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Proteomic Investigations in Nephrology
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Proteomic Investigations in Nephrology

A special issue of International Journal of Molecular Sciences (ISSN 1422-0067). This special issue belongs to the section "Molecular Pathology, Diagnostics, and Therapeutics".

Deadline for manuscript submissions: closed (30 September 2021) | Viewed by 8605

Special Issue Editor

Prof. Dr. Mario Bonomini

E-Mail Website
Guest Editor
Department of Medicine and Aging Sciences, University G. D’Annunzio, Chieti-Pescara, 66100 Chieti, Italy
Interests: hemodialysis; peritoneal dialysis; renal replacement techniques; uremia; glomerular disease
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

This Special Issue, “Proteomic Investigations in Nephrology” will cover a selection of recent research topics and current review articles related to the role of proteomics in basic renal research and in clinical nephrology. Up-to-date review articles, commentaries, and experimental papers are all welcome.

Proteome analysis has emerged as a new field of protein science offering the possibility of achieving unbiased identification, quantification, and functional assessment of all proteins and peptides present in biological samples. Data generated by proteomic-based approaches can be used to gain mechanistic insights into disease origins, and discover novel biomarker sets indicative of progression, diagnosis or treatment responsiveness. Proteomics may bring a significant improvement in kidney disease management. Analysis of biological fluids (plasma, serum, urine) may enable a more accurate and timely detection of kidney dysfunction than current methods, which may lead to an improvement in both short- and long-term outcomes. Application of proteomics to the analysis of clinical kidney biopsy specimens has the potential to provide unique insights that may be relevant to disease pathogenesis and/or novel therapeutic targets. In renal replacement therapy, proteomic studies may provide useful information, and a valid support to manufacturers and dialysis technologists, ultimately leading to more efficient and biocompatible dialysis strategies.

Prof. Dr. Mario Bonomini
Guest Editor

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. International Journal of Molecular Sciences is an international peer-reviewed open access semimonthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. There is an Article Processing Charge (APC) for publication in this open access journal. For details about the APC please see here. Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • biomarker
  • dialysis
  • nephrology
  • proteomic
  • kidney
  • mass spectrometry
  • clinical proteomics

Published Papers (3 papers)

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Research

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14 pages, 3261 KiB  
Article
Proteomic Characterization of Urinary Extracellular Vesicles from Kidney-Transplanted Patients Treated with Calcineurin Inhibitors
by Laura Carreras-Planella, Javier Juega, Omar Taco, Laura Cañas, Marcella Franquesa, Ricardo Lauzurica and Francesc Enric Borràs
Int. J. Mol. Sci. 2020, 21(20), 7569; https://0-doi-org.brum.beds.ac.uk/10.3390/ijms21207569 - 14 Oct 2020
Cited by 12 | Viewed by 2637
Abstract
Use of immunosuppressive drugs is still unavoidable in kidney-transplanted patients. Since their discovery, calcineurin inhibitors (CNI) have been considered the first-line immunosuppressive agents, in spite of their known nephrotoxicity. Chronic CNI toxicity (CNIT) may lead to kidney fibrosis, a threatening scenario for graft [...] Read more.
Use of immunosuppressive drugs is still unavoidable in kidney-transplanted patients. Since their discovery, calcineurin inhibitors (CNI) have been considered the first-line immunosuppressive agents, in spite of their known nephrotoxicity. Chronic CNI toxicity (CNIT) may lead to kidney fibrosis, a threatening scenario for graft survival. However, there is still controversy regarding CNIT diagnosis, monitoring and therapeutic management, and their specific effects at the molecular level are not fully known. Aiming to better characterize CNIT patients, in the present study, we collected urine from kidney-transplanted patients treated with CNI who (i) had a normal kidney function, (ii) suffered CNIT, or (iii) presented interstitial fibrosis and tubular atrophy (IFTA). Urinary extracellular vesicles (uEV) were enriched and the proteome was analyzed to get insight into changes happening during CNI. Members of the uroplakin and plakin families were significantly upregulated in the CNIT group, suggesting an important role in CNIT processes. Although biomarkers cannot be asserted from this single pilot study, our results evidence the potential of uEV as a source of non-invasive protein biomarkers for a better detection and monitoring of this renal alteration in kidney-transplanted patients. Full article
(This article belongs to the Special Issue Proteomic Investigations in Nephrology)
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12 pages, 1246 KiB  
Article
Altered Phosphorylation of Cytoskeleton Proteins in Peripheral Blood Mononuclear Cells Characterizes Chronic Antibody-Mediated Rejection in Kidney Transplantation
by Maria Teresa Rocchetti, Federica Rascio, Giuseppe Castellano, Marco Fiorentino, Giuseppe Stefano Netti, Federica Spadaccino, Elena Ranieri, Anna Gallone, Loreto Gesualdo, Giovanni Stallone, Paola Pontrelli and Giuseppe Grandaliano
Int. J. Mol. Sci. 2020, 21(18), 6509; https://0-doi-org.brum.beds.ac.uk/10.3390/ijms21186509 - 05 Sep 2020
Viewed by 1978
Abstract
Chronic antibody-mediated rejection (CAMR) is the major cause of kidney transplant failure. The molecular mechanisms underlying this event are still poorly defined and this lack of knowledge deeply influences the potential therapeutic strategies. The aim of our study was to analyze the phosphoproteome [...] Read more.
Chronic antibody-mediated rejection (CAMR) is the major cause of kidney transplant failure. The molecular mechanisms underlying this event are still poorly defined and this lack of knowledge deeply influences the potential therapeutic strategies. The aim of our study was to analyze the phosphoproteome of peripheral blood mononuclear cells (PBMCs), to identify cellular signaling networks differentially activated in CAMR. Phosphoproteins isolated from PBMCs of biopsy proven CAMR, kidney transplant recipients with normal graft function and histology and healthy immunocompetent individuals, have been investigated by proteomic analysis. Phosphoproteomic results were confirmed by Western blot and PBMCs’ confocal microscopy analyses. Overall, 38 PBMCs samples were analyzed. A differential analysis of PBMCs’ phosphoproteomes revealed an increase of lactotransferrin, actin-related protein 2 (ARPC2) and calgranulin-B in antibody-mediated rejection patients, compared to controls. Increased expression of phosphorylated ARPC2 and its correlation to F-actin filaments were confirmed in CAMR patients. Our results are the first evidence of altered cytoskeleton organization in circulating immune cells of CAMR patients. The increased expression of phosphorylated ARPC2 found in the PBMCs of our patients, and its association with derangement of F-actin filaments, might suggest that proteins regulating actin dynamics in immune cells could be involved in the mechanism of CAMR of kidney grafts. Full article
(This article belongs to the Special Issue Proteomic Investigations in Nephrology)
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Review

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20 pages, 942 KiB  
Review
Urinary Protein and Peptide Markers in Chronic Kidney Disease
by Natalia Chebotareva, Anatoliy Vinogradov, Valerie McDonnell, Natalia V. Zakharova, Maria I. Indeykina, Sergey Moiseev, Evgeny N. Nikolaev and Alexey S. Kononikhin
Int. J. Mol. Sci. 2021, 22(22), 12123; https://0-doi-org.brum.beds.ac.uk/10.3390/ijms222212123 - 09 Nov 2021
Cited by 14 | Viewed by 3240
Abstract
Chronic kidney disease (CKD) is a non-specific type of kidney disease that causes a gradual decline in kidney function (from months to years). CKD is a significant risk factor for death, cardiovascular disease, and end-stage renal disease. CKDs of different origins may have [...] Read more.
Chronic kidney disease (CKD) is a non-specific type of kidney disease that causes a gradual decline in kidney function (from months to years). CKD is a significant risk factor for death, cardiovascular disease, and end-stage renal disease. CKDs of different origins may have the same clinical and laboratory manifestations but different progression rates, which requires early diagnosis to determine. This review focuses on protein/peptide biomarkers of the leading causes of CKD: diabetic nephropathy, IgA nephropathy, lupus nephritis, focal segmental glomerulosclerosis, and membranous nephropathy. Mass spectrometry (MS) approaches provided the most information about urinary peptide and protein contents in different nephropathies. New analytical approaches allow urinary proteomic–peptide profiles to be used as early non-invasive diagnostic tools for specific morphological forms of kidney disease and may become a safe alternative to renal biopsy. MS studies of the key pathogenetic mechanisms of renal disease progression may also contribute to developing new approaches for targeted therapy. Full article
(This article belongs to the Special Issue Proteomic Investigations in Nephrology)
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