Front Cover: Removal of Serum Lipids and Lipid ‐Derived Metabolites to Investigate Breast Cancer Cell Biology
DOI:10.1002/pmic.201800370In article numberhttps://doi.org/10.1002/pmic.2018003701800370, Brovkovych et al. study the lipid composition of different types of serum in which cultured cells are maintained and show that these cells are sensitive to different serum, most likely due to the differences in levels of structural and signaling metabolites present in the growth environment. (Source: Proteomics)
Source: Proteomics - September 12, 2019 Category: Biochemistry Authors: Viktor Brovkovych, Alyssa Aldrich, Nasi Li, G. Ekin Atilla ‐Gokcumen, Jonna Frasor Tags: Front Cover Source Type: research

Contents: Proteomics 18'19
PROTEOMICS, Volume 19, Issue 18, September 2019. (Source: Proteomics)
Source: Proteomics - September 12, 2019 Category: Biochemistry Tags: Contents Source Type: research

Editorial Board: Proteomics 18'19
PROTEOMICS, Volume 19, Issue 18, September 2019. (Source: Proteomics)
Source: Proteomics - September 12, 2019 Category: Biochemistry Tags: Editorial Board Source Type: research

Standard abbreviations
PROTEOMICS, Volume 19, Issue 18, September 2019. (Source: Proteomics)
Source: Proteomics - September 12, 2019 Category: Biochemistry Tags: Standard abbreviations Source Type: research

Special Issue on Single ‐Cell Multiomics for Immuno‐Oncology and Cancer Systems Biology
PROTEOMICS, Volume 19, Issue 18, September 2019. (Source: Proteomics)
Source: Proteomics - September 12, 2019 Category: Biochemistry Authors: Wei Wei, Rong Fan Tags: Editorial Source Type: research

The Tumor Suppressor SCRIB is a Negative Modulator of the Wnt/ β‐Catenin Signaling Pathway
This article is protected by copyright. All rights reserved (Source: Proteomics)
Source: Proteomics - September 12, 2019 Category: Biochemistry Authors: Avais M. Daulat, M ônica Silveira Wagner, Alexandra Walton, Emilie Baudelet, Stéphane Audebert, Luc Camoin, Jean‐Paul Borg Tags: Research Article Source Type: research

Accumulation of “Old Proteins” and the Critical Need for MS‐based Protein Turnover Measurements in Aging and Longevity
AbstractAging and age ‐related diseases are accompanied by proteome remodeling and progressive declines in cellular machinery required to maintain protein homeostasis (proteostasis), such as autophagy, ubiquitin‐mediated degradation, and protein synthesis. While many studies have focused on capturing changes in prote ostasis, the identification of proteins that evade these cellular processes has recently emerged as an approach to studying the aging proteome. With advances in proteomic technology, it is possible to monitor protein half‐lives and protein turnover at the level of individual proteins in vivo. For large...
Source: Proteomics - September 10, 2019 Category: Biochemistry Authors: Nathan Basisty, Anja Holtz, Birgit Schilling Tags: Review Source Type: research

Proteome Oxidative Modifications and Impairment of Specific Metabolic Pathways During Cellular Senescence and Aging
This article is protected by copyright. All rights reserved (Source: Proteomics)
Source: Proteomics - September 10, 2019 Category: Biochemistry Authors: Marie ‐Paule Hamon, Emad K. Ahmed, Martín A. Baraibar, Bertrand Friguet Tags: Review Source Type: research

The Response of Haloferax Volcanii to Salt and Temperature Stress: A Proteome Study by Label ‐Free Mass Spectrometry
This article is protected by copyright. All rights reserved (Source: Proteomics)
Source: Proteomics - September 9, 2019 Category: Biochemistry Authors: Zivojin Jevtic, Britta Stoll, Friedhelm Pfeiffer, Kundan Sharma, Henning Urlaub, Anita Marchfelder, Christof Lenz Tags: Research Article Source Type: research

Proteomics Reveals Cell ‐Surface Urokinase Plasminogen Activator Receptor Expression Impacts Most Hallmarks of Cancer
AbstractWhile metastasis is the primary cause of colorectal cancer (CRC) mortality, the molecular mechanisms underpinning it remains elusive. Metastasis is propagated through driver oncogene/suppressor gene mutations, accompanied by passenger mutations and underlying genomic instability. To understand cancer biology, a unifying framework called the “hallmarks of cancer” (HoCs) has been developed, which organizes cell biological alterations under ten key hallmarks. Underlying these HoCs, genome instability generates mutational diversity that is amplified by inflammation. Recognizing how critical cancer cell‐su...
Source: Proteomics - September 8, 2019 Category: Biochemistry Authors: Seong Beom Ahn, Abidali Mohamedali, Dana Pascovici, Subash Adhikari, Samridhi Sharma, Edouard C. Nice, Mark S. Baker Tags: Research Article Source Type: research

Lipid Atlas of Keratinocytes and Betulin Effects on its Lipidome Profiled by Comprehensive UHPLC ‐MS/MS With Data Independent Acquisition Using Targeted Data Processing
This article is protected by copyright. All rights reserved (Source: Proteomics)
Source: Proteomics - September 6, 2019 Category: Biochemistry Authors: Carlos Calder ón, Lara Rubarth, Malgorzata Cebo, Irmgard Merfort, Michael Lämmerhofer Tags: Research Article Source Type: research

A Quantitative Proteomics Study of Early Heat ‐Regulated Proteins by Two‐Dimensional Difference Gel Electrophoresis Identified OsUBP21 as a Negative Regulator of Heat Stress Responses in Rice
This article is protected by copyright. All rights reserved (Source: Proteomics)
Source: Proteomics - September 6, 2019 Category: Biochemistry Authors: Hangfan Zhou, Xiaolong Wang, Chenmin Huo, Hui Wang, Zhichao An, Daye Sun, Jingze Liu, Wenqiang Tang, Baowen Zhang Tags: Research Article Source Type: research

Succinylome Analysis Reveals the Involvement of Lysine Succinylation in the Extreme Resistance of Deinococcus Radiodurans
This article is protected by copyright. All rights reserved (Source: Proteomics)
Source: Proteomics - September 5, 2019 Category: Biochemistry Authors: Congli Zhou, Jingli Dai, Huizhi Lu, Zijing Chen, Miao Guo, Yuan He, Kaixuan Gao, Tong Ge, Jiayu Jin, Liangyan Wang, Bing Tian, Yuejin Hua, Ye Zhao Tags: Research Article Source Type: research

Front Cover: Auxin Induces Widespread Proteome Remodeling in Arabidopsis Seedlings
DOI:10.1002/pmic.201900199The plant hormone auxin plays instructive roles in plant development. In article numberhttps://doi.org/10.1002/pmic.2019001991900199, Clark et al. discover that 25% of the proteome is regulated by auxin during Arabidopsis seedling development independent of transcriptional regulation. Cover artwork by China Rose. (Source: Proteomics)
Source: Proteomics - September 2, 2019 Category: Biochemistry Authors: Natalie M. Clark, Zhouxin Shen, Steven P. Briggs, Justin W. Walley, Dior R. Kelley Tags: Front Cover Source Type: research

Contents: Proteomics 17'19
PROTEOMICS, Volume 19, Issue 17, September 2019. (Source: Proteomics)
Source: Proteomics - September 2, 2019 Category: Biochemistry Tags: Contents Source Type: research

Editorial Board: Proteomics 17'19
PROTEOMICS, Volume 19, Issue 17, September 2019. (Source: Proteomics)
Source: Proteomics - September 2, 2019 Category: Biochemistry Tags: Editorial Board Source Type: research

Standard abbreviations
PROTEOMICS, Volume 19, Issue 17, September 2019. (Source: Proteomics)
Source: Proteomics - September 2, 2019 Category: Biochemistry Tags: Standard abbreviations Source Type: research

Placenta Stem/Stromal Cell –Derived Extracellular Vesicles for Potential Use in Lung Repair
This study is fundamental to advancing the field of EVs and to unlock the full potential of EVs in regenerative medicine. (Source: Proteomics)
Source: Proteomics - September 2, 2019 Category: Biochemistry Authors: Sally Yunsun Kim, Mugdha V. Joglekar, Anandwardhan A. Hardikar, Thanh Huyen Phan, Dipesh Khanal, Priyanka Tharkar, Christina Limantoro, Jancy Johnson, Bill Kalionis, Wojciech Chrzanowski Tags: Research Article Source Type: research

Salt ‐Treated Roots of Oryza australiensis Seedlings are Enriched with Proteins Involved in Energetics and Transport
Salinity is a major constraint on rice productivity worldwide. However, mechanisms of salt tolerance in wild rice relatives are unknown. We extracted root microsomal proteins from twoOryza australiensis accessions contrasting in salt tolerance. Whole roots of two ‐week‐old seedlings were treated with 80 mM NaCl for 30 d to induce salt stress. Proteins were quantified by tandem mass tags (TMT) and triple‐stage MS. We found>200 differentially expressed proteins (DEPs) between the salt ‐treated and control samples in the two accessions (p‐value
Source: Proteomics - September 2, 2019 Category: Biochemistry Authors: Yoav Yichie, Mafruha T. Hasan, Peri A. Tobias, Dana Pascovici, Hugh D. Goold, Steven C. Van Sluyter, Thomas H. Roberts, Brian J. Atwell Tags: Research Article Source Type: research

Mapping Relative Differences in Human Salivary Gland Secretions by Dried Saliva Spot Sampling and nanoLC ‐MS/MS
This article is protected by copyright. All rights reserved (Source: Proteomics)
Source: Proteomics - September 2, 2019 Category: Biochemistry Authors: Fabian Schulte, Hatice Hasturk, Markus Hardt Tags: Technical Brief Source Type: research

Protective Cellular Mechanism of Estrogen Against Kidney Stone Formation: A Proteomics Approach and Functional Validation
This study explored cellular mechanism underlying such stone preventive mechanism of estrogen. MDCK renal tubular cells were incubated with or without 20 nM 17 β‐estradiol for 7 days. Comparative proteomics revealed 58 differentially expressed proteins in estrogen‐treated vs. control cells that were successfully identified by nanoLC‐ESI‐Q‐TOF MS/MS. Interestingly, these altered proteins were involved mainly in “binding and receptor”, “metabolic process”, and “migration and healing” networks. Functional investigations demonstrated reduction of calcium oxalate (CaOx) crystal...
Source: Proteomics - September 1, 2019 Category: Biochemistry Authors: Paleerath Peerapen, Visith Thongboonkerd Tags: Research Article Source Type: research

Matrix Assisted Laser Desorption/Ionization Mass Spectrometry Imaging (MALDI MSI) for Monitoring of Drug Response in Primary Cancer Spheroids
PROTEOMICS, Volume 0, Issue ja, -Not available-. (Source: Proteomics)
Source: Proteomics - August 31, 2019 Category: Biochemistry Authors: Parul Mittal, Zoe K Price, Noor A Lokman, Carmela Ricciardelli, Martin K Oehler, Manuela Klingler ‐Hoffmann, Peter Hoffmann Tags: Technical Brief Source Type: research

Pseudoqc: A Regression ‐Based Simulation Software for Correction and Normalization of Complex Metabolomics and Proteomics Datasets
This article is protected by copyright. All rights reserved (Source: Proteomics)
Source: Proteomics - August 31, 2019 Category: Biochemistry Authors: Shisheng Wang, Hao Yang Tags: Technical Brief Source Type: research

Network reconstruction and Significant Pathway Extraction Using Phosphoproteomic Data From Cancer Cells
This article is protected by copyright. All rights reserved (Source: Proteomics)
Source: Proteomics - August 31, 2019 Category: Biochemistry Authors: Buffard Marion, Naldi Aur élien, Radulescu Ovidiu, Peter J Coopman, Romain Maxime Larive, Freiss Gilles Tags: Research Article Source Type: research

Lipidomic Analysis Reveals Altered Fatty Acid Metabolism in the Liver of the Symptomatic Niemann –Pick, Type C1 Mouse Model
In this study, it is sought to investigate free fatty acid levels inNpc1−/− mice with focus on the polyunsaturated ω‐3 and ω‐6 fatty acids. Since fatty acids are the main constituents of numerous lipids species, a discovery based lipidomic study of liver tissue in Npc1−/− mice is also performed. To this end, alterations in fatty acid synthesis, including the ω‐3 and 6 fatty acids, are reported. Further, alterations in enzymes that regulate the synthesis of ω‐3 and 6 fatty acids are reported. Analysis of the liver lipidome reveals alterations in both storage and membra...
Source: Proteomics - August 29, 2019 Category: Biochemistry Authors: Melissa R. Pergande, Fidel Serna ‐Perez, Sheher Banu Mohsin, Jonathon Hanek, Stephanie M. Cologna Tags: Research Article Source Type: research

Quantitative Proteomic Analysis of Simian Primary Hepatocytes Reveals Candidate Molecular Markers for Permissiveness to Relapsing Malaria Plasmodium Cynomolgi
This article is protected by copyright. All rights reserved (Source: Proteomics)
Source: Proteomics - August 24, 2019 Category: Biochemistry Authors: Laurent Dembele, Devendra Kumar Gupta, Bamaprasad Dutta, Adeline C.Y. Chua, Siu Kwan Sze, Pablo Bifani Tags: Research Article Source Type: research

Transcriptomic Analysis of Breast Cancer Stem Cells and Development of a pALDH1A1:mNeptune Reporter System for Live Tracking
This article is protected by copyright. All rights reserved (Source: Proteomics)
Source: Proteomics - August 20, 2019 Category: Biochemistry Authors: Nad ège Bidan, Justine Bailleul‐Dubois, Jérémy Duval, Marie Winter, Marie Denoulet, Karine Hannebicque, Ihsan Y. El‐Sayed, Christophe Ginestier, Violaine Forissier, Yukiko Matsunaga, Samuel Meignan, François Anquez, Sylvain Julien, Am Tags: Research Article Source Type: research

Proteome Analysis of Enriched Heterocysts From Two Hydrogenase Mutants From Anabaena sp. PCC 7120
This article is protected by copyright. All rights reserved (Source: Proteomics)
Source: Proteomics - August 20, 2019 Category: Biochemistry Authors: Katerina Kourpa, Eftychia Manarolaki, Alexandros Lyratzakis, Vasso Strataki, Fiona Rupprecht, Julian D. Langer, Georgios Tsiotis Tags: Research Article Source Type: research

Phosphoproteomic Analyses Provide Insight into Molecular Mechanisms Underlying NETosis
In conclusion, our study provides insight into molecular mechanisms of NETosis and a useful dataset for the guidance of future studies.This article is protected by copyright. All rights reserved (Source: Proteomics)
Source: Proteomics - August 20, 2019 Category: Biochemistry Authors: Xiaoying Zhu, Jinjun Chen Tags: Dataset Brief Source Type: research

Differential Chloroplast Proteomics of Temperature Adaptation in Apple (Malus x domestica Borkh.) Microshoots
PROTEOMICS, Volume 0, Issue ja, -Not available-. (Source: Proteomics)
Source: Proteomics - August 20, 2019 Category: Biochemistry Authors: Šarūnė Morkūnaitė‐Haimi, Jurgita Vinskiene, Gražina Stanienė, Perttu Haimi Tags: Dataset Brief Source Type: research

Protein Paucimannosylation is an Enriched N ‐glycosylation Signature of Human Cancers
While aberrant protein glycosylation is a recognised characteristic of human cancers, advances in glycoanalytics continue to discover new associations between glycoproteins and tumourigenesis. This glycomics ‐centric study investigates a possible link between protein paucimannosylation, an under‐studied class of humanN‐glycosylation [Man1 ‐3GlcNAc2Fuc0 ‐1], and human cancers. The paucimannosidic glycans (PMGs) of 34 cancer cell lines and 133 tissue samples spanning 11 cancer types and matching non ‐cancerous specimens were profiled from 467 published and unpublished PGC‐LC‐MS/MSN‐glycome datasets collecte...
Source: Proteomics - August 16, 2019 Category: Biochemistry Authors: Sayantani Chatterjee, Ling Y. Lee, Rebeca Kawahara, Jodie L. Abrahams, Barbara Adamczyk, Merrina Anugraham, Christopher Ashwood, Zeynep Sumer ‐Bayraktar, Matthew T. Briggs, Jenny H.L. Chik, Arun Everest‐Dass, Sarah Förster, Hannes Hinnebu Tags: Research Article Source Type: research

Special Issue on Lipidomics
PROTEOMICS, Volume 0, Issue ja, -Not available-. (Source: Proteomics)
Source: Proteomics - August 16, 2019 Category: Biochemistry Authors: G. Ekin Atilla ‐Gokcumen Tags: Editorial Source Type: research

Special Issue on Single ‐Cell Multi‐Omics for Immuno‐Oncology and Cancer Systems Biology
PROTEOMICS, Volume 0, Issue ja, -Not available-. (Source: Proteomics)
Source: Proteomics - August 14, 2019 Category: Biochemistry Authors: Wei Wei, Rong Fan Tags: Editorial Source Type: research

Accumulation of ‘Old Proteins’ and the Critical Need for Mass Spectrometry based Protein Turnover Measurements in Aging and Longevity
This article is protected by copyright. All rights reserved (Source: Proteomics)
Source: Proteomics - August 13, 2019 Category: Biochemistry Authors: Nathan Basisty, Anja Holtz, Birgit Schilling Tags: Review Source Type: research

Plant –Microbe Symbiosis: What Has Proteomics Taught Us?
AbstractBeneficial microbes have a positive impact on the productivity and fitness of the host plant. A better understanding of the biological impacts and underlying mechanisms by which the host derives these benefits will help to address concerns around global food production and security. The recent development of omics ‐based technologies has broadened our understanding of the molecular aspects of beneficial plant–microbe symbiosis. Specifically, proteomics has led to the identification and characterization of several novel symbiosis‐specific and symbiosis‐related proteins and post‐translational modifica t...
Source: Proteomics - August 12, 2019 Category: Biochemistry Authors: Behnam Khatabi, Javad Gharechahi, Mohammad Reza Ghaffari, Dilin Liu, Paul A. Haynes, Matthew J. McKay, Mehdi Mirzaei, Ghasem Hosseini Salekdeh Tags: Review Source Type: research

Front Cover: Plant –Microbe Symbiosis: What Has Proteomics Taught Us?
DOI:10.1002/pmic.201800105Schematic overview comparing the effects of various types of symbiotic and non ‐symbiotic interactions on a host plant. Symbionts have several biological impacts on their host plants, including enhanced crop yields, growth promotion, abiotic stress tolerance, biotic stress resistance, increased photosynthetic efficiency, and higher nutrient and water uptakes in comparison wi th non‐symbiotic plants. A symbiotic association could lead to a local or systemic resistance to pathogen and pest infections in above and/or underground tissues, and consequently influence the overall health status of the...
Source: Proteomics - August 12, 2019 Category: Biochemistry Authors: Behnam Khatabi, Javad Gharechahi, Mohammad Reza Ghaffari, Dilin Liu, Paul A. Haynes, Matthew J. McKay, Mehdi Mirzaei, Ghasem Hosseini Salekdeh Tags: Front Cover Source Type: research

Contents: Proteomics 16'19
PROTEOMICS, Volume 19, Issue 16, August 2019. (Source: Proteomics)
Source: Proteomics - August 12, 2019 Category: Biochemistry Tags: Contents Source Type: research

Editorial Board: Proteomics 16'19
PROTEOMICS, Volume 19, Issue 16, August 2019. (Source: Proteomics)
Source: Proteomics - August 12, 2019 Category: Biochemistry Tags: Editorial Board Source Type: research

Standard abbreviations
PROTEOMICS, Volume 19, Issue 16, August 2019. (Source: Proteomics)
Source: Proteomics - August 12, 2019 Category: Biochemistry Tags: Standard abbreviations Source Type: research

Proteomics Reveals Cell ‐Surface Urokinase Plasminogen Activator Receptor (uPAR) Expression Impacts Most Hallmarks of Cancer
This article is protected by copyright. All rights reserved (Source: Proteomics)
Source: Proteomics - August 11, 2019 Category: Biochemistry Authors: Seong Beom Ahn, Abidali Mohamedali, Dana Pascovici, Subash Adhikari, Samridhi Sharma, Edouard C. Nice, Mark S. Baker Tags: Research Article Source Type: research

Lipidomic Analysis Reveals Altered Fatty Acid Metabolism in the Liver of the Symptomatic Niemann ‐Pick, Type C1 Mouse Model
This article is protected by copyright. All rights reserved (Source: Proteomics)
Source: Proteomics - August 8, 2019 Category: Biochemistry Authors: Melissa R. Pergande, Fidel Serna ‐Perez, Sheher Banu Mohsin, Jonathon Hanek, Stephanie M. Cologna Tags: Research Article Source Type: research

Tspan15 is a New Stemness ‐Related Marker in Hepatocellular Carcinoma
In conclusion, Tspan15 is a new stemness‐related marker in HCC which exhibit high potential of tumor growth and recurrence.This article is protected by copyright. All rights reserved (Source: Proteomics)
Source: Proteomics - August 7, 2019 Category: Biochemistry Authors: Nazha Sidahmed ‐Adrar, Jean‐François Ottavi, Nassima Benzoubir, Taous Ait Saadi, Mohamed Bou Saleh, Philippe Mauduit, Catherine Guettier, Christophe Desterke, François Le Naour Tags: Research Article Source Type: research

Specificity of Acyl Chain Composition of Phosphatidylinositols
This article is protected by copyright. All rights reserved (Source: Proteomics)
Source: Proteomics - August 5, 2019 Category: Biochemistry Authors: Jos é Carlos Bozelli, Richard M. Epand Tags: Review Source Type: research

Auxin Induces Widespread Proteome Remodeling in Arabidopsis Seedlings
This article is protected by copyright. All rights reserved (Source: Proteomics)
Source: Proteomics - August 5, 2019 Category: Biochemistry Authors: Natalie M. Clark, Zhouxin Shen, Steven P. Briggs, Justin W. Walley, Dior R. Kelley Tags: Dataset Brief Source Type: research

Trajectories of Aging: How Systems Biology in Yeast can Illuminate Mechanisms of Personalized Aging
This article is protected by copyright. All rights reserved (Source: Proteomics)
Source: Proteomics - August 5, 2019 Category: Biochemistry Authors: Matthew M. Crane, Kenneth L. Chen, Ben W. Blue, Matt Kaeberlein Tags: Review Source Type: research

OGT Controls the Expression and the Glycosylation of E ‐cadherin, and Affects Glycosphingolipid Structures in Human Colon Cell Lines
This article is protected by copyright. All rights reserved (Source: Proteomics)
Source: Proteomics - August 2, 2019 Category: Biochemistry Authors: James Biwi, Charlotte Clarisse, Christophe Biot, Radoslaw P. Kozak, Katarina Madunic, Marl ène Mortuaire, Manfred Wuhrer, Daniel I.R. Spencer, Céline Schulz, Yann Guerardel, Tony Lefebvre, Anne‐Sophie Vercoutter‐Edouart Tags: Research Article Source Type: research

Front Cover: Proteome Profile of Endogenous Retrotransposon ‐Associated Complexes in Human Embryonic Stem Cells
DOI:10.1002/pmic.201900169Long Interspersed Element ‐1 (L1) is a major transposable element present in the human genome. L1 activity is implicated in various human diseases and cancer. Depicted here is a colony of human embryonic stem cell (ESCs) expressing the endogenous L1‐encoded ORF1 protein. ORF1p appears as distinct cytoplasmic foci (green) close to nuclei expressing the stem cell marker, OCT4 (red). Phalloidin‐Cyan (blue) stains actin. In article numberhttps://doi.org/10.1002/pmic.2019001691900169, Vuong et al. identify cellular proteins associated with ORF1p in human ESCs. Understanding ORF1p function is like...
Source: Proteomics - August 1, 2019 Category: Biochemistry Authors: Linh M. Vuong, Songqin Pan, Peter J. Donovan Tags: Front Cover Source Type: research

Contents: Proteomics 15'19
PROTEOMICS, Volume 19, Issue 15, August 2019. (Source: Proteomics)
Source: Proteomics - August 1, 2019 Category: Biochemistry Tags: Contents Source Type: research

Compositionally Biased Dark Matter in the Protein Universe
PROTEOMICS, Volume 19, Issue 15, August 2019. (Source: Proteomics)
Source: Proteomics - August 1, 2019 Category: Biochemistry Authors: Paul M. Harrison Tags: Correction Source Type: research

Editorial Board: Proteomics 15'19
PROTEOMICS, Volume 19, Issue 15, August 2019. (Source: Proteomics)
Source: Proteomics - August 1, 2019 Category: Biochemistry Tags: Editorial Board Source Type: research