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Gamallat Y, Bismar TA. Editorial: The Application of Proteogenomics to Urine Analysis for the Identification of Novel Biomarkers of Prostate Cancer: An Exploratory Study. Cancers (Basel) 2023; 15:4143. [PMID: 37627171 PMCID: PMC10452380 DOI: 10.3390/cancers15164143] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2023] [Accepted: 08/14/2023] [Indexed: 08/27/2023] Open
Abstract
In this editorial context, we aim to leverage the potential of proteogenomics, which integrates genomic and proteomic data, to discover novel biomarkers that can aid in the diagnosis and management of prostate cancer. We highlight the importance of proteogenomics for understanding the functional consequences of somatic mutations in cancer and demonstrating how proteogenomic analysis can provide insights into the effects of genetic alterations on the proteomic landscape and identify potential therapeutic targets. This article also emphasizes the potential of urine analysis for the detection of prostate cancer. Overall, our editorial paper provides general insights on the application of proteogenomics to urine analysis for the identification of novel biomarkers of prostate cancer.
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Affiliation(s)
- Yaser Gamallat
- Department of Pathology and Laboratory Medicine, Arnie Charbonneau Cancer Institute, Cumming School of Medicine, University of Calgary, Calgary, AB T2N 4N1, Canada;
- Department of Oncology, Biochemistry and Molecular Biology, Arnie Charbonneau Cancer Institute, Cumming School of Medicine, University of Calgary, Calgary, AB T2N 4N1, Canada
| | - Tarek A. Bismar
- Department of Pathology and Laboratory Medicine, Arnie Charbonneau Cancer Institute, Cumming School of Medicine, University of Calgary, Calgary, AB T2N 4N1, Canada;
- Department of Oncology, Biochemistry and Molecular Biology, Arnie Charbonneau Cancer Institute, Cumming School of Medicine, University of Calgary, Calgary, AB T2N 4N1, Canada
- Departments of Pathology & Laboratory Medicine, Alberta Precision Laboratories, Rockyview General Hospital, Calgary, AB T2V 1P9, Canada
- Prostate Cancer Center, Rockyview General Hospital, Calgary, AB T2V 1P9, Canada
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Luo X, Xing W, Delcheva I, Abdullah Alrashaidi F, Heydari A, Palms D, Truong VK, Vasilev K, Jia Z, Zhang W, Su P, Vimalanathan K, Igder A, Weiss GA, Tang Y, MacGregor M, Raston CL. Printable Hydrogel Arrays for Portable and High-Throughput Shear-Mediated Assays. ACS APPLIED MATERIALS & INTERFACES 2023. [PMID: 37339239 DOI: 10.1021/acsami.3c02353] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/22/2023]
Abstract
Hydrogels have been widely used to entrap biomolecules for various biocatalytic reactions. However, solute diffusion in these matrices to initiate such reactions can be a very slow process. Conventional mixing remains a challenge as it can cause irreversible distortion or fragmentation of the hydrogel itself. To overcome the diffusion-limit, a shear-stress-mediated platform named the portable vortex-fluidic device (P-VFD) is developed. P-VFD is a portable platform which consists of two main components, (i) a plasma oxazoline-coated polyvinyl chloride (POx-PVC) film with polyacrylamide and alginate (PAAm/Alg-Ca2+) tough hydrogel covalently bound to its surface and (ii) a reactor tube (L × D: 90 mm × 20 mm) where the aforementioned POx-PVC film could be readily inserted for reactions. Through a spotting machine, the PAAm/Alg-Ca2+ hydrogel can be readily printed on a POx-PVC film in an array pattern and up to 25.4 J/m2 adhesion energy can be achieved. The hydrogel arrays on the film not only offer a strong matrix for entrapping biomolecules such as streptavidin-horseradish peroxidase but are also shear stress-tolerant in the reactor tube, enabling a >6-fold increase in its reaction rate after adding tetramethylbenzidine, relative to incubation. Through using the tough hydrogel and its stably bonded substrate, this portable platform effectively overcomes the diffusion-limit and achieves fast assay detection without causing appreciable hydrogel array deformation or dislocation on the substrate film.
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Affiliation(s)
- Xuan Luo
- Flinders Institute for Nanoscale Science and Technology, College of Science and Engineering, Flinders University, Adelaide, South Australia 5042, Australia
| | - Wenjin Xing
- Flinders Institute for Nanoscale Science and Technology, College of Science and Engineering, Flinders University, Adelaide, South Australia 5042, Australia
| | - Iliana Delcheva
- Flinders Institute for Nanoscale Science and Technology, College of Science and Engineering, Flinders University, Adelaide, South Australia 5042, Australia
| | - Fayed Abdullah Alrashaidi
- Flinders Institute for Nanoscale Science and Technology, College of Science and Engineering, Flinders University, Adelaide, South Australia 5042, Australia
- Chemistry Department, College of Science, Jouf University, P.O. Box 2014, Sakaka 72388, Saudi Arabia
| | - Amir Heydari
- Flinders Institute for Nanoscale Science and Technology, College of Science and Engineering, Flinders University, Adelaide, South Australia 5042, Australia
- Chemical Engineering Department, Faculty of Engineering, University of Mohaghegh Ardabili, Ardabil 56199-11367, Iran
| | - Dennis Palms
- College of Medicine and Public Health, Flinders University, Adelaide, South Australia 5042, Australia
| | - Vi Khanh Truong
- College of Medicine and Public Health, Flinders University, Adelaide, South Australia 5042, Australia
| | - Krasimir Vasilev
- College of Medicine and Public Health, Flinders University, Adelaide, South Australia 5042, Australia
| | - Zhongfan Jia
- Flinders Institute for Nanoscale Science and Technology, College of Science and Engineering, Flinders University, Adelaide, South Australia 5042, Australia
| | - Wei Zhang
- Centre for Marine Bioproducts Development, Flinders University, Adelaide, South Australia 5042, Australia
| | - Peng Su
- Centre for Marine Bioproducts Development, Flinders University, Adelaide, South Australia 5042, Australia
| | - Kasturi Vimalanathan
- Flinders Institute for Nanoscale Science and Technology, College of Science and Engineering, Flinders University, Adelaide, South Australia 5042, Australia
| | - Aghil Igder
- Flinders Institute for Nanoscale Science and Technology, College of Science and Engineering, Flinders University, Adelaide, South Australia 5042, Australia
| | - Gregory A Weiss
- Departments of Chemistry, Pharmaceutical Sciences, and Molecular Biology & Biochemistry, University of California Irvine, Irvine, California 92697-2025, United States
| | - Youhong Tang
- Flinders Institute for Nanoscale Science and Technology, College of Science and Engineering, Flinders University, Adelaide, South Australia 5042, Australia
| | - Melanie MacGregor
- Flinders Institute for Nanoscale Science and Technology, College of Science and Engineering, Flinders University, Adelaide, South Australia 5042, Australia
| | - Colin L Raston
- Flinders Institute for Nanoscale Science and Technology, College of Science and Engineering, Flinders University, Adelaide, South Australia 5042, Australia
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Kopka B, Kost B, Basko M. Poly(2-isopropenyl-2-oxazoline) as a reactive polymer for materials development. Polym Chem 2022. [DOI: 10.1039/d2py00660j] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Poly(2-isopropenyl-2-oxazoline) has attracted growing interest as a reactive polymer that can be used as a starting material for the construction of more complex structures.
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Affiliation(s)
- Bartosz Kopka
- Centre of Molecular and Macromolecular Studies, Polish Academy of Sciences, Sienkiewicza 112, 90-363 Lodz, Poland
| | - Bartłomiej Kost
- Centre of Molecular and Macromolecular Studies, Polish Academy of Sciences, Sienkiewicza 112, 90-363 Lodz, Poland
| | - Malgorzata Basko
- Centre of Molecular and Macromolecular Studies, Polish Academy of Sciences, Sienkiewicza 112, 90-363 Lodz, Poland
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Selective Microfluidic Capture and Detection of Prostate Cancer Cells from Urine without Digital Rectal Examination. Cancers (Basel) 2021; 13:cancers13215544. [PMID: 34771706 PMCID: PMC8583121 DOI: 10.3390/cancers13215544] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2021] [Revised: 10/31/2021] [Accepted: 11/03/2021] [Indexed: 12/26/2022] Open
Abstract
Simple Summary Prostate cancer is the second most common cancer and the fifth leading cause of cancer death in men worldwide. The current diagnosis methods for prostate cancer are invasive and costly. In particular, digital rectal examination (DRE) or prostate massage adds considerable discomfort to patients, reduces compliance to cancer screening schedules, and raises the cost of the diagnostic procedure. New technologies are urgently needed for the effective and yet noninvasive detection of these conditions. This manuscript describes streamlined biotechnology for the noninvasive detection of prostate cancer from malignant cells shed in urine. For the first time, a whole-cell immunocapture approach combined with photodynamic diagnostic principles is used in a device to detect whole cancer cells from unprocessed patient urine samples collected without prior DRE. Abstract Urine-based biomarkers have shown suitable diagnostic potential for prostate cancer (PCa) detection. Yet, until now, prostatic massage remains required prior to urine sampling. Here, we test a potential diagnostic approach using voided urine collected without prior digital rectal examination (DRE). In this study, we evaluated the diagnostic performance of a microfluidic-based platform that combines the principle of photodynamic diagnostic with immunocapture for the detection of PCa cells. The functionality and sensitivity of this platform were validated using both cultured cells and PCa patient urine samples. Quantitative reverse-transcriptase polymerase chain reaction (qRT-PCR) demonstrated this platform had a detection limit of fewer than 10 cells per 60 µL and successfully validated the presence of a PCa biomarker in the urine of cancer patients without prior DRE. This biosensing platform exhibits a sensitivity of 72.4% and a specificity of 71.4%, in suitable agreement with qRT-PCR data. The results of this study constitute a stepping stone in the future development of noninvasive prostate cancer diagnostic technologies that do not require DRE.
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Ostrikov K, Kashani MN, Vasilev K, MacGregor MN. Fluid Flow Dependency in Immunoselective Cell Capture via Liquid Biopsy. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2021; 37:12388-12396. [PMID: 34596407 DOI: 10.1021/acs.langmuir.1c01998] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
Liquid biopsy targets rare cells that overexpress disease-specific membrane markers and capture these cells via immunoaffinity. The diagnosis efficiency of liquid biopsy can be impaired by the presence of healthy adherent cells also expressing the same biomarkers. Here, we investigated the effect of settling times and rinsing flow rates on the efficiency of EpCAM-based immunocapture using both simulation and experiments with three different cell types. Cell-surface adhesion forces and shear rates were calculated to define the range of rinsing flow rates to test experimentally. Healthy adherent cells did not adhere to blocked immunofunctionalized surfaces within the timeframe of the experiment; however, healthy EpCAM positive cells did bind to the surface to some extent. The greatest difference in capture efficiency was obtained using a high rinsing flow rate of 25 mL/min following 40 min static incubation, indicating that optimizing rinsing flow rates could be a viable option to capture, more specifically, cancer cells overexpressing EpCAM.
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Affiliation(s)
- Kola Ostrikov
- UniSA STEM, University of South Australia, Mawson Lakes 5095, Australia
| | - Moein Navvab Kashani
- UniSA STEM, University of South Australia, Mawson Lakes 5095, Australia
- South Australian Node of the Australian National Fabrication Facility, Mawson Lakes 5095, Australia
| | - Krasimir Vasilev
- UniSA STEM, University of South Australia, Mawson Lakes 5095, Australia
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Gheorghiu AA, Muguet I, Chakiris J, Chan KM, Priest C, Macgregor M. Plasma Deposited Polyoxazoline Films Integration Into Spiral Microfluidics for the Targeted Capture of Size Selected Cells. Front Chem 2021; 9:690781. [PMID: 34095091 PMCID: PMC8172585 DOI: 10.3389/fchem.2021.690781] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2021] [Accepted: 05/10/2021] [Indexed: 11/23/2022] Open
Abstract
Biomolecules readily and irreversibly bind to plasma deposited Polyoxazoline thin films in physiological conditions. The unique reactivity of these thin films toward antibodies is driving the development of immunosensing platforms for applications in cancer diagnostics. However, in order for these coatings to be used as advanced immunosensors, they need to be incorporated into microfluidic devices that are sealed via plasma bonding. In this work, the thickness, chemistry and reactivity of the polyoxazoline films were assessed following plasma activation. Films deposited from methyl and isopropenyl oxazoline precursors were integrated into spiral microfluidic devices and biofunctionalized with prostate cancer specific antibodies. Using microbeads as model particles, the design of the spiral microfluidic was optimised to enable the size-based isolation of cancer cells. The device was tested with a mixed cell suspension of healthy and malignant prostate cells. The results showed that, following size-specific separation in the spiral, selective capture was achieved on the immunofunctionalised PPOx surface. This proof of concept study demonstrates that plasma deposited polyoxazoline can be used for immunosensing in plasma bonded microfluidic devices.
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Affiliation(s)
| | - Ines Muguet
- École Nationale Supérieure de Chimie, de Biologie et de Physique de Bordeaux, Bordeaux INP, Pessac, France
| | - James Chakiris
- Future Industries Institute, University of South Australia, Adelaide, SA, Australia
| | - Kit Man Chan
- Future Industries Institute, University of South Australia, Adelaide, SA, Australia
| | - Craig Priest
- Future Industries Institute, University of South Australia, Adelaide, SA, Australia
| | - Melanie Macgregor
- Future Industries Institute, University of South Australia, Adelaide, SA, Australia
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Chan KM, Gleadle J, Li J, Michl TD, Vasilev K, MacGregor M. Improving hexaminolevulinate enabled cancer cell detection in liquid biopsy immunosensors. Sci Rep 2021; 11:7283. [PMID: 33790357 PMCID: PMC8012578 DOI: 10.1038/s41598-021-86649-6] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2020] [Accepted: 03/16/2021] [Indexed: 12/17/2022] Open
Abstract
Hexaminolevulinate (HAL) induced Protoporphyrin IX (PpIX) fluorescence is commonly used to differentiate cancer cells from normal cells in vivo, as for instance in blue light cystoscopy for bladder cancer diagnosis. A detailed approach is here provided to use this diagnostic principle ex vivo in an immunosensor device, towards enabling non-invasive cancer diagnostic from body fluids, such as urine. Several factors susceptible to affect the applicability of HAL-assisted diagnosis in body fluids were tested. These included the cell viability and its impact on PpIX fluorescence, the storage condition and shelf life of HAL premix reagent, light exposure (360–450 nm wavelengths) and its corresponding effect on both intensity and bleaching of the PpIX fluorescence as a function of the microscopy imaging conditions. There was no significant decrease in the viability of bladder cancer cells after 6 h at 4 °C (student’s t-test: p > 0.05). The cellular PpIX fluorescence decreased in a time-dependent manner when cancer cells were kept at 4 °C for extended period of time, though this didn’t significantly reduce the fluorescence intensity contrast between cancer and non-cancer cells kept in the same condition for 6 h. HAL premix reagent kept in long term storage at 4 °C induced stronger PpIX fluorescence than reagent kept in the − 20 °C freezer. The PpIX fluorescence was negatively affected by repeated light exposure but increased with illumination intensity and exposure time. Though this applied to both healthy and cancer cell lines, and therefore did not statistically improved the differentiation between cell types. This study revealed important experimental settings that need to be carefully considered to benefit from the analytical potential of HAL induced fluorescence when used in technologies for the diagnosis of cancer from body fluids.
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Affiliation(s)
- Kit Man Chan
- Department of Engineering, UniSA STEM, University of South Australia, Mawson Lakes, SA, 5095, Australia
| | - Jonathan Gleadle
- Department of Renal Medicine, Flinders Medical Centre, Bedford Park, SA, 5042, Australia.,College of Medicine and Public Health, Flinders University, Bedford Park, SA, 5042, Australia
| | - Jordan Li
- Department of Renal Medicine, Flinders Medical Centre, Bedford Park, SA, 5042, Australia.,College of Medicine and Public Health, Flinders University, Bedford Park, SA, 5042, Australia
| | - Thomas Danny Michl
- Department of Engineering, UniSA STEM, University of South Australia, Mawson Lakes, SA, 5095, Australia
| | - Krasimir Vasilev
- Future Industries Institute, UniSA STEM, University of South Australia, Mawson Lakes, SA, 5095, Australia
| | - Melanie MacGregor
- Future Industries Institute, UniSA STEM, University of South Australia, Mawson Lakes, SA, 5095, Australia.
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