3,342 results match your criteria Journal of proteomics[Journal]


The olfactory bulb proteotype differs across frontotemporal dementia spectrum.

J Proteomics 2019 Apr 15. Epub 2019 Apr 15.

Clinical Neuroproteomics Unit, Navarrabiomed, Complejo Hospitalario de Navarra (CHN), Universidad Pública de Navarra (UPNA), Irunlarrea, 3, 31008 Pamplona, Spain; Proteored-ISCIII, Proteomics Unit, Navarrabiomed, Complejo Hospitalario de Navarra (CHN), Universidad Pública de Navarra (UPNA), Irunlarrea 3, 31008 Pamplona, Spain; IdiSNA, Navarra Institute for Health Research, Pamplona, Spain, Irunlarrea 3, 31008 Pamplona, Spain. Electronic address:

Mild olfactory dysfunction has been observed in frontotemporal dementias (FTD). However, the underlying molecular mechanisms associated to this deficit are poorly understood. We applied quantitative proteomics to analyze pathological effects on the olfactory bulb (OB) from progressive supranuclear palsy (PSP) and frontotemporal lobar degeneration (FTLD-TDP43) subjects respect to elderly non-FTD group. Read More

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https://linkinghub.elsevier.com/retrieve/pii/S18743919193011
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http://dx.doi.org/10.1016/j.jprot.2019.04.011DOI Listing
April 2019
1 Read

Analysis of Litopenaeus vannamei hemocyanin interacting proteins reveals its role in in hemolymph clotting.

J Proteomics 2019 Apr 13. Epub 2019 Apr 13.

Department of Biology, Guangdong Provincial Key Laboratory of Marine Biotechnology, Shantou University, Shantou 515063, China; STU-UMT Joint Shellfish Research Laboratory, Shantou University, Shantou 515063, China. Electronic address:

Hemocyanin is the main component of hemolymph plasma proteins and possesses diverse immunological properties and immunomodulatory functions. However, the interacting networks of hemocyanin in shrimp immune response remain poorly understood. In this study, 39 potential hemocyanin interacting partners were identified from Litopenaeus vannamei plasma by co-immunoprecipitation (Co-IP) and liquid chromatography-tandem mass spectrometry (LC-MS/MS) analysis. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.04.013DOI Listing

Comparative proteomic analysis of saliva from dogs with and without obesity-related metabolic dysfuntion.

J Proteomics 2019 Apr 13. Epub 2019 Apr 13.

Interlab-UMU, Regional Campus of International Excellence Campus Mare Nostrum, University of Murcia, Murcia 30100, Spain. Electronic address:

Dogs develop only some of the components of the human metabolic syndrome (MetS). Thus, in order to study possible MetS-related alterations in dogs, human MetS criteria were adapted to define canine MetS or so-called obesity-related metabolic dysfunction (ORMD). The main objective of this study was to identify changes in the salivary proteome of obese dogs with ORMD in comparison with obese dogs without ORMD which may constitute potential salivary biomarkers for assessing ORMD. Read More

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https://linkinghub.elsevier.com/retrieve/pii/S18743919193011
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http://dx.doi.org/10.1016/j.jprot.2019.04.010DOI Listing
April 2019
1 Read

Proteomic manifestations of genetic defects in autosomal recessive congenital ichthyosis.

J Proteomics 2019 Apr 9. Epub 2019 Apr 9.

Department of Environmental Toxicology, University of California, Davis, CA, United States of America. Electronic address:

Numerous genetic conditions give rise to a scaly skin phenotype as a result of impaired barrier function. Present work investigates the degree to which the departure from normal of ichthyosis corneocytes on the skin surface depends upon the basic defect as judged by proteomic profiling. Analyzing autosomal recessive congenital ichthyosis arising from defects in the genes PNPLA1, SDR9C7 and TGM1 revealed that profiles of PNPLA1 samples displayed the greatest degree of departure from normal control epidermis, with SDR9C7 samples nearly as divergent, and TGM1 the least divergent. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.04.007DOI Listing
April 2019
5 Reads

Proteome profiling of L3 and L4 Anisakis simplex development stages by TMT-based quantitative proteomics.

J Proteomics 2019 Apr 9;201:1-11. Epub 2019 Apr 9.

Spanish National Research Council (CSIC), Marine Research Institute (IIM), Department of Food Technology, Vigo, Pontevedra, Spain. Electronic address:

Anisakis simplex is a parasitic nematode that can cause anisakiosis and/or allergic reactions in humans. The presence of invasive third-stage larvae (L3) in many different consumed fish species and the fourth-stage larvae (L4) in marine mammals, where L3 can accidentally affect to humans and develop as far as stage L4. World Health Organization and food safety authorities aim to control and prevent this emerging health problem. Read More

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https://linkinghub.elsevier.com/retrieve/pii/S18743919193011
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http://dx.doi.org/10.1016/j.jprot.2019.04.006DOI Listing
April 2019
7 Reads

Plasma metabolomics in early Alzheimer's disease patients diagnosed with amyloid biomarker.

J Proteomics 2019 Apr 9;200:144-152. Epub 2019 Apr 9.

Neonatal Research Unit, Health Research Institute La Fe, Valencia, Spain. Electronic address:

An untargeted metabolomics study has been carried out using plasma samples from patients with Mild Cognitive Impairment due to Alzheimer's disease patients (MCI-AD, n = 29) and healthy people (n = 29)). They have been classified following the National Institute on Aging and Alzheimer's Association (NIA-AA) recommendations and cerebrospinal fluid biomarkers. The analytical method was based on liquid chromatography coupled to high resolution mass spectrometry. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.04.008DOI Listing
April 2019
4 Reads

Molecular characterization of B-cell epitopes for the major fish allergen, parvalbumin, by shotgun proteomics, protein-based bioinformatics and IgE-reactive approaches.

J Proteomics 2019 Apr 8;200:123-133. Epub 2019 Apr 8.

Spanish National Research Council (CSIC), Marine Research Institute (IIM), Food Technology, Vigo, Pontevedra, Spain.

Parvalbumins beta (β-PRVBs) are the main fish allergens. The only proven and effective treatment for this type of hypersensitivity is to consume a diet free of fish. We present the molecular characterization of B-cell epitopes by shotgun proteomics of different β-PRVBs combined with protein-based bioinformatics and IgE-reactive approaches. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.04.005DOI Listing
April 2019
4 Reads

iTRAQ-based quantitative proteomic analysis of Takifugu fasciatus liver in response to low-temperature stress.

J Proteomics 2019 Apr 5;201:27-36. Epub 2019 Apr 5.

College of Life Sciences, College of Marine Science and Engineering, Nanjing Normal University, Nanjing 210023, China; Co-Innovation Center for Marine Bio-Industry Technology of Jiangsu Province, Lianyungang, Jiangsu 222005, China. Electronic address:

Low temperatures profoundly influence the physiological and behavioural processes of ectotherms, especially teleosts, which have made them the subjects of strong interest over time. However, the characteristics of fish cold-tolerance at the protein level remain unclear. Therefore, to shed further light on the molecular mechanisms of low temperature adaptation in fish, we conducted quantitative proteomics on the T. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.04.004DOI Listing
April 2019
3 Reads
3.888 Impact Factor

Investigation of the estuarine stonefish (Synanceia horrida) venom composition.

J Proteomics 2019 Apr 4;201:12-26. Epub 2019 Apr 4.

Institute for Molecular Bioscience, The University of Queensland, St Lucia, Queensland, 4072, Australia. Electronic address:

The Estuarine stonefish (Synanceia horrida) is recognised as one of the most venomous fish species in the world but the overall venom composition has yet to be investigated using in-depth transcriptomic and proteomic methods. To date, known venom components are restricted to a hyaluronidase and a large, pore-forming toxin known as Stonustoxin (SNTX). Transcriptomic sequencing of the venom gland resulted in over 170,000 contigs with only 0. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.04.002DOI Listing
April 2019
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Proteome profiling of carbapenem-resistant K. pneumoniae clinical isolate (NDM-4): Exploring the mechanism of resistance and potential drug targets.

J Proteomics 2019 Apr 3;200:102-110. Epub 2019 Apr 3.

Interdisciplinary Biotechnology Unit, Aligarh Muslim University, Aligarh, India. Electronic address:

The emergence of carbapenem resistance has become a major problem worldwide. This has made treatment of K. pneumoniae infections a difficult task. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.04.003DOI Listing
April 2019
4 Reads
3.888 Impact Factor

Metabolic disorder of amino acids, fatty acids and purines reflects the decreases in oocyte quality and potential in sows.

J Proteomics 2019 Apr 3;200:134-143. Epub 2019 Apr 3.

State Key Laboratory of Animal Nutrition, China Agricultural University, Beijing 100193, PR China; Beijing Biofeed Additive Key Laboratory, China Agricultural University, Beijing 100193, PR China.

Oocyte quality is closely related to female fertility. Nevertheless, core nutritional metabolites influencing oocyte quality are unclear. Herein, comprehensive metabolomics analysis of follicular fluid, serum, and urine from low reproductive performance (LRP) and normal reproductive performance (NRP) sows was conducted. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.03.015DOI Listing
April 2019
1 Read

Sex-specific differences in the intracellular proteome of human endothelial cells from dizygotic twins.

J Proteomics 2019 Apr 2. Epub 2019 Apr 2.

Charité - Universitätsmedizin Berlin, corporate member of Freie Universität Berlin, Humboldt-Universität zu Berlin, Berlin Institute of Health, Medizinische Klinik für Kardiologie und Angiologie, Campus Mitte, Berlin, Germany; DZHK (German Centre for Cardiovascular Research), partner site Berlin, Germany.

Differences between men and women are being continuously identified in many human diseases. The underlying reasons are not yet fully understood. Beside the influence of endogenous hormones and life style, intrinsic sex-specific dimorphisms at the cellular level may also play a role. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.03.016DOI Listing
April 2019
3 Reads

ANXA2 and FLNA phosphorylation associate with poor prognosis in hepatic carcinoma revealed by quantitative phosphoproteomics analysis.

J Proteomics 2019 Apr 2;200:111-122. Epub 2019 Apr 2.

The School of Basic Medical Sciences, Fujian Medical University, Fuzhou 350004, People's Republic of China. Electronic address:

Hepatoma is one of the most common malignant tumors, and most patients have very poor prognosis. Early prediction and intervention of the hepatoma recurrence/metastasis are the most effective way to improve the patients' clinical outcomes. Here, we used isobaric tags for relative and absolute quantitation (iTRAQ) based quantitative phospho-proteomics approach to identify biomarkers associated with hepatoma recurrence/metastasis in hepatoma cell lines with increasing metastasis ability. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.03.017DOI Listing
April 2019
3 Reads

New insights into the phylogeographic distribution of the 3FTx/PLA venom dichotomy across genus Micrurus in South America.

J Proteomics 2019 Apr 1;200:90-101. Epub 2019 Apr 1.

Evolutionary and Translational Venomics Laboratory, CSIC, Valencia, Spain. Electronic address:

Micrurus is a monophyletic genus of venomous coral snakes of the family Elapidae. The ~80 recognized species within this genus are endemic to the Americas, and are distributed from southeastern United States to northern Argentina. Although relatively few bites are recorded due to their reclusive nature, semi-fossorial habits, and their occurrence in sparsely populated areas, coral snakes possess powerful venoms that target the cholinergic system and, if early treatment is missed, can cause neuromuscular paralysis, respiratory failure, and death by asphyxiation within hours of envenoming. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.03.014DOI Listing
April 2019
3 Reads

In-depth proteomic analysis of Boleophthalmus pectinirostris skin mucus.

J Proteomics 2019 Mar 25;200:74-89. Epub 2019 Mar 25.

Laboratory of Marine Biology Protein Engineering, Marine Science and Technical College, Zhejiang Ocean University, Zhoushan 316022, China. Electronic address:

Fish skin mucus serves as the first line of defence against pathogens and external stressors. The mudskipper Boleophthalmus pectinirostris inhabits intertidal mudflats containing abundant and diverse microbial populations; thus, the skin and mucus of B. pectinirostris are very important for immune defence. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.03.013DOI Listing
March 2019
3 Reads

Revisiting Polybia paulista wasp venom using shotgun proteomics - Insights into the N-linked glycosylated venom proteins.

J Proteomics 2019 Mar 21;200:60-73. Epub 2019 Mar 21.

Center of the Study of Social Insects, Department of Biology, Institute of Biosciences of Rio Claro, São Paulo State University, Rio Claro, SP 13500, Brazil. Electronic address:

The partial proteome of Polybia paulista wasp venom was previously reported elsewhere using a gel-dependent approach and resulted in the identification of a limited number of venom toxins. Here, we reinvestigated the P. paulista venom using a gel-free shotgun proteomic approach; the highly dynamic range of this approach facilitated the detection and identification of 1673 proteins, of which 23 venom proteins presented N-linked glycosylation as a posttranslational modification. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.03.012DOI Listing
March 2019
1 Read

Label-free proteomic analysis of silkworm midgut infected by Bombyx mori nuclear polyhedrosis virus.

J Proteomics 2019 Mar 20;200:40-50. Epub 2019 Mar 20.

Institute of Sericulture and System Biology, Southwest University, Chongqing 400716, China.

Bombyx mori nuclear polyhedrosis virus (BmNPV) is the most damaging virus for the production of silkworm cocoons. Antivirus research continues to be an important aspect of the silkworm industry. Two-dimensional electrophoresis and mass spectrometry have been applied for analyzing the midgut proteome of BmNPV-infected silkworms. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.03.011DOI Listing
March 2019
2 Reads
3.888 Impact Factor

Beef tenderness and intramuscular fat proteomic biomarkers: Effect of gender and rearing practices.

J Proteomics 2019 Mar 17;200:1-10. Epub 2019 Mar 17.

Université Clermont Auvergne, INRA, VetAgro Sup, UMR Herbivores, Saint-Genès-Champanelle, France.

This study analyzed the effect of gender on the abundances of 20 protein biomarkers of tenderness and/or intramuscular fat content in five muscles: Longissimus thoracis, previously identified as biomarkers of tenderness and/or intramuscular Semimembranosus, Rectus abdominis, Triceps brachii and Semitendinosus, from cows and steers of the Protected Designation Origin Maine Anjou. The protein abundances were quantified using Reverse Phase Protein Array with specific validated antibodies. Among the 20 studied proteins, the abundance of 8 biomarkers involved in energetic metabolism, contraction and cellular stress, was different according to gender. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.03.010DOI Listing
March 2019
1 Read

Comparative analysis of proteomic and metabolomic profiles of different species of Paris.

J Proteomics 2019 Mar 16;200:11-27. Epub 2019 Mar 16.

National Center of Biomedical Analysis, Beijing 100850, China.

An extract prepared from species of Paris is the most widely consumed herbal product in China. The genus Paris includes a variety of genotypes with different medicinal component contents but only two are defined as official sources. Closely related species have different medicinal properties because of differential expression of proteins and metabolites. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.02.003DOI Listing
March 2019
6 Reads

Label-free absolute protein quantification with data-independent acquisition.

J Proteomics 2019 Mar 14;200:51-59. Epub 2019 Mar 14.

Department of Clinical Pharmacy, University of Michigan, Ann Arbor, MI 48109, United States of America. Electronic address:

Despite data-independent acquisition (DIA) has been increasingly used for relative protein quantification, DIA-based label-free absolute quantification method has not been fully established. Here we present a novel DIA method using the TPA algorithm (DIA-TPA) for the absolute quantification of protein expressions in human liver microsomal and S9 samples. To validate this method, both data-dependent acquisition (DDA) and DIA experiments were conducted on 36 individual human liver microsome and S9 samples. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.03.005DOI Listing
March 2019
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In-depth profiles of bioactive large molecules in saliva secretions of leeches determined by combining salivary gland proteome and transcriptome data.

J Proteomics 2019 Mar 14. Epub 2019 Mar 14.

Key Laboratory of Subtropical Medicinal Edible Resources Development and Utilization in Yunnan Province, Department of Biology & Chemistry, Puer University, Puer, Yunnan 665000, China; Key Laboratory of Active Molecules and Drug Development, Puer University, Puer, Yunnan 665000, China; Institute of Comparative Study of Traditional Materia Medica, Institute of Integrative Medicine of Fudan University, Shanghai, China. Electronic address:

Medicinal leeches have been widely utilized in medical procedures for thousands of years. The application of leeches depends on the components of leech saliva secretions and active molecules, but many components of the secretions are not well characterized due to their low concentration and abundance. Determination of the profiles of leech salivary secretions is important to its medicinal application. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.03.009DOI Listing
March 2019
3 Reads

What if? Mouse proteomics after gene inactivation.

J Proteomics 2019 May 13;199:102-122. Epub 2019 Mar 13.

Dipartimento di Scienze Farmacologiche e Biomolecolari, Università degli Studi di Milano, Via Balzaretti 9, I-20133 Milano, Italy.

The complex interactions among proteins and of proteins with small molecular weight protein ligands are overturned every time one of the components of the network is missing. For study purposes, animal models lacking one protein are obtained by experimental manipulation of the genome: in the knocking out approach, a gene is altered through the insertion of an artificial DNA sequence, which halts the transcription-translation sequence of events. In this review we have compiled the research papers that analyze the effects of knocking out individual genes on the proteomes of various tissues/organs throughout the body. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.03.008DOI Listing
May 2019
3 Reads

Differential responses to stress of two Mycoplasma hyopneumoniae strains.

J Proteomics 2019 May 9;199:67-76. Epub 2019 Mar 9.

Laboratório de Genômica Estrutural e Funcional, Centro de Biotecnologia, Universidade Federal do Rio Grande do Sul, Avenida Bento Gonçalves, Porto Alegre, Rio Grande do Sul 9500, Brazil. Electronic address:

Mycoplasma hyopneumoniae is a respiratory pathogen, causing porcine enzootic pneumonia. To survive in the porcine respiratory tract, M. hyopneumoniae must cope with both oxidative and heat stress imposed by the host. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.03.006DOI Listing
May 2019
2 Reads

An inter-subunit protein-peptide interface that stabilizes the specific activity and oligomerization of the AAA+ chaperone Reptin.

J Proteomics 2019 May 9;199:89-101. Epub 2019 Mar 9.

University of Edinburgh, Institute of Quantitative Biology, Biochemistry and Biotechnology, Edinburgh, Scotland EH9 3BF, United Kingdom.

Reptin is a member of the AAA+ superfamily whose members can exist in equilibrium between monomeric apo forms and ligand bound hexamers. Inter-subunit protein-protein interfaces that stabilize Reptin in its oligomeric state are not well-defined. A self-peptide binding assay identified a protein-peptide interface mapping to an inter-subunit "rim" of the hexamer bridged by Tyrosine-340. Read More

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https://linkinghub.elsevier.com/retrieve/pii/S18743919193006
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http://dx.doi.org/10.1016/j.jprot.2019.02.012DOI Listing
May 2019
5 Reads

A comparative study of the proteome regulated by the Rpb4 and Rpb7 subunits of RNA polymerase II in fission yeast.

J Proteomics 2019 May 9;199:77-88. Epub 2019 Mar 9.

University School of Biotechnology, G.G.S. Indraprastha University, Sector16C, Dwarka, New Delhi 110078, India. Electronic address:

RNA polymerase II is a conserved multi-subunit enzyme made up of twelve different subunits. Two of these subunits, Rpb4 and Rpb7, have been shown to perform functions in both transcription as well as outside of transcription in Saccharomyces cerevisiae. However, our knowledge about the roles of these subunits in Schizosaccharomyces pombe and higher eukaryotes is still limited. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.03.007DOI Listing
May 2019
3 Reads

Analysis of durum wheat proteome changes under marine and fungal biostimulant treatments using large-scale quantitative proteomics: A useful dataset of durum wheat proteins.

J Proteomics 2019 Mar 9;200:28-39. Epub 2019 Mar 9.

Institut de Pharmacologie et de Biologie Structurale (IPBS), Université de Toulouse, CNRS, UPS, Toulouse, France. Electronic address:

Durum wheat requires high nitrogen inputs to obtain the high protein concentration necessary to satisfy pasta and semolina quality criteria. Optimizing plant nitrogen use efficiency is therefore of major importance for wheat grain quality. Here, we studied the impact on grain yield, protein concentration, and for the first time on protein composition of a marine (DPI4913) and a fungal (AF086) biostimulants applied to plant leaves. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.03.003DOI Listing

Explaining meat quality of bulls and steers by differential proteome and phosphoproteome analysis of skeletal muscle.

J Proteomics 2019 May 9;199:51-66. Epub 2019 Mar 9.

Department of Animal Science, Universidade Federal de Viçosa, Viçosa, MG, Brazil.

The objective of this study was to evaluate the differential proteome and phosphoproteome between bulls and steers during conversion of muscle to meat, as well as after 14 days of aging. Twelve male Nellore (Bos taurus indicus) calves were used, and six calves were randomly selected for surgical castration. Calves were fed the same diet and were harvested after 230 days on feed. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.03.004DOI Listing
May 2019
1 Read

Journal of Proteomics turns 10: Happy anniversary! and beyond.

Authors:
Juan J Calvete

J Proteomics 2019 Apr;198:iii

Evolutionary and Translational Venomics Laboratory, CSIC, Valencia, Spain.

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http://dx.doi.org/10.1016/j.jprot.2019.03.002DOI Listing

Corrigendum to "Proteomic characterization of outer membrane vesicles from gut mucosa-derived fusobacterium nucleatum". J Proteomics. 2019 Jan 8;195:125-137.

J Proteomics 2019 Mar 6. Epub 2019 Mar 6.

Department of Population Medicine and Diagnostic Sciences, College of Veterinary Medicine, Cornell University, Ithaca, NY 14853, United States. Electronic address:

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http://dx.doi.org/10.1016/j.jprot.2019.02.006DOI Listing

Transcriptomic and proteomic analyses reveal new insight into chlorophyll synthesis and chloroplast structure of maize leaves under zinc deficiency stress.

J Proteomics 2019 May 5;199:123-134. Epub 2019 Mar 5.

Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences/Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture and Rural Affairs/The Laboratory of Agricultural Products Quality and Safety Risk Assessment from Fertilizer Sources (Beijing), Ministry of Agriculture and Rural Affairs, Beijing 100081, China. Electronic address:

Zinc (Zn) deficiency reduces chlorophyll content and damages chloroplast structure in leaves. However, little is known about the responses of chlorophyll synthesis and chloroplast structure of plants to Zn deficiency stress at the transcriptomic and proteomic level. In the present study, maize seedlings of cultivar ZD958 were grown in nutrient solution with 0 and 1. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.03.001DOI Listing
May 2019
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Comparative bioinformatic and proteomic approaches to evaluate the outer membrane proteome of the fish pathogen Yersinia ruckeri.

J Proteomics 2019 May 1;199:135-147. Epub 2019 Mar 1.

Institute of Infection, Immunity and Inflammation, College of Medical, Veterinary and Life Sciences, Sir Graeme Davies Building, University of Glasgow, Glasgow G12 8TA, UK. Electronic address:

Yersinia ruckeri is the aetiological agent of enteric redmouth (ERM) disease and is responsible for significant economic losses in farmed salmonids. Enteric redmouth disease is associated primarily with rainbow trout (Oncorhynchus mykiss, Walbaum) but its incidence in Atlantic salmon (Salmo salar) is increasing. Outer membrane proteins (OMPs) of Gram-negative bacteria are located at the host-pathogen interface and play important roles in virulence. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.02.014DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6447952PMC

Unravelling calcium-alleviated aluminium toxicity in Arabidopsis thaliana: Insights into regulatory mechanisms using proteomics.

J Proteomics 2019 May 27;199:15-30. Epub 2019 Feb 27.

Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystem, College of the Environment and Ecology, Xiamen University, Xiamen, Fujian 361005, PR China. Electronic address:

Aluminium (Al) toxicity is a major limiting factor for plant productivity in acidic soils. Calcium (Ca) is an essential element and participates in various physiological responses to environmental stress. Here, the aim of this work was to study the role of exogenous Ca in alleviating Al toxicity in Arabidopsis thaliana. Read More

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https://linkinghub.elsevier.com/retrieve/pii/S18743919193006
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http://dx.doi.org/10.1016/j.jprot.2019.02.013DOI Listing
May 2019
3 Reads

Host cell interactome of PB1 N40 protein of H5N1 influenza A virus in chicken cells.

J Proteomics 2019 Apr 18;197:34-41. Epub 2019 Feb 18.

Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing, China; School of Life Science and Engineering, Foshan University, Foshan, China. Electronic address:

H5N1 influenza A virus (IAV) causes seasonal epidemics that represent a worldwide threat to public health. IAV relies on host factors for viral replication. PB1 N40 is translated from the fifth starting code (AUG) of PB1 mRNA, which is the product of the ribosomal scan omission. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.02.011DOI Listing
April 2019
2 Reads
3.888 Impact Factor

A protein identification algorithm for tandem mass spectrometry by incorporating the abundance of mRNA into a binomial probability scoring model.

J Proteomics 2019 Apr 18;197:53-59. Epub 2019 Feb 18.

Institute of Tropical Agriculture and Forestry, Hainan University, Haikou 570228, China. Electronic address:

Peptide-spectrum matches (PSM) scoring between the experimental and theoretical spectrum is a key step in the identification of proteins using mass spectrometry (MS)-based proteomics analyses. Efficient protein identification using MS/MS data remains a challenge. The strategy of using RNA-seq data increases the number of proteins identified by re-constructing the custom search database and integrating mRNA abundance into the false discovery rate of post-PSM. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.02.010DOI Listing
April 2019
1 Read

Network analysis of DUSP12 partners in the nucleus under genotoxic stress.

J Proteomics 2019 Apr 16;197:42-52. Epub 2019 Feb 16.

Department of Biochemistry, Institute of Chemistry, University of São Paulo, São Paulo, Brazil. Electronic address:

Dual Specificity Phosphatase 12 is a member of the Atypical DUSP Protein Tyrosine Phosphatase family, meaning that it does not contain typical MAP kinase targeting motifs, while being able to dephosphorylate tyrosine and serine/threonine residues. DUSP12 contains, apart from its catalytic domain, a zinc finger domain, making it one of the largest DUSPs, which displays strong nuclear expression in several tissues. In this work we identified nuclear targets of DUSP12 in two different cancer cell lines (A549 and MCF-7), challenging them with genotoxic stimuli to observe the effect on the networks and to link existing information about DUSP12 functions to the data obtained though mass spectrometry. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.02.008DOI Listing
April 2019
1 Read

Optimisation of protein extraction for in-depth profiling of the cereal grain proteome.

J Proteomics 2019 Apr 15;197:23-33. Epub 2019 Feb 15.

CSIRO Agriculture and Food, 306 Carmody Rd, St Lucia, QLD 4067, Australia. Electronic address:

Cereal grain proteomics can provide valuable information regarding plant growth, nutritional status, adaptation to environmental stresses, and the role that grain proteins play in health disorders, such as coeliac disease. In this study liquid chromatography-mass spectrometry was used to compare the barley proteome after extraction using seven protocols, with and without defatting and protein precipitation steps that aimed to remove interfering secondary metabolites. Tris-HCl and urea buffers yielded 1405 and 1483 proteins (~79% overlap) from barley (cv Sloop). Read More

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http://dx.doi.org/10.1016/j.jprot.2019.02.009DOI Listing
April 2019
3.888 Impact Factor

Quantitative label-free mass spectrometry using contralateral and adjacent breast tissues reveal differentially expressed proteins and their predicted impacts on pathways and cellular functions in breast cancer.

J Proteomics 2019 May 14;199:1-14. Epub 2019 Feb 14.

Genetics Department, Federal University of Parana, Curitiba, Brazil. Electronic address:

Proteins play an essential role in the biological processes associated with cancer. Their altered expression levels can deregulate critical cellular pathways and interactive networks. In this study, the mass spectrometry-based label-free quantification followed by functional annotation was performed to investigate the most significant deregulated proteins among tissues of primary breast tumor (PT) and axillary metastatic lymph node (LN) and corresponding non-tumor tissues contralateral (NCT) and adjacent (ANT) from patients diagnosed with invasive ductal carcinoma. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.02.007DOI Listing
May 2019
3 Reads

Progress in farm animal proteomics: The contribution of combinatorial peptide ligand libraries.

J Proteomics 2019 Apr 11;197:1-13. Epub 2019 Feb 11.

Politecnico di Milano, Department of Chemistry, Materials and Chemical Engineering "Giulio Natta", Via Mancinelli 7, Milano 20131, Italy.

The present review covers proteomics discoveries in farm animals using combinatorial peptide ligand libraries (CPLLs). These libraries enhance the identification of low-abundance proteins by compressing the dynamic range of the protein concentration. This technology can be applied in multiple biological fluids, such as plasma or serum, follicular and cerebrospinal fluids, urine, saliva, tears seminal fluid, milk whey and even lymph. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.02.005DOI Listing
April 2019
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Intact protein mass spectrometry reveals intraspecies variations in venom composition of a local population of Vipera kaznakovi in Northeastern Turkey.

J Proteomics 2019 May 11;199:31-50. Epub 2019 Feb 11.

Technische Universität Berlin, Institut für Chemie, Strasse des 17. Juni 124, 10623 Berlin, Germany. Electronic address:

We report on the variable venom composition of a population of the Caucasus viper (Vipera kaznakovi) in Northeastern Turkey. We applied a combination of venom gland transcriptomics, de-complexing bottom-up and top-down venomics. In contrast to sole bottom-up venomics approaches and gel or chromatography based venom comparison, our combined approach enables a faster and more detailed comparison of venom proteomes from multiple individuals. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.02.004DOI Listing
May 2019
3 Reads

Integrative analyses of myocardial lipidome and proteome implicate mitochondrial dysfunction in lethal ventricular tachyarrhythmia (LVTA) induced by acute myocardial ischemia (AMI).

J Proteomics 2019 Apr 4;197:14-22. Epub 2019 Feb 4.

Department of Forensic Medicine, Central laboratory, Shantou University Medical College, Shantou, 15041, China.. Electronic address:

Lethal ventricular tachyarrhythmia (LVTA) is the most prevalent electrophysiological event leading to sudden cardiac death (SCD). In this study, the myocardial lipidome and proteome were analysed in rats experiencing LVTA as a consequence of acute myocardial ischemia (AMI). Results showed that 257 lipid species and 814 myocardial proteins were disrupted during LVTA. Read More

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https://linkinghub.elsevier.com/retrieve/pii/S18743919193003
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http://dx.doi.org/10.1016/j.jprot.2019.01.021DOI Listing
April 2019
11 Reads

Comparative proteomics and metabolomics of JAZ7-mediated drought tolerance in Arabidopsis.

J Proteomics 2019 Mar 5;196:81-91. Epub 2019 Feb 5.

Key Laboratory of Molecular Biology of Heilongjiang Province, College of Life Science, Heilongjiang University, Harbin 150080, China; Department of Biology, Genetics Institute, Plant Molecular and Cellular Biology, University of Florida, Gainesville, FL, USA; Interdisciplinary Center for Biotechnology Research, University of Florida, Gainesville, FL, USA. Electronic address:

Jasmonates (JAs) are important phytohormones that regulate a wide range of plant processes, including growth, development and stress responses. Jasmonate ZIM-domain (JAZ) proteins are transcriptional repressors in JA signaling. Overexpression of JAZ7 was found to confer drought tolerance in Arabidopsis thaliana (A. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.02.001DOI Listing

iTRAQ-based analysis of leaf proteome identifies important proteins in secondary metabolite biosynthesis and defence pathways crucial to cross-protection against TMV.

J Proteomics 2019 Mar 3;196:42-56. Epub 2019 Feb 3.

Department of Biological Sciences, National University of Singapore (NUS), 14 Science Drive 4, Singapore 117543, Singapore; Temasek Life Sciences Laboratory, 1 Research Link, Singapore 117604, Singapore; National University of Singapore Suzhou Research Institute, Suzhou, Jiangsu 215123, China. Electronic address:

Cross-protection is a phenomenon in which infection with a mild virus strain protects host plants against subsequent infection with a closely related severe virus strain. This study showed that a mild strain mutant virus, Tobacco mosaic virus (TMV)-43A could cross protect Nicotiana benthamiana plants against wild-type TMV. Furthermore, we investigated the host responses at the proteome level to identify important host proteins involved in cross-protection. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.02.002DOI Listing
March 2019
5 Reads
3.888 Impact Factor

Mass spectrometry-based Shiga toxin identification: A clinical validation.

J Proteomics 2019 Apr 1;198:145-150. Epub 2019 Feb 1.

National Microbiology Laboratory, Public Health Agency of Canada, Winnipeg, Manitoba, Canada; Department of Human Anatomy and Cell Sciences, Faculty of Medicine, University of Manitoba, Winnipeg, Manitoba, Canada. Electronic address:

After we published our preliminary study on the use of liquid chromatography-tandem mass spectrometry (LC-MS/MS) and curated E. coli toxin databases on the identification of E. coli Shiga toxins (Stxs) in the Journal of Proteomics in year 2018, we were encouraged to further refine the method and test clinical isolates. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.01.020DOI Listing
April 2019
3 Reads

Proteome analysis of non-small cell lung cancer cell line secretomes and patient sputum reveals biofluid biomarker candidates for cisplatin response prediction.

J Proteomics 2019 Mar 30;196:106-119. Epub 2019 Jan 30.

Amsterdam UMC, Vrije Universiteit Amsterdam, Department of Medical Oncology, Cancer Center Amsterdam, 1081 HV Amsterdam, the Netherlands. Electronic address:

Molecular markers are urgently needed to select non-small cell lung cancer (NSCLC) patients most likely to benefit from platinum-based chemotherapies. Of particular interest are proteins that can be found in biofluids like sputum for non-invasive detection. Therefore, we profiled the secretomes of 6 NSCLC cell lines with varying IC50-values for cisplatin, using label-free GeLC-MS/MS-based proteomics. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.01.018DOI Listing

Univariate and classification analysis reveals potential diagnostic biomarkers for early stage ovarian cancer Type 1 and Type 2.

J Proteomics 2019 Mar 30;196:57-68. Epub 2019 Jan 30.

Department of Obstetrics and Gynecology, Institute of Clinical Sciences, Sahlgrenska Cancer Center, University of Gothenburg, Gothenburg, Sweden. Electronic address:

Biomarkers for early detection of ovarian tumors are urgently needed. Tumors of the ovary grow within cysts and most are benign. Surgical sampling is the only way to ensure accurate diagnosis, but often leads to morbidity and loss of female hormones. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.01.017DOI Listing
March 2019
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Molecular pathways of varicocele and its repair - A paired labelled shotgun proteomics approach.

J Proteomics 2019 Mar 30;196:22-32. Epub 2019 Jan 30.

Department of Surgery, Division of Urology, Human Reproduction Section, Universidade Federal de São Paulo, São Paulo, Brazil. Electronic address:

Varicocelectomy is associated to improved semen quality and sperm functional quality, but individual response is highly variable. Thus, a prospective study was performed including 25 men who collected a semen sample before and 12 months after subinguinal microsurgical varicocelectomy. Semen analysis, sperm functional analysis, and seminal plasma proteomic analysis was performed before and 12 months after varicocelectomy, and according to improvement or not of semen quality (positive and negative outcome). Read More

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https://linkinghub.elsevier.com/retrieve/pii/S18743919193002
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http://dx.doi.org/10.1016/j.jprot.2019.01.019DOI Listing
March 2019
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On the characterisation of the porcine gland-specific salivary proteome.

J Proteomics 2019 Mar 29;196:92-105. Epub 2019 Jan 29.

Laboratory of Applied Veterinary Morphology, Department of Veterinary Sciences, Faculty of Pharmaceutical, Biomedical and Veterinary Sciences, University of Antwerp, Universiteitsplein 1, 2610 Wilrijk, Belgium; Department of Morphology, Faculty of Veterinary Medicine, Ghent University, Salisburylaan 133, 9820 Merelbeke, Belgium. Electronic address:

To expand the knowledge on the porcine salivary proteome, secretions from the three major salivary glands were collected from anaesthetised piglets. Pilocarpine and isoproterenol were simultaneously injected intraperitoneally to increase the volume and protein concentration of the saliva, respectively. The protein composition and relative protein-specific abundance of saliva secreted by the parotid gland and by the mandibular and monostomatic sublingual gland, were determined using iTRAQ. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.01.016DOI Listing

Sensitive profiling of cell surface proteome by using an optimized biotinylation method.

J Proteomics 2019 Mar 29;196:33-41. Epub 2019 Jan 29.

CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences (CAS), Dalian 116023, China. Electronic address:

Cell surface proteins are responsible for many critical functions. Systematical profiling of these proteins would provide a unique molecular fingerprint to classify cells and provide important information to guide immunotherapy. Cell surface biotinylation method is one of the effective methods for cell surface proteome profiling. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.01.015DOI Listing
March 2019
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Platelet membrane lipid rafts protein composition varies following GPVI and CLEC-2 receptors activation.

J Proteomics 2019 Mar 22;195:88-97. Epub 2019 Jan 22.

Platelet Proteomics Group, Center for Research in Molecular Medicine and Chronic Diseases (CIMUS), Universidad de Santiago de Compostela, Instituto de Investigación Sanitaria (IDIS), Santiago de Compostela, Spain. Electronic address:

Lipid rafts are membrane microdomains that have been proposed to play an important role in several platelet-signalling cascades, including those mediated by the receptors Glycoprotein VI (GPVI), and C-type lectin domain family 1 member B (CLEC-2), both involved in thrombus formation. We have performed a LC-MS/MS proteomic analysis of lipid rafts isolated from platelets activated through GPVI and CLEC-2 as well as from resting platelets. Our aim was to determine the magnitude of changes in lipid rafts protein composition and to elucidate the relevance of these alterations in platelet function. Read More

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http://dx.doi.org/10.1016/j.jprot.2019.01.014DOI Listing
March 2019
8 Reads