MDPI | Proteomes
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Proteomes is an open access, peer reviewed journal on all aspects of proteome science. Proteomes covers the multi-disciplinary topics of structural and functional biology, protein chemistry, cell biology, methodology used for protein analysis, including mass spectrometry, protein arrays, bioinformatics, HTS assays, etc.
MDPI | Proteomes
1w ago
Proteomes, Vol. 12, Pages 13: Key Proteomics Tools for Fundamental and Applied Microalgal Research
Proteomes doi: 10.3390/proteomes12020013
Authors: Maxence Plouviez Eric Dubreucq
Microscopic, photosynthetic prokaryotes and eukaryotes, collectively referred to as microalgae, are widely studied to improve our understanding of key metabolic pathways (e.g., photosynthesis) and for the development of biotechnological applications. Omics technologies, which are now common tools in biological research, have been shown to be critical in microalgal research. In the past decade, significant technologic ..read more
MDPI | Proteomes
2w ago
Proteomes, Vol. 12, Pages 12: Comprehensive Proteome Profiling of a Xanthomonas campestris pv. Campestris B100 Culture Grown in Minimal Medium with a Specific Focus on Nutrient Consumption and Xanthan Biosynthesis
Proteomes doi: 10.3390/proteomes12020012
Authors: Ben Struck Sanne Jitske Wiersma Vera Ortseifen Alfred Pühler Karsten Niehaus
Xanthan, a bacterial polysaccharide, is widespread in industrial applications, particularly as a food additive. However, little is known about the process of xanthan synthesis on the proteome level, even though Xanthomonas campestris is frequently used for xa ..read more
MDPI | Proteomes
2w ago
Proteomes, Vol. 12, Pages 11: Integration of Urinary Peptidome and Fecal Microbiome to Explore Patient Clustering in Chronic Kidney Disease
Proteomes doi: 10.3390/proteomes12020011
Authors: Mavrogeorgis Valkenburg Siwy Latosinska Glorieux Mischak Jankowski
Millions of people worldwide currently suffer from chronic kidney disease (CKD), requiring kidney replacement therapy at the end stage. Endeavors to better understand CKD pathophysiology from an omics perspective have revealed major molecular players in several sample sources. Focusing on non-invasive sources, gut microbial communities appea ..read more
MDPI | Proteomes
2w ago
Proteomes, Vol. 12, Pages 10: Cadmium Highlights Common and Specific Responses of Two Freshwater Sentinel Species, Dreissena polymorpha and Dreissena rostriformis bugensis
Proteomes doi: 10.3390/proteomes12020010
Authors: Florence Bultelle Aimie Le Saux Elise David Arnaud Tanguy Simon Devin Stéphanie Olivier Agnès Poret Philippe Chan Fanny Louis Laurence Delahaut Sandrine Pain-Devin Romain Péden David Vaudry Frank Le Foll Béatrice Rocher
Zebra mussel (ZM), Dreissena polymorpha, commonly used as a sentinel species in freshwater biomonitoring, is now in competition for habitat with quagga mussel ..read more
MDPI | Proteomes
1M ago
Proteomes, Vol. 12, Pages 8: Biomarkers in Ovarian Cancer: Towards Personalized Medicine
Proteomes doi: 10.3390/proteomes12010008
Authors: López-Portugués Montes-Bayón Díez
Ovarian cancer is one of the deadliest cancers in women. The lack of specific symptoms, especially at the initial stages of disease development, together with the malignancy heterogeneity, lower the life expectancy of patients. Aiming to improve survival rates, diagnostic and prognostic biomarkers are increasingly employed in clinics, providing gynecologists and oncologists with new tools to guide their treatment decisions ..read more
MDPI | Proteomes
1M ago
Proteomes, Vol. 12, Pages 7: Quantitative Proteomics Reveal Region-Specific Alterations in Neuroserpin-Deficient Mouse Brain and Retina: Insights into Serpini1 Function
Proteomes doi: 10.3390/proteomes12010007
Authors: Shahab Mirshahvaladi Nitin Chitranshi Ardeshir Amirkhani Rashi Rajput Devaraj Basavarajappa Roshana Vander Wall Dana Pascovici Angela Godinez Giovanna Galliciotti Joao A. Paulo Veer Gupta Stuart L. Graham Vivek Gupta Mehdi Mirzaei
Neural regeneration and neuroprotection represent strategies for future management of neurodegenerative disorders such as Alzheimer’s di ..read more
MDPI | Proteomes
2M ago
Proteomes, Vol. 12, Pages 6: Observations from the Proteomics Bench
Proteomes doi: 10.3390/proteomes12010006
Authors: Simone König Karin Schork Martin Eisenacher
Many challenges in proteomics result from the high-throughput nature of the experiments. This paper first presents pre-analytical problems, which still occur, although the call for standardization in omics has been ongoing for many years. This article also discusses aspects that affect bioinformatic analysis based on three sets of reference data measured with different orbitrap instruments. Despite continuous advances in mass spectrom ..read more
MDPI | Proteomes
2M ago
Proteomes, Vol. 12, Pages 5: Enhanced Electrophoretic Depletion of Sodium Dodecyl Sulfate with Methanol for Membrane Proteome Analysis by Mass Spectrometry
Proteomes doi: 10.3390/proteomes12010005
Authors: Hammam H. Said Alan A. Doucette
Membrane proteins are underrepresented during proteome characterizations, primarily owing to their lower solubility. Sodium dodecyl sulfate (SDS) is favored to enhance protein solubility but interferes with downstream analysis by mass spectrometry. Here, we present an improved workflow for SDS depletion using transmembrane electrophoresis (TME) while retaining ..read more
MDPI | Proteomes
3M ago
Proteomes, Vol. 12, Pages 4: How Can Proteomics Help to Elucidate the Pathophysiological Crosstalk in Muscular Dystrophy and Associated Multi-System Dysfunction?
Proteomes doi: 10.3390/proteomes12010004
Authors: Paul Dowling Capucine Trollet Elisa Negroni Dieter Swandulla Kay Ohlendieck
This perspective article is concerned with the question of how proteomics, which is a core technique of systems biology that is deeply embedded in the multi-omics field of modern bioresearch, can help us better understand the molecular pathogenesis of complex diseases. As an illustrative example of a monogeneti ..read more
MDPI | Proteomes
3M ago
Proteomes, Vol. 12, Pages 3: The Mechanisms of Regulated Cell Death: Structural and Functional Proteomic Pathways Induced or Inhibited by a Specific Protein—A Narrative Review
Proteomes doi: 10.3390/proteomes12010003
Authors: Diego Fernández-Lázaro Begoña Sanz Jesús Seco-Calvo
Billions of cells die in us every hour, and our tissues do not shrink because there is a natural regulation where Cell Death (CD) is balanced with cell division. The process in which cells eliminate themselves in a controlled manner is called Programmed Cell Death (PCD). The PCD plays an important role during e ..read more