaul Gideon Thomes
Paul Gideon Thomes
Alcohol-induced organ damage is a major global health concern and a leading cause of disability and mortality. In addition to the liver, chronic alcohol consumption adversely affects multiple organ systems, including the cardiovascular and neuromuscular systems, the gastrointestinal tract, adipose tissue, kidneys, pancreas, and the brain. Organ damage begins with necrosis (cell death) followed by tissue injury, which triggers immune responses aimed at tissue repair. However, with continued heavy drinking, these reparative responses transition into inflammatory responses which exacerbate tissue injury and accelerate disease progression. Macroautophagy, commonly referred to as autophagy, is a vital and evolutionarily-conserved digestive process in eukaryotic cells. While autophagy is well known for degrading obsolete proteins, and damaged organelles to prevent their accumulation, autophagy also plays critical roles in regulating innate and adaptive immunity and in modulating inflammation. This review describes evidence that chronic alcohol exposure and chronic alcohol consumption impair autophagy, contributing to dysfunction across multiple organ systems. We and others have explored the mechanisms by which alcohol disrupts autophagy to cause organ damage. This review aims to establish a cohesive understanding of these intracellular processes, which is essential for guiding future research toward targeting autophagy as a therapeutic strategy for alcohol-induced tissue injury. In summary, this comprehensive review integrates evidence from preclinical studies to present a unified perspective on how alcohol induces autophagy dysregulation and contributes to organ damage. It also highlights evidence-based recommendations from leading researchers in the field, offering valuable insights to advance autophagy-targeted therapies for mitigating the effects of alcohol-induced organ injury.

7 September 2021 in Hepatology Communications
Verified
Journal Article
Open access
PDF file
Carol CaseyCarol Casey
Carol Casey
AMAmanda Macke
Amanda Macke
RGRyan R. Gough
Ryan R. Gough
APArtem N. Pachikov
Artem N. Pachikov
MMMary E. Morris
Mary E. Morris
APArmen Petrosyan
Armen Petrosyan
Previous work from our laboratories has identified multiple defects in endocytosis, protein trafficking, and secretion, along with altered Golgi function after alcohol administration. Manifestation of alcohol‐associated liver disease (ALD) is associated with an aberrant function of several hepatic proteins, including asialoglycoprotein receptor (ASGP‐R), their atypical distribution at the plasma membrane (PM), and secretion of their abnormally glycosylated forms into the bloodstream, but trafficking mechanism is unknown. Here we report that a small GTPase, Rab3D, known to be involved in exocytosis, secretion, and vesicle trafficking, shows ethanol (EtOH)–impaired function, which plays an important role in Golgi disorganization. We used multiple approaches and cellular/animal models of ALD, along with Rab3D knockout (KO) mice and human tissue from patients with ALD. We found that Rab3D resides primarily in trans‐ and cis‐faces of Golgi; however, EtOH treatment results in Rab3D redistribution from trans‐Golgi to cis‐medial‐Golgi. Cells lacking Rab3D demonstrate enlargement of Golgi, especially its distal compartments. We identified that Rab3D is required for coat protein I (COPI) vesiculation in Golgi, and conversely, COPI is critical for intra‐Golgi distribution of Rab3D. Rab3D/COPI association was altered not only in the liver of patients with ALD but also in the donors consuming alcohol without steatosis. In Rab3D KO mice, hepatocytes experience endoplasmic reticulum (ER) stress, and EtOH administration activates apoptosis. Notably, in these cells, ASGP‐R, despite incomplete glycosylation, can still reach cell surface through ER‐PM junctions. This mimics the effects seen with EtOH‐induced liver injury. Conclusion : We revealed that down‐regulation of Rab3D contributes significantly to EtOH‐induced Golgi disorganization, and abnormally glycosylated ASGP‐R is excreted through ER‐PM connections, bypassing canonical (ER→Golgi→PM) anterograde transportation. This suggests that ER‐PM sites may be a therapeutic target for ALD.