Relevant Thesis-Based Degree Programs
Affiliations to Research Centres, Institutes & Clusters
Complete these steps before you reach out to a faculty member!
- Familiarize yourself with program requirements. You want to learn as much as possible from the information available to you before you reach out to a faculty member. Be sure to visit the graduate degree program listing and program-specific websites.
- Check whether the program requires you to seek commitment from a supervisor prior to submitting an application. For some programs this is an essential step while others match successful applicants with faculty members within the first year of study. This is either indicated in the program profile under "Admission Information & Requirements" - "Prepare Application" - "Supervision" or on the program website.
- Identify specific faculty members who are conducting research in your specific area of interest.
- Establish that your research interests align with the faculty member’s research interests.
- Read up on the faculty members in the program and the research being conducted in the department.
- Familiarize yourself with their work, read their recent publications and past theses/dissertations that they supervised. Be certain that their research is indeed what you are hoping to study.
- Compose an error-free and grammatically correct email addressed to your specifically targeted faculty member, and remember to use their correct titles.
- Do not send non-specific, mass emails to everyone in the department hoping for a match.
- Address the faculty members by name. Your contact should be genuine rather than generic.
- Include a brief outline of your academic background, why you are interested in working with the faculty member, and what experience you could bring to the department. The supervision enquiry form guides you with targeted questions. Ensure to craft compelling answers to these questions.
- Highlight your achievements and why you are a top student. Faculty members receive dozens of requests from prospective students and you may have less than 30 seconds to pique someone’s interest.
- Demonstrate that you are familiar with their research:
- Convey the specific ways you are a good fit for the program.
- Convey the specific ways the program/lab/faculty member is a good fit for the research you are interested in/already conducting.
- Be enthusiastic, but don’t overdo it.
G+PS regularly provides virtual sessions that focus on admission requirements and procedures and tips how to improve your application.
ADVICE AND INSIGHTS FROM UBC FACULTY ON REACHING OUT TO SUPERVISORS
These videos contain some general advice from faculty across UBC on finding and reaching out to a potential thesis supervisor.
Graduate Student Supervision
Master's Student Supervision
Theses completed in 2010 or later are listed below. Please note that there is a 6-12 month delay to add the latest theses.
Introduction: Proteus mirabilis is a gram-negative, urease-positive bacterium that infects the urinary tract and is linked with catheter-associated urinary tract infections (CAUTIs). CAUTIs are painful, and both physically and financially burdensome infections that are associated with the presence of a urinary catheter that drains urine from the bladder. The insertion of a catheter allows for entry and scaffolding of bacteria, such as P. mirabilis to adhere to and propagate infection in the urinary tract.Methods: In vitro experiments assessed the ability of a novel anti-fouling catheter coating to prevent P. mirabilis adhesion. Coated and uncoated catheters were exposed to bacteria and adherence was quantified via colony-forming units (CFU) counts. In vivo studies utilized a mouse model implanted with coated or uncoated catheters and inoculated with P. mirabilis. Furthermore, adherence of wildtype and mutant P. mirabilis strains to catheters were conducted by co-incubating samples in artificial urine and bacteria; adherence was quantified via CFU counts. Cellular adhesion and invasion assays were utilized to observe wildtype, mutant, and complemented P. mirabilis associations with uroepithelial cells. Briefly, cells were exposed to different strains of P. mirabilis and co-cultured; for adhesion assays, cells were washed, lysed, and plated for CFU counts. For invasion assays: cells were treated with antibiotics to eliminate extracellular bacteria, then washed, lysed, and plated for CFU counts. In vivo experiments assessed bladders, urine, and catheters in mice infected with different P. mirabilis strains.Results: In vitro and in vivo results indicated increased adherence and invasion abilities in wildtype P. mirabilis, compared to mutant strains. Specifically, wildtype was the only strain able to invade uroepithelial cells at 24 hours post-infection. Furthermore, our novel anti-adhering coating significantly reduced bacterial attachment to catheters both in vitro and in vivo.Conclusion: We have shown our novel coating to be highly effective in preventing bacterial adherence both in vitro and in vivo. Moreover, we have observed wildtype P. mirabilis to be capable of invading and adhering to uroepithelial cells at an increased capacity, compared to mutant strains. Through gaining greater insight into the pathogenic mechanisms utilized, we can target and diminish P. mirabilis CAUTIs.
Introduction: Catheter-associated urinary tract infections (CAUTIs) account for a vast number of hospital-acquired infections and are a significant burden to healthcare systems. In the USA and Canada, more than 33 million catheters are inserted each year. Urinary catheters provide ideal surfaces for bacterial attachment and biofilm formation. Several attempts to change catheter biomaterial design to prevent biofilm formation have met with poor success. We have developed a two-component coating that is highly biocompatible and effective in preventing bacterial biofilm formation. Here, we present data showing the efficacy of the coating against a difficult to treat uropathogen, Proteus mirabilis and show decreased biofilm formation and encrustation in vitro and in a murine model of CAUTI .Materials and methods: A novel binary coating composed of polydopamine (PDA) and poly (N,N-dimethylacrylamide)(PDMA) was developed and applied via a simple dip coating mechanism. The antifouling activity was determined in vitro following incubation of coated and uncoated catheter material to P. mirabilis at 4, 8, 12, and 24 hours post-exposure. Adherent bacteria were quantified via colony forming units (CFU) counts. The in vivo efficacy of our coating was determined using a murine model of CAUTI. Briefly, 4 mm (24G) catheters (coated and uncoated) were introduced into the mouse bladder percutaneously with ultrasound guidance followed by inoculation of 105 P. mirabilis. Adherent bacteria and struvite formation were quantified following 3-days post-infection. Results: The in vitro study showed that our novel coating decreased P. mirabilis adhesion to polyurethane (PU) surfaces by 99% reduction compared to uncoated surfaces. Furthermore, in vivo studies showed an 87.9% reduction in P. mirabilis adhesion on coated compared to uncoated catheters. In both in vitro and in vivo models, the accumulation of struvite and calcium oxalate encrustations on the coated surfaces were significantly reduced. Conclusions: Using relevant in vitro and in vivo models, we have shown our novel binary coating to be highly efficacious at decreasing P. mirabilis attachment and subsequent biofilm formation and inorganic crystal accumulation on urinary materials. Further testing of this novel coating in validating the results in a porcine infection model will be important
The ureter transfers urine from the kidney through sequential contractions, called peristalsis. When obstructed, accumulated urine builds up high pressure which leads to dysfunction in the urological tracts. Our laboratory showed that, in mice, ureteral peristalsis is not recovered for 10 days after removing a 24-hour obstruction. Delayed ureteral recovery affects the kidney negatively as the ureter cannot transport urine properly. Studies have shown that erythropoietin (EPO), a hematopoietic hormone, protects different organs against various injuries mainly by suppressing apoptosis, via EPO receptor (EPOR) and β-common receptor (βCR) heterodimers. Our laboratory showed that prophylactic EPO treatment of obstructed mice accelerated recovery of the ureter and the kidney following the reversal of ureteral obstruction. We hypothesized that EPO treatment promotes functional recovery of the ureter and the kidney via anti-apoptotic mechanisms. The objective of this study was to investigate EPO-induced mechanisms in accelerating recovery from ureteral obstruction in 2 mice strains.Unilateral ureteral obstruction was created for 24, 48, 72 hours using non-traumatic micro-clip (n=10). EPO was administered daily for 4 days either prophylactically or concomitantly with ureteral obstruction. TUNEL assay and immunohistochemistry with phospho-NF-κB p65 and phospho-STAT5 antibodies on ureteral tissues and qRT-PCR with primers specific to EPO, EPOR, βCR, STAT5A, BCL-2, BCL-XL, BAX and NF-κB on ureteral and renal tissues were performed. Our study showed that ureteral obstruction decreased ureteral peristalsis and increased apoptosis in 72-hour obstructed ureters. Ureteral obstruction decreased anti-apoptotic EPOR-βCR signaling and increased phospho-NF-κB p65. EPO treatment on ureteral obstruction improved ureteral function and suppressed apoptosis in obstructed ureters, by suppressing NF-κB and decreasing apoptotic BAX. EPO treatment did not induce erythropoiesis in our study, which supports that EPO’s protective effect is a separate mechanism from increased blood circulation by hematopoiesis. Also, EPO treatment without obstruction did not change EPOR-βCR signaling.In conclusion, ureteral obstruction increased apoptosis in ureteral tissues and decreased anti-apoptotic EPOR signaling with increased phospho-NF-κB p65, along with obstruction induced ureteral dysfunction. EPO treatment improved ureteral peristalsis and suppressed ureteral apoptosis, via suppression of NF-κB activation and decreased expression of BAX that compensated for the decreased expression of BCL-2 and BCL-XL by obstruction.
Background: Metabolism-associated kidney stones such as oxalate, uric acid and cystine stonesare caused by over-accumulation or under-excretion of their associated metabolites in thehuman body. Although the kidney is the primary excretion site for these metabolites, theintestine is an important alternative site of excretion. Intestinal bacterial community memberscontribute to the breakdown, transport and assimilation of stone-associated metabolites includingoxalate, uric acid, cystine and butyrate. To better diagnose and prevent the formation ofmetabolic kidney stones, the intestinal microbiome should be examined at the level of bacterial communities and interconnected metabolic pathways.Experimental approach: This study examines the differences in bacterial communities andmetabolic pathways between the intestinal microbiomes of recurrent kidney stone patients andnon-stone-forming controls. Fecal samples were collected from 17 recurrent kidney stonepatients and 17 controls with no stone-forming history. Bacterial DNA was then extracted fromthe fecal samples. To examine bacterial taxonomy, specific variable regions of the 16S rRNAgene were sequenced from the DNA and aligned to a bacterial gene database to identify andquantify the bacteria present. To examine metabolic pathways, metagenomic DNA libraries weresequenced, assembled and aligned to a metabolic gene database to identify and quantify themetabolic genes present.Results: Bacterial populations in patient microbiomes appear to be less diverse than those incontrol microbiomes. At the bacterial species level, we found that patient microbiomes had lowerabundance of Oxalobacter formigenes, a well-known oxalate-degrading bacterium. At themetabolic pathway level, patient microbiomes were found to contain a lower abundance of genesimportant for the production of butyrate, a fatty acid that promotes overall intestinal integrity andhas been found to upregulate the expression of oxalate transporters in the gut.Conclusions: This study verifies previous findings that a majority of recurrent kidney stoneformers lack O. formigenes in their intestinal microbiomes. Additionally, analysis intometabolic genes in the gut uncovered an additional deficiency in the butyrate metabolismpathway that could influence overall gut homeostasis. Reduced bacterial diversity in recurrentstone formers also suggest patient microbiomes may be dysbiotic, a state common to manyintestinal diseases.
Introduction: Urinary catheters provide ideal surfaces for bacterial biofilm formation, being a major factor for hospital-acquired infections. With increased antibiotic resistance, there is a push for non-antibiotic-based measures to prevent catheter-associated urinary tract infections (CAUTI). I pursue the use of polymer-linked, broad-spectrum, host-defense-based antimicrobial peptides (AMPs) as novel catheter coatings. Here, I present the efficacy of tethered AMPs against common uropathogens both in vitro and in vivo.Materials and Methods: Peptides E6, Tet20, Tet26, and Kai13 were linked to surfaces using polymer brushes PDMA, PMPC, and PMPDSAH. All peptides were chosen based on their antimicrobial activity and biocompatibility as suggested by previously published papers. Antimicrobial activity of each coating was determined in vitro via colony counts 6 hours post-exposure to uropathogens. The in vivo efficacy of AMP coatings was also tested using a clinically relevant CAUTI mouse model; bladders of mice were catheterized percutaneously under ultrasound guidance, and 50 μL of 5E+5 CFU/mL P. aeruginosa was instilled. Indwelling polyurethane catheters and urine were collected after 7 days for examination of bacterial adherence and growth.Results: The most effective peptide-brush combination was E6-PDMA, decreasing bacterial adhesion and planktonic growth by up to 94.1% and 63.8%, respectively based on in vitro data. In vivo results look even more promising; the coating decreased bacterial adhesion by up to 99.9958% and planktonic growth by 99.8660% in comparison to untreated mice. Conclusions: Based on our in vitro and in vivo data, E6-PDMA coatings may effectively prevent CAUTI. Further testing of these novel coatings against more common uropathogens as well as tests to confirm the safety of such coatings will be important.
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