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Garcia-Marques F, Fuller K, Bermudez A, Shamsher N, Zhao H, Brooks JD, Flory MR, Pitteri SJ. Identification and characterization of intact glycopeptides in human urine. Sci Rep 2024; 14:3716. [PMID: 38355753 PMCID: PMC10866872 DOI: 10.1038/s41598-024-53299-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2023] [Accepted: 01/30/2024] [Indexed: 02/16/2024] Open
Abstract
Glycoproteins in urine have the potential to provide a rich class of informative molecules for studying human health and disease. Despite this promise, the urine glycoproteome has been largely uncharacterized. Here, we present the analysis of glycoproteins in human urine using LC-MS/MS-based intact glycopeptide analysis, providing both the identification of protein glycosites and characterization of the glycan composition at specific glycosites. Gene enrichment analysis reveals differences in biological processes, cellular components, and molecular functions in the urine glycoproteome versus the urine proteome, as well as differences based on the major glycan class observed on proteins. Meta-heterogeneity of glycosylation is examined on proteins to determine the variation in glycosylation across multiple sites of a given protein with specific examples of individual sites differing from the glycosylation trends in the overall protein. Taken together, this dataset represents a potentially valuable resource as a baseline characterization of glycoproteins in human urine for future urine glycoproteomics studies.
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Affiliation(s)
- Fernando Garcia-Marques
- Canary Center at Stanford for Cancer Early Detection, Department of Radiology, Stanford University School of Medicine, 3155 Porter Drive MC5483, Palo Alto, CA, 94304, USA
| | - Keely Fuller
- Canary Center at Stanford for Cancer Early Detection, Department of Radiology, Stanford University School of Medicine, 3155 Porter Drive MC5483, Palo Alto, CA, 94304, USA
| | - Abel Bermudez
- Canary Center at Stanford for Cancer Early Detection, Department of Radiology, Stanford University School of Medicine, 3155 Porter Drive MC5483, Palo Alto, CA, 94304, USA
| | - Nikhiya Shamsher
- Canary Center at Stanford for Cancer Early Detection, Department of Radiology, Stanford University School of Medicine, 3155 Porter Drive MC5483, Palo Alto, CA, 94304, USA
| | - Hongjuan Zhao
- Department of Urology, Stanford University School of Medicine, Stanford, CA, 94305, USA
| | - James D Brooks
- Canary Center at Stanford for Cancer Early Detection, Department of Radiology, Stanford University School of Medicine, 3155 Porter Drive MC5483, Palo Alto, CA, 94304, USA
- Department of Urology, Stanford University School of Medicine, Stanford, CA, 94305, USA
| | - Mark R Flory
- Cancer Early Detection Advanced Research (CEDAR) Center, Knight Cancer Institute, Oregon Health & Science University, Portland, OR, 97239-3098, USA
| | - Sharon J Pitteri
- Canary Center at Stanford for Cancer Early Detection, Department of Radiology, Stanford University School of Medicine, 3155 Porter Drive MC5483, Palo Alto, CA, 94304, USA.
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Akintola J, Abou Shaheen S, Wu Q, Schlenoff JB. Relative Strength of Polycation Adsorption on Oxide Surfaces. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2024. [PMID: 38316024 DOI: 10.1021/acs.langmuir.3c03641] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/07/2024]
Abstract
Polyelectrolyte adsorption onto surfaces is widely employed in water treatment and mining. However, little is known of the relative interaction strengths between surfaces and polymer. This fundamental property is assumed to be dominated by electrostatics, i.e., attractive interactions between opposite charges, which are set by the overall ionic strength ("salt concentration") of the solution, and charge densities of the surface and the polymer. A common, counterintuitive finding is a range of salt concentrations over which the amount of adsorbed polyelectrolyte increases as electrostatic interactions are tempered by the addition of salt. After an adsorption maximum, higher salt concentrations then produce the expected gradual desorption of polyelectrolyte. In this work, the salt response of the adsorption of the same narrow molecular weight distribution polycation, poly(N-methyl-4-vinylpyridinium), PM4VP, to a variety of surfaces was explored. Oxide powders for adsorption included Al2O3, SiO2, Fe2O3, Fe3O4, TiO2, ZnO, and CuO. Planar surfaces included silicon wafers, mica, calcium carbonate, and CaF2 single crystals. The PM4VP was radiolabeled with 14C so that sensitive, submonolayer amounts could be detected. The position of the peak maximum, or the lack of a peak, in response to added salt was used to rank the electrostatic component of the interaction. The importance of charge regulation, a shift in the surface pKa in response to solution species, was highlighted as a mechanism for adsorption on the "wrong" side of the isoelectric point and also as a factor contributing to the difficulty of reaching the totally desorbed state even at the highest salt concentrations.
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Affiliation(s)
- John Akintola
- Department of Chemistry and Biochemistry, The Florida State University, Tallahassee, Florida 32308-4390, United States
| | - Samir Abou Shaheen
- Department of Chemistry and Biochemistry, The Florida State University, Tallahassee, Florida 32308-4390, United States
| | - Qiang Wu
- Department of Industrial and Manufacturing Engineering, FAMU-FSU College of Engineering, Tallahassee, Florida 32310-6046, United States
| | - Joseph B Schlenoff
- Department of Chemistry and Biochemistry, The Florida State University, Tallahassee, Florida 32308-4390, United States
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Hoogstad TM, Kiewidt L, van Haasterecht T, Bitter JH. Size selectivity in adsorption of polydisperse starches on activated carbon. Carbohydr Polym 2023; 309:120705. [PMID: 36906366 DOI: 10.1016/j.carbpol.2023.120705] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2022] [Revised: 02/05/2023] [Accepted: 02/13/2023] [Indexed: 02/21/2023]
Abstract
The influence of molecular weight, polydispersity, and degree of branching of four potato starches (Paselli MD10, Eliane MD6, Eliane MD2, and highly branched starch) on the adsorption rates on activated carbon (Norit CA1) was investigated. Changes in starch concentration and size distribution over time were analysed by Total Starch Assay and Size Exclusion Chromatography. Average molecular weight and degree of branching of a starch scaled negatively with average adsorption rate. Within a size-distribution, adsorption rates scaled negatively with increasing molecule size, resulting in an increased average molecular weight in solution of between 25 % and 213 % and a decreased polydispersity of between 13 % and 38 %. Simulation with dummy distributions estimated the ratio of adsorption rates for 20th percentile and 80th percentile molecules within a distribution to range between a factor 4 and 8 for the different starches. Competitive adsorption decreased the adsorption rate of molecules above the average size within a sample distribution.
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Affiliation(s)
- T M Hoogstad
- Biobased Chemistry and Technology (BCT), Wageningen University & Research, P.O. Box 17, 6700 AA Wageningen, the Netherlands
| | - L Kiewidt
- Biobased Chemistry and Technology (BCT), Wageningen University & Research, P.O. Box 17, 6700 AA Wageningen, the Netherlands
| | - T van Haasterecht
- Biobased Chemistry and Technology (BCT), Wageningen University & Research, P.O. Box 17, 6700 AA Wageningen, the Netherlands
| | - J H Bitter
- Biobased Chemistry and Technology (BCT), Wageningen University & Research, P.O. Box 17, 6700 AA Wageningen, the Netherlands.
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Qu Y, Lin L, Gao S, Yang Y, Huang H, Li X, Ren H, Luo W. A molecular dynamics study on adsorption mechanisms of polar, cationic, and anionic polymers on montmorillonite. RSC Adv 2023; 13:2010-2023. [PMID: 36712645 PMCID: PMC9832364 DOI: 10.1039/d2ra07341b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2022] [Accepted: 12/12/2022] [Indexed: 01/13/2023] Open
Abstract
Adsorption of polymers on clay in aqueous solutions has wide applications in environmental, medical, and energy-related areas, but the interactions between polymers and clay under varied conditions are still not fully understood. In this study, we investigated the adsorption mechanisms of four polymers belonging to different categories, namely anionic poly(acrylic acid) (poly-AA), cationic poly(diallyldimethylammonium chloride) (poly-DADMAC), nonionic polyacrylamide (poly-AM), and the copolymer of AA and DADMAC (poly-AADADMAC). By using molecular dynamics simulations, we compared the desorption kinetics of these polymers at different temperatures and found that poly-AA and poly-AM have the weakest and strongest adsorption abilities, respectively. Polymer adsorptions are slightly more stable at higher pressures, and high salinity favors the adsorption of charged polymers. Further analysis suggests that the adsorption of anionic poly-AA is less stable than that of cationic poly-DADMAC because the latter is attracted to the negatively charged surface by direct coulombic forces, and poly-AM is stabilized by van der Waals forces and hydrogen bonds. This study provides insights on how to enhance the adsorption affinity of polymers on a clay surface and may help the design or improvement of polymer/clay nanocomposite materials.
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Affiliation(s)
- Yuanzhi Qu
- CNPC Engineering Technology R&D Company LimitedBeijing102206P. R. China
| | - Ling Lin
- School of Chemistry and Chemical Engineering, Southwest Petroleum UniversityChengdu610500P. R. China
| | - Shifeng Gao
- CNPC Engineering Technology R&D Company LimitedBeijing102206P. R. China
| | - Yukun Yang
- School of Chemistry and Chemical Engineering, Southwest Petroleum UniversityChengdu610500P. R. China
| | - Hongjun Huang
- CNPC Engineering Technology R&D Company LimitedBeijing102206P. R. China
| | - Xin Li
- School of Chemistry and Chemical Engineering, Southwest Petroleum UniversityChengdu610500P. R. China
| | - Han Ren
- CNPC Engineering Technology R&D Company LimitedBeijing102206P. R. China
| | - Wenjia Luo
- School of Chemistry and Chemical Engineering, Southwest Petroleum UniversityChengdu610500P. R. China
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