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Comprehensive serum proteomic analysis in early endometrial cancer J. Proteomics (IF 3.509) Pub Date : 2021-01-04 Denise S. Uyar; Yi-Wen Huang; Marla A. Chesnik; Ninh B. Doan; Shama P. Mirza
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Differentially phosphorylated proteins in the crimped and straight wool of Chinese tan sheep J. Proteomics (IF 3.509) Pub Date : 2021-01-15 Dongqian He; Liyao Chen; Fang Luo; Huitong Zhou; Junkui Wang; Qian Zhang; Tongtong Lu; Shaofei Wu; Jon G.H. Hickford; Jinzhong Tao
Proteins can be post-translationally modified and this can be important in the regulation of cellular processes and function. However, little is known about whether protein phosphorylation plays a role in regulating wool fibre properties. In this study, we used a chemical labelling method combined with a high performance liquid chromatography-mass spectrometry (HPLC-MS) analysis to compare the phosphopeptides
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New baits for fishing in cultural heritage's Mare Magnum J. Proteomics (IF 3.509) Pub Date : 2021-01-14 Pier Giorgio Righetti; Gleb Zilberstein; Svetlana Zilberstein
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Comparative evaluation of two methods for LC-MS/MS proteomic analysis of formalin fixed and paraffin embedded tissues J. Proteomics (IF 3.509) Pub Date : 2021-01-14 Katarina Davalieva; Sanja Kiprijanovska; Aleksandar Dimovski; Gorazd Rosoklija; Andrew J. Dwork
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Comparison of path-based centrality measures in protein-protein interaction networks revealed proteins with phenotypic relevance during adaptation to changing nitrogen environments J. Proteomics (IF 3.509) Pub Date : 2021-01-14 Max Gilbert; Zhi Li; Xu Na Wu; Leander Rohr; Sven Gombos; Klaus Harter; Waltraud X. Schulze
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FPTMS: Frequency-based approach to identify the peptide from the low-energy collision-induced dissociation tandem mass spectra J. Proteomics (IF 3.509) Pub Date : 2021-01-13 Sangeetha Ramachandran; Tessamma Thomas
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Tissue-specific proteome characterization of avocado seed during postharvest shelf life J. Proteomics (IF 3.509) Pub Date : 2021-01-13 Janet Juarez-Escobar; José A. Guerrero-Analco; Jesús Alejandro Zamora-Briseño; José M. Elizalde-Contreras; Mirna V. Bautista-Valle; Esaú Bojórquez-Velázquez; Víctor M. Loyola-Vargas; Martín Mata-Rosas; Eliel Ruíz-May
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Proteomic analysis of aqueous humor in patients with pathologic myopia J. Proteomics (IF 3.509) Pub Date : 2020-12-26 Min Xue; Yifeng Ke; Xinjun Ren; Lei Zhou; Juping Liu; Xiaomin Zhang; Xianfeng Shao; Xiaorong Li
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Snake venom proteome of Protobothrops mucrosquamatus in Taiwan: Delaying venom-induced lethality in a rodent model by inhibition of phospholipase A2 activity with varespladib J. Proteomics (IF 3.509) Pub Date : 2020-12-25 Chien-Chun Liu; Cho-Ju Wu; Yung-Chin Hsiao; Ya-Han Yang; Kuei-Lin Liu; Guo-Jen Huang; Cheng-Hsien Hsieh; Chun-Kuei Chen; Geng-Wang Liaw
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Rapid glycosylation analysis of mouse serum glycoproteins separated by supported molecular matrix electrophoresis J. Proteomics (IF 3.509) Pub Date : 2021-01-06 Dongqi Liu; Gang Liu; Yuqing Li; Yue Wang; Yuanyuan Zheng; Shanshan Sha; Wenzhe Li; Akihiko Kameyama; Weijie Dong
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Application and optimization of label-free shotgun approaches in the study of Quercus ilex J. Proteomics (IF 3.509) Pub Date : 2021-01-05 Mónica Escandón; Jesús V. Jorrín-Novo; María Ángeles Castillejo
Advances in proteomic equipment, algorithms and wet protocols are being increasingly reported. Each step in the experimental workflow must be adapted and optimized to the target experimental system and objectives. The influence of the amount of peptides loaded onto the column in shotgun platforms has rarely been considered to date even though it dictates the confidence with which proteins can be identified
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N-terminomics – its past and recent advancements J. Proteomics (IF 3.509) Pub Date : 2020-12-25 Prashant Kaushal; Cheolju Lee
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Screening and characterization of a novel Antibiofilm polypeptide derived from filamentous Fungi J. Proteomics (IF 3.509) Pub Date : 2020-12-09 Ayşenur Yazici; Serkan Örtücü; Mesut Taşkin
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Testing the efficacy and comparability of ZooMS protocols on archaeological bone J. Proteomics (IF 3.509) Pub Date : 2020-12-15 Wang Naihui; Brown Samantha; Ditchfield Peter; Hebestreit Sandra; Kozilikin Maxim; Luu Sindy; Wedage Oshan; Grimaldi Stefano; Chazan Michael; Horwitz Kolska Liora; Spriggs Matthew; Summerhayes Glenn; Shunkov Michael; Richter Korzow Kristine; Douka Katerina
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FAIMS-MS might contribute to phosphopeptides identification in plasma J. Proteomics (IF 3.509) Pub Date : 2021-01-04 V. Besada; Y. Ramos; L.A. Espinosa; W. Fu; Y. Perera; L.J. González
FAIMS interface is gaining popularity because of the impressive 100-fold signal to noise enhancement in addition to the recent coupling to the Orbitrap technology, the most important analyzer developed in the last 20 years. The selection of group of ions and effective removal of single-charged ones at particular compensation voltages increases around 50% the proteome coverage at expenses of lower peptides
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Proteogenomic insight into the basis of the insecticide tolerance/resistance of the pollen beetle Brassicogethes (Meligethes) aeneus J. Proteomics (IF 3.509) Pub Date : 2020-12-27 Frantisek Kocourek; Jitka Stara; Bruno Sopko; Pavel Talacko; Karel Harant; Tomas Hovorka; Tomas Erban
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Integrated physiological and chloroplast proteome analysis of wheat seedling leaves under salt and osmotic stresses J. Proteomics (IF 3.509) Pub Date : 2021-01-02 Dong Zhu; Fei Luo; Rong Zou; Junxian Liu; Yueming Yan
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GeLC-Orbitrap/MS and 2-DE-MALDI-TOF/TOF comparative proteomics analysis of seed cotyledons from the non-orthodox Quercus ilex tree species J. Proteomics (IF 3.509) Pub Date : 2020-12-25 Besma Sghaier-Hammami; María Ángeles Castillejo; Narjes Baazaoui; Jesús V. Jorrín-Novo; Mónica Escandón
Gel electrophoresis-based and shotgun approaches are the most employed proteomic platforms in plant biology research, with the latter replacing the former in the last years. We have compared 2-DE-MALDI-TOF/TOF and GeLC-Orbitrap/MS analyses using the same protein extracts from Quercus ilex cotyledons at different development stages. The results obtained (ProteomeXchange available data, PXD020603) showed
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Proteome analysis of rainbow trout (Oncorhynchus mykiss) liver responses to chronic heat stress using DIA/SWATH J. Proteomics (IF 3.509) Pub Date : 2020-12-17 Jinqiang Quan; Yujun Kang; Lanlan Li; Guiyan Zhao; Jun Sun; Zhe Liu
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Identification of the interactomes associated with SCD6 and RBP42 proteins in Leishmania braziliensis J. Proteomics (IF 3.509) Pub Date : 2020-12-06 Paola A. Nocua; José M. Requena; Concepción J. Puerta
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Mass spectrometry-based proteomic exploration of the small urinary extracellular vesicles in ANCA-associated vasculitis in comparison with total urine J. Proteomics (IF 3.509) Pub Date : 2020-12-09 Petr Prikryl; Veronika Satrapova; Jana Frydlova; Zdenka Hruskova; Tomas Zima; Vladimir Tesar; Martin Vokurka
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Comparative metabolomics analysis of pigmentary and structural coloration in discus fish (Symphysodon haraldi) J. Proteomics (IF 3.509) Pub Date : 2020-12-27 Bo-Tian Yang; Bin Wen; Yu Ji; Qin Wang; Hao-Ran Zhang; Yuan Zhang; Jian-Zhong Gao; Zai-Zhong Chen
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Conus venom fractions inhibit the adhesion of Plasmodium falciparum erythrocyte membrane protein 1 domains to the host vascular receptors J. Proteomics (IF 3.509) Pub Date : 2020-12-26 Alberto Padilla; Sanaz Dovell; Olga Chesnokov; Mickelene Hoggard; Andrew V. Oleinikov; Frank Marí
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IL-4 absence triggers distinct pathways in apical periodontitis development J. Proteomics (IF 3.509) Pub Date : 2020-12-15 Mirna S. Freire; Nelson G. Oliveira; Stella M.F. Lima; William F. Porto; Danilo C.M. Martins; Osmar N. Silva; Sacha B. Chaves; Marcelo V. Sousa; Carlos A.O. Ricart; Mariana S. Castro; Wagner Fontes; Octavio L. Franco; Taia M.B. Rezende
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Combined ultraviolet and darkness regulation of medicinal metabolites in Mahonia bealei revealed by proteomics and metabolomics J. Proteomics (IF 3.509) Pub Date : 2020-12-24 Wei Zhu; Haote Han; Amin Liu; Qijie Guan; Jianing Kang; Lisa David; Craig Dufresne; Sixue Chen; Jingkui Tian
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Feasibility of phosphoproteomics to uncover oncogenic signalling in secreted extracellular vesicles using glioblastoma-EGFRVIII cells as a model J. Proteomics (IF 3.509) Pub Date : 2020-12-08 Irene V. Bijnsdorp; Tim Schelfhorst; Mark Luinenburg; Frank Rolfs; Sander R. Piersma; Richard R. de Haas; Thang V. Pham; Connie R. Jimenez
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Litopenaeus vannamei Notch interacts with COP9 signalosome complex subunit 1 (CNS1) to negatively regulate the NF-κB pathway J. Proteomics (IF 3.509) Pub Date : 2020-12-10 Weiling Zhao; Zhihong Zheng; Jude Juventus Aweya; Fan Wang; Shengkang Li; Tran Ngoc Tuan; Defu Yao; Yueling Zhang
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Proteomic analysis of extracellular vesicles and conditioned medium from human adipose-derived stem/stromal cells and dermal fibroblasts J. Proteomics (IF 3.509) Pub Date : 2020-12-10 Stefania Niada; Chiara Giannasi; Cinzia Magagnotti; Annapaola Andolfo; Anna Teresa Brini
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Proteome and phosphoproteome characterization of liver in the postprandial state from diet-induced obese and lean mice J. Proteomics (IF 3.509) Pub Date : 2020-12-10 Alyssa S. Zembroski; Kimberly K. Buhman; Uma K. Aryal
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Community-based network analyses reveal emerging connectivity patterns of protein-protein interactions in murine melanoma secretome J. Proteomics (IF 3.509) Pub Date : 2020-12-01 Rodrigo Francisquini; Rafael Berton; Sandro Gomes Soares; Dayelle S. Pessotti; Maurício F. Camacho; Débora Andrade-Silva; Uilla Barcick; Solange M.T. Serrano; Roger Chammas; Mariá C.V. Nascimento; André Zelanis
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Bottom up proteomics identifies neuronal differentiation pathway networks activated by cathepsin inhibition treatment in neuroblastoma cells that are enhanced by concurrent 13-cis retinoic acid treatment J. Proteomics (IF 3.509) Pub Date : 2020-12-02 Effie G. Halakos; Andrew J. Connell; Lisa Glazewski; Shuo Wei; Robert W. Mason
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Distinct gut microbiota and metabolite profiles induced by delivery mode in healthy Chinese infants J. Proteomics (IF 3.509) Pub Date : 2020-12-08 Na Li; Shengnan Liang; Qingxue Chen; Lina Zhao; Bailiang Li; Guicheng Huo
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Species and tissue specific analysis based on quantitative proteomics from allotetraploid and the parents J. Proteomics (IF 3.509) Pub Date : 2020-12-10 Xiaoping Dong; Yujie Yan; Ping Chen; Chun Zhang; Li Ren; Yude Wang; Junting Wang; Yong Zeng; Shaojun Liu
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Quantitative analysis of proteins secreted by Leishmania (Viannia) braziliensis strains associated to distinct clinical manifestations of American Tegumentary Leishmaniasis J. Proteomics (IF 3.509) Pub Date : 2020-12-10 Andrés Rodríguez-Vega; Monica Losada-Barragán; Luiz Ricardo Berbert; Camila Mesquita-Rodrigues; Ana Cristina Souza Bombaça; Rubem Menna-Barreto; Priscila Aquino; Paulo C. Carvalho; Gabriel Padrón; Jose Batista de Jesus; Patricia Cuervo
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The metabolic pathways of polyhydroxyalkanoates and exopolysaccharides synthesized by Haloferax mediterranei in response to elevated salinity J. Proteomics (IF 3.509) Pub Date : 2020-12-01 Amanda Pacholak; Ze-Liang Gao; Xiao-Yu Gong; Ewa Kaczorek; You-Wei Cui
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Deep learning embedder method and tool for mass spectra similarity search J. Proteomics (IF 3.509) Pub Date : 2020-12-08 Chunyuan Qin; Xiyang Luo; Chuan Deng; Kunxian Shu; Weimin Zhu; Johannes Griss; Henning Hermjakob; Mingze Bai; Yasset Perez-Riverol
Spectral similarity calculation is widely used in protein identification tools and mass spectra clustering algorithms while comparing theoretical or experimental spectra. The performance of the spectral similarity calculation plays an important role in these tools and algorithms especially in the analysis of large-scale datasets. Recently, deep learning methods have been proposed to improve the performance
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Understanding of the postgerminative development response to salinity and drought stresses in cucumber seeds by integrated proteomics and transcriptomics analysis J. Proteomics (IF 3.509) Pub Date : 2020-12-01 Changxia Du; Hao Li; Chen Liu; Huaifu Fan
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Proteomic analysis reveals the effects of melatonin on soybean root tips under flooding stress J. Proteomics (IF 3.509) Pub Date : 2020-12-01 Xin Wang; Fang Li; Zhenyuan Chen; Bingxian Yang; Setsuko Komatsu; Shunli Zhou
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Saliva-omics in plasma cell disorders- Proof of concept and potential as a non-invasive tool for monitoring disease burden J. Proteomics (IF 3.509) Pub Date : 2020-10-14 Ciara Tierney; Despina Bazou; Giao Lê; Paul Dowling; Peter O'Gorman
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Comparison of different variant sequence types coupled with decoy generation methods used in concatenated target-decoy database searches for proteogenomic research J. Proteomics (IF 3.509) Pub Date : 2020-10-24 Wai-Kok Choong; Ting-Yi Sung
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Analysis of DCM associated protein alterations of human right and left ventricles J. Proteomics (IF 3.509) Pub Date : 2020-10-17 Sabine Ameling; Julia Bischof; Marcus Dörr; Stephanie Könemann; Klaus Empen; Kerstin Weitmann; Karin Klingel; Daniel Beug; Vishnu Mukund Dhople; Uwe Völker; Elke Hammer; Stephan B. Felix
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Comparative proteomic analysis of oil palm (Elaeis guineensis Jacq.) during early fruit development J. Proteomics (IF 3.509) Pub Date : 2020-11-29 Sau-Yee Kok; Parameswari Namasivayam; Gwendoline Cheng-Lian Ee; Meilina Ong-Abdullah
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Protein sequence comparison of human and non-human primate tooth proteomes J. Proteomics (IF 3.509) Pub Date : 2020-11-13 Carine Froment; Clément Zanolli; Mathilde Hourset; Emmanuelle Mouton-Barbosa; Andreia Moreira; Odile Burlet-Schiltz; Catherine Mollereau
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Multiple-parallel-protease digestion coupled with high-resolution mass spectrometry: An approach towards comprehensive peptide mapping of therapeutic mAbs J. Proteomics (IF 3.509) Pub Date : 2020-11-22 Gauri Pradhan; M. Sneha; Babasaheb P. Sonwane; B. Santhakumari; Alka Rao; Mahesh J. Kulkarni
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Proteomic analysis of SUMO1-SUMOylome changes during defense elicitation in Arabidopsis J. Proteomics (IF 3.509) Pub Date : 2020-11-22 Kishor D. Ingole; Shraddha K. Dahale; Saikat Bhattacharjee
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Transcriptome assisted label free proteomics of hepatic tissue in response to both dietary restriction and compensatory growth in cattle J. Proteomics (IF 3.509) Pub Date : 2020-11-18 Yvonne Mullins; Kate Keogh; Gordon Blackshields; David A. Kenny; Alan K. Kelly; Sinéad M. Waters
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Proteomic alterations in the plasma of Beagle dogs induced by Toxocara canis infection J. Proteomics (IF 3.509) Pub Date : 2020-11-17 Wen-Bin Zheng; Yang Zou; Jun-Jun He; Guo-Hua Liu; Min-Hua Hu; Xing-Quan Zhu
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Evaluating the impact of methionine-enriched diets in the liver of European seabass through label-free shotgun proteomics J. Proteomics (IF 3.509) Pub Date : 2020-11-17 Ana Paula Farinha; Denise Schrama; Tomé Silva; Luís E.C. Conceição; Rita Colen; Sofia Engrola; Pedro Rodrigues; Marco Cerqueira
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Differential responses of the antennal proteome of male and female migratory locusts to infection by a fungal pathogen J. Proteomics (IF 3.509) Pub Date : 2020-11-17 Renwen Zheng; Yuxian Xia; Nemat O. Keyhani
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Transcriptomic and proteomic responses to brown plant hopper (Nilaparvata lugens) in cultivated and Bt-transgenic rice (Oryza sativa) and wild rice (O. rufipogon) J. Proteomics (IF 3.509) Pub Date : 2020-11-17 Yongbo Liu; Weiqing Wang; Yonghua Li; Fang Liu; Weijuan Han; Junsheng Li
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The effects of sample handling on proteomics assessed by reverse phase protein arrays (RPPA): Functional proteomic profiling in leukemia J. Proteomics (IF 3.509) Pub Date : 2020-11-16 Terzah M. Horton; Fieke W. Hoff; Anneke van Dijk; Gaye N. Jenkins; Debra Morrison; Teena Bhatla; Laura Hogan; Eleny Romanos-Sirakis; Julia Meyer; William L. Carroll; Yihua Qiu; Tao Wang; Qianxing Mo; Steven M. Kornblau
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Untangling the fibre ball: Proteomic characterization of South American camelid hair fibres by untargeted multivariate analysis and molecular networking J. Proteomics (IF 3.509) Pub Date : 2020-11-03 Clara Azémard; Elise Dufour; Antoine Zazzo; Jane C. Wheeler; Nicolas Goepfert; Arul Marie; Séverine Zirah
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A versatile and user-friendly approach for the analysis of proteins in ancient and historical objects J. Proteomics (IF 3.509) Pub Date : 2020-11-02 Georgia Ntasi; Daniel P. Kirby; Ilaria Stanzione; Andrea Carpentieri; Patrizia Somma; Paola Cicatiello; Gennaro Marino; Paola Giardina; Leila Birolo
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TMT-based quantitative proteomic analysis of hepatic tissue reveals the effects of dietary cyanidin-3-diglucoside-5-glucoside-rich extract on alleviating D-galactose-induced aging in mice J. Proteomics (IF 3.509) Pub Date : 2020-11-06 Nan Zhang; Zhentao Zhang; Wei Xu; Pu Jing
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Lysine-specific acetylated proteome from the archaeon Thermococcus gammatolerans reveals the presence of acetylated histones J. Proteomics (IF 3.509) Pub Date : 2020-11-06 Béatrice Alpha-Bazin; Aurore Gorlas; Arnaud Lagorce; Damien Joulié; Jean-Baptiste Boyer; Murielle Dutertre; Jean-Charles Gaillard; Anne Lopes; Yvan Zivanovic; Alain Dedieu; Fabrice Confalonieri; Jean Armengaud
Thermococcus gammatolerans EJ3 is an extremophile archaeon which was revealed as one of the most radioresistant organisms known on Earth, withstanding up to 30 kGy gamma-ray radiations. While its theoretical proteome is rather small, T. gammatolerans may enhance its toolbox by post-translational modification of its proteins. Here, we explored its extent of Nε-acetylation of lysines. For this, we immunopurified
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The mitochondrial isoform glutathione peroxidase 3 (OsGPX3) is involved in ABA responses in rice plants J. Proteomics (IF 3.509) Pub Date : 2020-11-05 Ana Luiza S. Paiva; Gisele Passaia; Douglas Jardim-Messeder; Fábio C.S. Nogueira; Gilberto B. Domont; Márcia Margis-Pinheiro
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SWATH-MS based quantitative proteomics analysis to evaluate the antileishmanial effect of Commiphora wightii- Guggul and amphotericin B on a clinical isolate of Leishmania donovani J. Proteomics (IF 3.509) Pub Date : 2020-11-05 Chinmayee Bar Routaray; Renuka Bhor; Shakuntala Bai; Nitin Suryakant Kadam; Surabhi Jagtap; Pooja Jignesh Doshi; Shyam Sundar; Sangeeta Sawant; Mahesh J. Kulkarni; Kalpana Pai
Drug resistance and relapse after treatment of visceral leishmaniasis (VL) with the chemotherapeutic drugs has impeded the VL elimination programme especially, in the endemic region of Bihar, India. Currently, Antimonials (Sbv) have been rendered obsolete (Bihar) as frequent treatment failure and relapse in Sbv treated patient's warrants greater vigilance and attention to the limited drugs. A clinical
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Integrating proteomic, lipidomic and metabolomic data to construct a global metabolic network of lethal ventricular tachyarrhythmias (LVTA) induced by aconitine J. Proteomics (IF 3.509) Pub Date : 2020-11-05 Dezhi Xie; Jiayan Wu; Qian Wu; Xiaojun Zhang; Danya Zhou; Wentao Dai; Mengting Zhu; Dian Wang
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On the standardization of ZooMS nomenclature J. Proteomics (IF 3.509) Pub Date : 2020-11-05 Samantha Brown; Katerina Douka; Matthew Collins; Kristine Korzow Richter
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The Secretome landscape of Escherichia coli O157:H7: Deciphering the cell-surface, outer membrane vesicle and extracellular subproteomes J. Proteomics (IF 3.509) Pub Date : 2020-11-04 Ricardo Monteiro; Ingrid Chafsey; Valentin Ageorges; Sabine Leroy; Christophe Chambon; Michel Hébraud; Valérie Livrelli; Mariagrazia Pizza; Alfredo Pezzicoli; Mickaël Desvaux