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Journal of Proteomics

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https://www.readbyqxmd.com/read/28087451/in-depth-comparative-analysis-of-the-chicken-eggshell-membrane-proteome
#1
Tamer A E Ahmed, Henri-Pierre Suso, Maxwell T Hincke
: The avian eggshell membrane (ESM) is stabilized by extensive cross-linkages, making the identification of its protein constituents technically challenging. Herein, we applied various extraction/solubilization conditions followed by proteomic analysis to characterize the protein constituents of ESM derived from the unfertilized chicken eggs. The egg white and eggshell proteomes (including previous published work) were determined and compared to ESM to identify proteins that are relatively or highly specific to ESM...
January 10, 2017: Journal of Proteomics
https://www.readbyqxmd.com/read/28069559/proteomic-insights-into-mannan-degradation-and-protein-secretion-by-the-forest-floor-bacterium-chitinophaga-pinensis
#2
Johan Larsbrink, Tina R Tuveng, Phillip B Pope, Vincent Bulone, Vincent G H Eijsink, Harry Brumer, Lauren S McKee
: Together with fungi, saprophytic bacteria are central to the decomposition and recycling of biomass in forest environments. The Bacteroidetes phylum is abundant in diverse habitats, and several species have been shown to be able to deconstruct a wide variety of complex carbohydrates. The genus Chitinophaga is often enriched in hotspots of plant and microbial biomass degradation. We present a proteomic assessment of the ability of Chitinophaga pinensis to grow on and degrade mannan polysaccharides, using an agarose plate-based method of protein collection to minimise contamination with exopolysaccharides and proteins from lysed cells, and to reflect the realistic setting of growth on a solid surface...
January 6, 2017: Journal of Proteomics
https://www.readbyqxmd.com/read/28069558/from-genome-to-proteome-looking-beyond-dna-and-rna-in-chronic-lymphocytic-leukemia
#3
Lauren A Thurgood, Karen M Lower, Bryone J Kuss, Tim K Chataway
Chronic lymphocytic leukemia (CLL) remains the most common leukemia in the Western world. Whilst its disease course is extremely heterogeneous (ranging from indolent to aggressive), current methods are unable to accurately predict the clinical journey of each patient. There is clearly a pressing need for both improved prognostication and treatment options for patients with this disease.Whilst molecular studies have analyzed both genetic mutations and gene expression profiles of these malignant B-cells, and as a result have shed light on the pathogenesis of CLL, proteomic studies have been largely overlooked to date...
January 6, 2017: Journal of Proteomics
https://www.readbyqxmd.com/read/28063982/proteomic-analysis-of-lysine-succinylation-of-the-human-pathogen-histoplasma-capsulatum
#4
Longxiang Xie, Juan Li, Wanyan Deng, Zhaoxiao Yu, Wenjie Fang, Min Chen, Wanqing Liao, Jianping Xie, Weihua Pan
: Histoplasma capsulatum, the causative agent of histoplasmosis (also called "Darling's disease"), can affect both immunocompetent and immunocompromised hosts. Post-translational protein modification by lysine succinylation (Ksuc) is a frequent occurrence in eukaryote and prokaryote. Recently, the roles of succinylation and its regulatory enzymes in regulating metabolic pathway in bacteria, mammalian and fungus were highlighted. Here, we report the first global profiling of lysine succinylation, with 463 modification sites in 202 proteins from H...
January 4, 2017: Journal of Proteomics
https://www.readbyqxmd.com/read/28062377/proteomic-analysis-to-unravel-the-complex-venom-proteome-of-eastern-india-naja-naja-correlation-of-venom-composition-with-its-biochemical-and-pharmacological-properties
#5
Sumita Dutta, Abhishek Chanda, Bhargab Kalita, Taufikul Islam, Aparup Patra, Ashis K Mukherjee
: The complex venom proteome of the eastern India (EI) spectacled cobra (Naja naja) was analyzed using tandem mass spectrometry of cation-exchange venom fractions. About 75% of EI N. naja venom proteins were <18kDa and cationic at physiological pH of blood. SDS-PAGE (non-reduced) analysis indicated that in the native state venom proteins either interacted with each-other or self-aggregated resulting in the formation of higher molecular mass complexes. Proteomic analysis revealed that 43 enzymatic and non-enzymatic proteins in EI N...
January 4, 2017: Journal of Proteomics
https://www.readbyqxmd.com/read/28062376/a-biotin-enrichment-strategy-identifies-novel-carbonylated-amino-acids-in-proteins-from-human-plasma
#6
Jesper F Havelund, Katarzyna Wojdyla, Michael J Davies, Ole N Jensen, Ian Max Møller, Adelina Rogowska-Wrzesinska
: Protein carbonylation is an irreversible protein oxidation correlated with oxidative stress, various diseases and ageing. Here we describe a peptide-centric approach for identification and characterisation of up to 14 different types of carbonylated amino acids in proteins. The modified residues are derivatised with biotin-hydrazide, enriched and characterised by tandem mass spectrometry. The strength of the method lies in an improved elution of biotinylated peptides from monomeric avidin resin using hot water (95°C) and increased sensitivity achieved by reduction of analyte losses during sample preparation and chromatography...
January 3, 2017: Journal of Proteomics
https://www.readbyqxmd.com/read/28062375/casein-phosphopeptides-and-cacl2-increase-penicillin-production-and-cause-an-increment-in-microbody-peroxisome-proteins-in-penicillium-chrysogenum
#7
Rebeca Domínguez-Santos, Katarina Kosalková, Carlos García-Estrada, Carlos Barreiro, Ana Ibáñez, Alejandro Morales, Juan-Francisco Martín
: Transport of penicillin intermediates and penicillin secretion are still poorly characterized in Penicillium chrysogenum (re-identified as Penicillium rubens). Calcium (Ca(2+)) plays an important role in the metabolism of filamentous fungi, and casein phosphopeptides (CPP) are involved in Ca(2+) internalization. In this study we observe that the effect of CaCl2 and CPP is additive and promotes an increase in penicillin production of up to 10-12 fold. Combination of CaCl2 and CPP greatly promotes expression of the three penicillin biosynthetic genes...
January 3, 2017: Journal of Proteomics
https://www.readbyqxmd.com/read/28062374/proteomic-analysis-of-the-rett-syndrome-experimental-model-mecp2-q63x-mutant-zebrafish
#8
Alessio Cortelazzo, Thomas Pietri, Claudio De Felice, Silvia Leoncini, Roberto Guerranti, Cinzia Signorini, Anna Maria Timperio, Lello Zolla, Lucia Ciccoli, Joussef Hayek
: Rett syndrome (RTT) is a severe genetic disorder resulting from mutations in the X-linked methyl-CpG-binding protein 2 (MECP2) gene. Recently, a zebrafish carrying a mecp2-null mutation has been developed with the resulting phenotypes exhibiting defective sensory and thigmotactic responses, and abnormal motor behavior reminiscent of the human disease. Here, we performed a proteomic analysis to examine protein expression changes in mecp2-null vs. wild-type larvae and adult zebrafish...
January 3, 2017: Journal of Proteomics
https://www.readbyqxmd.com/read/28057602/formin-like-1-expression-is-increased-on-cd4-t-lymphocytes-in-spontaneous-autoimmune-uveitis
#9
Roxane L Degroote, Patrizia B Uhl, Barbara Amann, Angela M Krackhardt, Marius Ueffing, Stefanie M Hauck, Cornelia A Deeg
: The membrane protein expression repertoire of cells changes in course of activation. In equine recurrent uveitis (ERU), a spontaneous autoimmune disease in horses with relapsing and ultimately blinding inner eye inflammation, CD4+ T lymphocytes are the crucial pathogenic cells activated in the periphery directly prior to an inflammatory episode. In order to find relevant changes in the membrane proteome associated to disease, we sorted CD4+ lymphocytes and compared protein abundance from the generated proteome datasets of both healthy horses and ERU cases...
January 3, 2017: Journal of Proteomics
https://www.readbyqxmd.com/read/28057603/the-protein-expression-landscape-of-mitosis-and-meiosis-in-diploid-budding-yeast
#10
Emmanuelle Becker, Emmanuelle Com, Régis Lavigne, Marie-Hélène Guilleux, Bertrand Evrard, Charles Pineau, Michael Primig
: Saccharomyces cerevisiae is an established model organism for the molecular analysis of fundamental biological processes. The genomes of numerous strains have been sequenced, and the transcriptome and proteome of major phases during the haploid and diploid yeast life cycle have been determined. However, much less is known about dynamic changes of the proteome when cells switch from mitotic growth to meiotic development. We report a quantitative protein profiling analysis of yeast cell division and differentiation based on mass spectrometry...
January 2, 2017: Journal of Proteomics
https://www.readbyqxmd.com/read/28043878/quantitative-proteome-analysis-of-an-antibiotic-resistant-escherichia-coli-exposed-to-tetracycline-reveals-multiple-affected-metabolic-and-peptidoglycan-processes
#11
Daniela Jones-Dias, Ana Sofia Carvalho, Inês Barata Moura, Vera Manageiro, Gilberto Igrejas, Manuela Caniça, Rune Matthiesen
: Tetracyclines are among the most commonly used antibiotics administrated to farm animals for disease treatment and prevention, contributing to the worldwide increase in antibiotic resistance in animal and human pathogens. Although tetracycline mechanisms of resistance are well known, the role of metabolism in bacterial reaction to antibiotic stress is still an important assignment and could contribute to the understanding of tetracycline related stress response. In this study, spectral counts-based label free quantitative proteomics has been applied to study the response to tetracycline of the environmental-borne Escherichia coli EcAmb278 isolate soluble proteome...
December 30, 2016: Journal of Proteomics
https://www.readbyqxmd.com/read/28041857/immunoproteomics-of-tree-of-heaven-ailanthus-atltissima-pollen-allergens
#12
Fateme Mousavi, Ahmad Majd, Youcef Shahali, Farrokh Ghahremaninejad, Raheleh Shokouhi Shoormasti, Zahra Pourpak
: Ailanthus altissima pollen (AAP) is considered as an emerging cause of respiratory allergy in United States, Italy and Iran. However, the allergenic composition of AAP is still unknown and has yet to be characterized. The present study aimed to identify AAP allergens using a proteomics-based approach. For this purpose, optimized AAP protein extracts were analyzed using 1D- and 2D- gel electrophoresis and confronted to twenty sera from individuals with respiratory allergy during the AAP season...
December 30, 2016: Journal of Proteomics
https://www.readbyqxmd.com/read/28040509/integration-of-proteomics-and-metabolomics-to-elucidate-metabolic-adaptation-in-leishmania
#13
Snezhana Akpunarlieva, Stefan Weidt, Dhilia Lamasudin, Christina Naula, David Henderson, Michael Barrett, Karl Burgess, Richard Burchmore
: Leishmania parasites multiply and develop in the gut of a sand fly vector in order to be transmitted to a vertebrate host. During this process they encounter and exploit various nutrients, including sugars, and amino and fatty acids. We have previously generated a mutant Leishmania line that is deficient in glucose transport and which displays some biologically important phenotypic changes such as reduced growth in axenic culture, reduced biosynthesis of hexose-containing virulence factors, increased sensitivity to oxidative stress, and dramatically reduced parasite burden in both insect vector and macrophage host cells...
December 28, 2016: Journal of Proteomics
https://www.readbyqxmd.com/read/28039026/unraveling-proteome-changes-of-holstein-beef-m-semitendinosus-and-its-relationship-to-meat-discoloration-during-post-mortem-storage-analyzed-by-label-free-mass-spectrometry
#14
Qianqian Yu, Wei Wu, Xiaojing Tian, Man Hou, Ruitong Dai, Xingmin Li
: Label-free proteomics was applied to characterize the effect of post-mortem storage time (0, 4, and 9days at 4°C±1°C) on the proteome changes of M. semitendinosus (SM) in Holstein cattle, and correlations between differentially abundant proteins and meat color traits were investigated. The redness (a*) value decreased significantly (P<0.05) during post-mortem storage, meanwhile, the relative proportion of metmyoglobin increased significantly (P<0.05) from 16.99% at day 0 to 40...
December 28, 2016: Journal of Proteomics
https://www.readbyqxmd.com/read/28039027/the-map-kinase-mapklk1-is-essential-to-trypanosoma-brucei-proliferation-and-regulates-proteins-involved-in-mrna-metabolism
#15
Michel Batista, Fernanda G Kugeratski, Carla V de Paula Lima, Christian M Probst, Rafael L Kessler, Lyris M de Godoy, Marco A Krieger, Fabricio K Marchini
: Protein phosphorylation and dephosphorylation events regulate many cellular processes. The identification of all phosphorylation sites and their association to a respective protein kinase or phosphatase is a challenging and crucial step to have a deeper understanding of the effects of signaling networks on cells. Pathogenic trypanosomatids have a large number of protein kinases and phosphatases in comparison to other organisms, which reinforces the relevance of the phosphorylation process in these early eukaryotes, nevertheless little is known about protein phosphorylation in these protozoa...
December 27, 2016: Journal of Proteomics
https://www.readbyqxmd.com/read/28034645/protein-acetylation-involved-in-streptomycin-biosynthesis-in-streptomyces-griseus
#16
Yuji Ishigaki, Genki Akanuma, Minoru Yoshida, Sueharu Horinouchi, Saori Kosono, Yasuo Ohnishi
Protein acetylation, the reversible addition of an acetyl group to lysine residues, is a protein post-translational modification ubiquitous in living cells. Although the involvement of protein acetylation in the regulation of primary metabolism has been revealed, the function of protein acetylation is largely unknown in secondary metabolism. Here, we characterized protein acetylation in Streptomyces griseus, a streptomycin producer. Protein acetylation was induced in the stationary and sporulation phases in liquid and solid cultures, respectively, in S...
December 26, 2016: Journal of Proteomics
https://www.readbyqxmd.com/read/28007618/virus-host-interactome-putting-the-accent-on-how-it-changes
#17
Guillermo Rodrigo, José-Antonio Daròs, Santiago F Elena
Viral infections are extremely complex processes that could only be well understood by precisely characterizing the interaction networks between the virus and the host components. In recent years, much effort has gone in this direction with the aim of unveiling the molecular basis of viral pathology. These networks are mostly formed by viral and host proteins, and are expected to be dynamic both with time and space (i.e., with the progression of infection, as well as with the virus and host genotypes; what we call plastodynamic)...
December 20, 2016: Journal of Proteomics
https://www.readbyqxmd.com/read/28007617/a-novel-tandem-mass-spectrometry-method-for-first-line-screening-of-mainly-beta-thalassemia-from-dried-blood-spots
#18
Chaowen Yu, Shuodan Huang, Ming Wang, Juan Zhang, Hao Liu, Zhaojian Yuan, Xingbin Wang, Xiaoyan He, Jie Wang, Lin Zou
: Traditional methods for thalassemia screening are time-consuming and easily affected by cell hemolysis or hemoglobin degradation in stored blood samples. Tandem mass spectrometry (MS/MS) proved to be an effective technology for sickle cell disorders (SCD) screening. Here, we developed a novel MS/MS method for β-thalassemia screening from dried blood spots (DBS). Stable isotopic-labeled peptides were used as internal standards for quantification and calculation of the α:β-globin ratios...
December 20, 2016: Journal of Proteomics
https://www.readbyqxmd.com/read/28003119/secretomes-of-mycoplasma-hyopneumoniae-and-mycoplasma-flocculare-reveal-differences-associated-to-pathogenesis
#19
Jéssica A Paes, Karina R Lorenzatto, Sofia N de Moraes, Hercules Moura, John R Barr, Henrique B Ferreira
: Mycoplasma hyopneumoniae and Mycoplasma flocculare cohabit the porcine respiratory tract. However, M. hyopneumoniae causes the porcine enzootic pneumonia, while M. flocculare is a commensal bacterium. Comparative analyses demonstrated high similarity between these species, which includes the sharing of all predicted virulence factors. Nevertheless, studies related to soluble secretomes of mycoplasmas were little known, although they are important for bacterial-host interactions. The aim of this study was to perform a comparative analysis between the soluble secreted proteins repertoires of the pathogenic Mycoplasma hyopneumoniae and its closely related commensal Mycoplasma flocculare...
December 18, 2016: Journal of Proteomics
https://www.readbyqxmd.com/read/27986506/proteomic-assessment-of-colorectal-cancers-and-respective-resection-margins-from-patients-of-the-amazon-state-of-brazil
#20
Fabiana Greyce Oliveira Almeida, Priscila Ferreira de Aquino, Sidney Raimundo S Chalub, Gabriel Duarte T Araujo, Gilberto B Domont, Afonso Duarte L de Souza, Paulo C Carvalho, Juliana de Saldanha da G Fischer
: Colorectal cancer (CRC) is the third most common type of cancer in the world with a low survival rate and therapeutic efficiency. Tumor surgery implies the removal of an apparently non-tumorous tissue around the tumor in an attempt to reduce recurrence chances; this tissue is referred to as the resection margin. Our analysis employed an 8-plex iTRAQ to label four adenocarcinoma biopsies and their corresponding resection margins at 5cm; our results disclose fifty-six proteins as being differentially abundant...
December 14, 2016: Journal of Proteomics
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