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https://www.readbyqxmd.com/read/29668080/control-of-the-ethylene-signaling-pathway-prevents-plant-defenses-during-intracellular-accommodation-of-the-rhizobia
#1
Fathi Berrabah, Thierry Balliau, El Hosseyn Aït-Salem, Jeoffrey George, Michel Zivy, Pascal Ratet, Benjamin Gourion
Massive intracellular populations of symbiotic bacteria, referred to as rhizobia, are housed in legume root nodules. Little is known about the mechanisms preventing the development of defense in these organs although genes such as symCRK and DNF2 of the model legume Medicago truncatula are required for this control after rhizobial internalization in host nodule cells. Here we investigated the molecular basis of the symbiotic control of immunity. Proteomic analysis was performed to compare functional (wild-type) and defending nodules (symCRK)...
April 18, 2018: New Phytologist
https://www.readbyqxmd.com/read/29668051/evidence-for-a-specific-and-critical-role-of-mitogen-activated-protein-kinase-20-in-uni-to-binucleate-transition-of-microgametogenesis-in-tomato
#2
Lifei Chen, Dandan Yang, Youwei Zhang, Limin Wu, Yaoyao Zhang, Lei Ye, Changtian Pan, Yanjun He, Li Huang, Yong-Ling Ruan, Gang Lu
Mitogen-activated protein kinases (MAPKs) regulate diverse aspects of plant growth. However, their potential role in reproductive development remains elusive. Here, we discovered an unique role of SlMPK20, a plant-specific group D MAPK, in pollen development in tomato. RNAi-mediated suppression of SlMPK20 or its knockout using CRISPR/Cas9 significantly reduced or completely abolished pollen viability, respectively, with no effects on maternal fertility. Cell biology and gene expression analyses established that SlMPK20 exerts its role specifically at the uni-to-binucleate transition during microgametogenesis...
April 18, 2018: New Phytologist
https://www.readbyqxmd.com/read/29667783/phap1-promotes-glioma-cell-proliferation-by-regulating-the-akt-p27-stathmin-pathway
#3
Manyi Xie, Zhe Ji, Yaxing Bao, Yufu Zhu, Yang Xu, Lei Wang, Shangfeng Gao, Zhiyi Liu, Zilu Tian, Qingming Meng, Hengliang Shi, Rutong Yu
PHAP1 (Putative HLA-DR-associated protein 1), also termed acidic leucine-rich nuclear phosphoprotein 32A (ANP32A), Phosphoprotein 32 (pp32) or protein phosphatase 2A inhibitor (I1PP2A), is a multifunctional protein aberrantly expressed in multiple types of human cancers. However, its expression pattern and clinical relevance in human glioma remain unknown. In this study, Western blotting and immunohistochemistry analysis demonstrated PHAP1 protein was highly expressed in glioma patients, especially in those with high-grade disease...
April 18, 2018: Journal of Cellular and Molecular Medicine
https://www.readbyqxmd.com/read/29667761/plant-glycosylphosphatidylinositol-gpi-anchored-proteins-at-the-plasma-membrane-cell-wall-nexus
#4
REVIEW
Trevor H Yeats, Antony Bacic, Kim L Johnson
Approximately 1% of plant proteins are predicted to be post-translationally modified with a glycosylphosphatidylinositol (GPI) anchor that tethers the polypeptide to the outer leaflet of the plasma membrane. While the synthesis and structure of GPI anchors is largely conserved across eukaryotes, the repertoire of functional domains present in the GPI-anchored proteome has diverged substantially. In plants, this includes a large fraction of the GPI-anchored proteome being further modified with plant-specific arabinogalactan (AG) O-glycans...
April 18, 2018: Journal of Integrative Plant Biology
https://www.readbyqxmd.com/read/29667547/new-markers-for-predicting-fertility-of-the-male-gametes-in-the-post-genomic-age
#5
Savina Dipresa, Luca De Toni, Carlo Foresta, Andrea Garolla
A number of test have been proposed to assess male fertility potential, ranging from routine testing by light microscopic method for evaluating semen samples, to screening test for DNA integrity aimed to look at sperm chromatin abnormalities. Spermatozoa are an extremely differentiated cell, they have critical functions for embryo development and heredity, in addiction to delivering a haploid paternal genome to the oocyte. Towards this goal certain requirements must always be met. The ability of spermatozoa to perform its reproductive function taking place in the spermatogenesis, a highly specialized process depending on multiple factors with effect on male fertility...
April 18, 2018: Protein and Peptide Letters
https://www.readbyqxmd.com/read/29667544/proteomic-markers-in-cervical-mucus
#6
Yolanda Fernandez-Hermida, Giuseppe Grande, Micaela Menarguez, Anna Laura Astorri, Rafael Azagra
Cervical Mucus (CM) is a viscous fluid produced by the cervical glands. It plays a key role in the transport and capacitation of sperm through the female genital tract. The CM undergoes modifications that make it have different biophysical and biochemical characteristics throughout the cycle, becoming an important element for the identification of ovulation. Since CM is rich in secreted proteins, it may represent moreover a source of putative biomarkers for female reproductive tract diseases. This review is an attempt to collect relevant knowledge about the physicochemical properties and functions of the cervical mucus, including its important role as a clinical marker of female fertility, and draws attention to CM as a source of potential proteomic biomarkers...
April 18, 2018: Protein and Peptide Letters
https://www.readbyqxmd.com/read/29667532/human-osteoblast-derived-extracellular-matrix-with-high-homology-to-bone-proteome-is-osteopromotive
#7
Marta Baroncelli, Bram C J van der Eerden, Siddharth Chatterji, Enrique Rull Trinidad, Yik Y Kan, Marijke Koedam, Ingmar A J van Hengel, Rodrigo D A M Alves, Lidy E Fratila-Apachitei, Jeroen A A Demmers, Jeroen van de Peppel, Johannes Ptm van Leeuwen
Efficient osteogenic differentiation of mesenchymal stem cells (MSCs) is crucial to accelerate bone formation. In this context, the use of extracellular matrix (ECM) as natural 3D-framework mimicking in vivo tissue architecture is of interest. The aim of this study was to generate a devitalized human osteogenic MSC-derived ECM and to investigate its impact on MSC osteogenic differentiation to improve MSC properties in bone regeneration. The devitalized ECM significantly enhanced MSC adhesion and proliferation...
April 18, 2018: Tissue Engineering. Part A
https://www.readbyqxmd.com/read/29667529/emerging-therapeutic-targets-for-neurofibromatosis-type-1
#8
James A Walker, Meena Upadhyaya
Neurofibromatosis type 1 (NF1) is an autosomal dominantly inherited tumor predisposition syndrome with an incidence of one in 3000-4000 individuals with no currently effective therapies. The NF1 gene on chromosome 17 encodes neurofibromin, which functions as a negative regulator of RAS. NF1 is a chronic multi-system disorder affecting many different tissues. Due to cell-specific complexities of RAS signaling, therapeutic approaches for NF1 will likely have to focus on a particular tissue and manifestation of the disease...
April 18, 2018: Expert Opinion on Therapeutic Targets
https://www.readbyqxmd.com/read/29667342/middle-down-characterization-of-the-cell-cycle-dependence-of-histone-h4-post-translational-modifications-and-proteoforms
#9
Tingting Jiang, Michael E Hoover, Matthew V Holt, Michael A Freitas, Alan G Marshall, Nicolas L Young
Post-translational modifications (PTMs) of histones are important epigenetic regulatory mechanisms that are often dysregulated in cancer. We employ middle-down proteomics to investigate the PTMs and proteoforms of histone H4 during cell cycle progression. We use pH gradient weak cation exchange-hydrophilic interaction liquid chromatography (WCX-HILIC) for on-line liquid chromatography-mass spectrometry analysis to separate and analyze the proteoforms of histone H4. This provides enhanced separation of proteoforms, including positional isomers, and simplifies downstream data analysis...
April 17, 2018: Proteomics
https://www.readbyqxmd.com/read/29667236/recent-advances-in-matrix-assisted-laser-desorption-ionisation-mass-spectrometry-imaging-maldi-msi-for-in-situ-analysis-of-endogenous-molecules-in-plants
#10
Liang Qin, Yawen Zhang, Yaqin Liu, Huixin He, Manman Han, Yanyan Li, Maomao Zeng, Xiaodong Wang
INTRODUCTION: Mass spectrometry imaging (MSI) as a label-free and powerful imaging technique enables in situ evaluation of a tissue metabolome and/or proteome, becoming increasingly popular in the detection of plant endogenous molecules. OBJECTIVE: The characterization of structure and spatial information of endogenous molecules in plants are both very important aspects to better understand the physiological mechanism of plant organism. METHODS: Matrix-assisted laser desorption/ionization mass spectrometry imaging (MALDI-MSI) is a commonly-used tissue imaging technique, which requires matrix to assist in situ detection of a variety of molecules on the surface of a tissue section...
April 17, 2018: Phytochemical Analysis: PCA
https://www.readbyqxmd.com/read/29667163/rapid-assessment-of-contaminants-and-interferences-in-mass-spectrometry-data-using-skyline
#11
Matthew J Rardin
Proper sample preparation in proteomic workflows is essential to the success of modern mass spectrometry experiments. Complex workflows often require reagents which are incompatible with MS analysis (e.g., detergents) necessitating a variety of sample cleanup procedures. Efforts to understand and mitigate sample contamination are a continual source of disruption with respect to both time and resources. To improve the ability to rapidly assess sample contamination from a diverse array of sources, I developed a molecular library in Skyline for rapid extraction of contaminant precursor signals using MS1 filtering...
April 17, 2018: Journal of the American Society for Mass Spectrometry
https://www.readbyqxmd.com/read/29666759/phosphoproteomic-insights-into-processes-influenced-by-the-kinase-like-protein-dia1-c3orf58
#12
Agnieszka Hareza, Magda Bakun, Bianka Świderska, Małgorzata Dudkiewicz, Alicja Koscielny, Anna Bajur, Jacek Jaworski, Michał Dadlez, Krzysztof Pawłowski
Many kinases are still 'orphans,' which means knowledge about their substrates, and often also about the processes they regulate, is lacking. Here, DIA1/C3orf58, a member of a novel predicted kinase-like family, is shown to be present in the endoplasmic reticulum and to influence trafficking via the secretory pathway. Subsequently, DIA1 is subjected to phosphoproteomics analysis to cast light on its signalling pathways. A liquid chromatography-tandem mass spectrometry proteomic approach with phosphopeptide enrichment is applied to membrane fractions of DIA1-overexpressing and control HEK293T cells, and phosphosites dependent on the presence of DIA1 are elucidated...
2018: PeerJ
https://www.readbyqxmd.com/read/29666626/next-generation-immune-repertoire-sequencing-as-a-clue-to-elucidate-the-landscape-of-immune-modulation-by-host-gut-microbiome-interactions
#13
Tatsuo Ichinohe, Takahiko Miyama, Takakazu Kawase, Yasuko Honjo, Kazutaka Kitaura, Hiroyuki Sato, Tadasu Shin-I, Ryuji Suzuki
The human immune system is a fine network consisted of the innumerable numbers of functional cells that balance the immunity and tolerance against various endogenous and environmental challenges. Although advances in modern immunology have revealed a role of many unique immune cell subsets, technologies that enable us to capture the whole landscape of immune responses against specific antigens have been not available to date. Acquired immunity against various microorganisms including host microbiome is principally founded on T cell and B cell populations, each of which expresses antigen-specific receptors that define a unique clonotype...
2018: Frontiers in Immunology
https://www.readbyqxmd.com/read/29666307/interleukin-2-shapes-the-cytotoxic-t-cell-proteome-and-immune-environment-sensing-programs
#14
Christina M Rollings, Linda V Sinclair, Hugh J M Brady, Doreen A Cantrell, Sarah H Ross
Interleukin-2 (IL-2) and Janus kinases (JAKs) regulate transcriptional programs and protein synthesis to promote the differentiation of effector CD8+ cytotoxic T lymphocytes (CTLs). Using high-resolution mass spectrometry, we generated an in-depth characterization of how IL-2 and JAKs configure the CTL proteome to control CTL function. We found that IL-2 signaling through JAK1 and JAK3 (JAK1/3) increased the abundance of a key subset of proteins to induce the accumulation of critical cytokines and effector molecules in T cells...
April 17, 2018: Science Signaling
https://www.readbyqxmd.com/read/29666304/strategic-therapeutic-targeting-to-overcome-venetoclax-resistance-in-aggressive-b-cell-lymphomas
#15
Lan V Pham, Shengjian Huang, Hui Zhang, Jun Zhang, Taylor Bell, Shouhao Zhou, Elizabeth Pogue, Zhiyong Ding, Laura Lam, Jason R Westin, R Eric Davis, Ken H Young, L Jeffrey Medeiros, Richard J Ford, Krystle Nomie, Liang Zhang, Michael Wang
PURPOSE: B-cell lymphoma-2 (BCL-2), an anti-apoptotic protein often dysregulated in B-cell lymphomas, promotes cell survival and provides protection from stress. A recent Phase I first-in-human study of the BCL-2 inhibitor venetoclax in non-Hodgkin lymphoma showed an overall response rate of 44%. These promising clinical results prompted our examination of the biological effects and mechanism of action underlying venetoclax activity in aggressive B-cell lymphoma, including mantle cell lymphoma (MCL) and diffuse large B cell lymphoma (DLBCL)...
April 17, 2018: Clinical Cancer Research: An Official Journal of the American Association for Cancer Research
https://www.readbyqxmd.com/read/29666285/type-ii-secretion-dependent-aminopeptidase-lapa-and-acyltransferase-plac-are-redundant-for-nutrient-acquisition-during-legionella-pneumophila-intracellular-infection-of-amoebas
#16
Richard C White, Felizza F Gunderson, Jessica Y Tyson, Katherine H Richardson, Theo J Portlock, James A Garnett, Nicholas P Cianciotto
Legionella pneumophila genes encoding LapA, LapB, and PlaC were identified as the most highly upregulated type II secretion (T2S) genes during infection of Acanthamoeba castellanii , although these genes had been considered dispensable on the basis of the behavior of mutants lacking either lapA and lapB or plaC A plaC mutant showed even higher levels of lapA and lapB transcripts, and a lapA lapB mutant showed heightening of plaC mRNA levels, suggesting that the role of the LapA/B aminopeptidase is compensatory with respect to that of the PlaC acyltransferase...
April 17, 2018: MBio
https://www.readbyqxmd.com/read/29666158/qc-art-a-tool-for-real-time-quality-control-assessment-of-mass-spectrometry-based-proteomics-data
#17
Bryan A Stanfill, Ernesto S Nakayasu, Lisa M Bramer, Allison M Thompson, Charles K Ansong, Therese Clauss, Marina A Gritsenko, Matthew E Monroe, Ronald J Moore, Daniel J Orton, Paul D Piehowski, Athena A Schepmoes, Richard D Smith, Bobbie-Jo Webb-Robertson, Thomas O Metz, The Environmental Determinants Of Diabetes In The Young Teddy Study Group
Liquid chromatography-mass spectrometry (LC-MS)-based proteomics studies of large sample cohorts can easily require from months to years to complete. Acquiring consistent, high-quality data in such large-scale studies is challenging because of normal variations in instrumentation performance over time, as well as artifacts introduced by the samples themselves, such as those due to collection, storage and processing. Existing quality control methods for proteomics data primarily focus on post-hoc analysis to remove low-quality data that would degrade downstream statistics; they are not designed to evaluate the data in near real-time, which would allow for interventions as soon as deviations in data quality are detected...
April 17, 2018: Molecular & Cellular Proteomics: MCP
https://www.readbyqxmd.com/read/29666155/sil1-the-er-hsp70-co-chaperone-plays-a-critical-role-in-maintaining-skeletal-muscle-proteostasis-and-physiology
#18
Viraj P Ichhaporia, Jieun Kim, Kanisha Kavdia, Peter Vogel, Linda Horner, Sharon Frase, Linda M Hendershot
Mutations in SIL1 , a co-factor for the endoplasmic reticular (ER) chaperone BiP, cause Marinesco-Sjögren syndrome (MSS), an autosomal recessive disorder. Using a mouse model, we characterized molecular aspects of the progressive myopathy associated with MSS. Proteomic-profiling of quadriceps at the onset of myopathy revealed that SIL1 deficiency affected multiple pathways critical to muscle physiology. We observed an increase in ER chaperones prior to the onset of muscle weakness, which was complemented by up-regulation of multiple components of cellular protein degradation pathways...
April 9, 2018: Disease Models & Mechanisms
https://www.readbyqxmd.com/read/29665991/differential-proteomic-analysis-of-actinic-keratosis-bowen-s-disease-and-cutaneous-squamous-cell-carcinoma-by-label-free-lc-ms-ms
#19
Ali Azimi, Kimberley L Kaufman, Marina Ali, Jonathan Arthur, Steven Kossard, Pablo Fernandez-Penas
BACKGROUND: The boundaries between actinic keratosis (AK), Bowen's disease (BD), and cutaneous squamous cell carcinoma (cSCC) are sometimes not clear. Large-scale proteomic profiling studies of these lesions are also non-existent. OBJECTIVE: To evaluate proteomic changes between normal epidermis, AK, BD and cSCC that could support a molecular classification and improve our understanding of disease progression. METHODS: Microdissected formalin-fixed paraffin embedded samples of normal epidermis (n = 4, pooled), AK (n = 10), BD (n = 10) and cSCC (n = 10) were analyzed by mass spectrometry...
April 10, 2018: Journal of Dermatological Science
https://www.readbyqxmd.com/read/29665821/plasma-proteomic-analysis-reveals-altered-protein-abundances-in-cardiovascular-disease
#20
Vasiliki Lygirou, Agnieszka Latosinska, Manousos Makridakis, William Mullen, Christian Delles, Joost P Schanstra, Jerome Zoidakis, Burkert Pieske, Harald Mischak, Antonia Vlahou
BACKGROUND: Cardiovascular disease (CVD) describes the pathological conditions of the heart and blood vessels. Despite the large number of studies on CVD and its etiology, its key modulators remain largely unknown. To this end, we performed a comprehensive proteomic analysis of blood plasma, with the scope to identify disease-associated changes after placing them in the context of existing knowledge, and generate a well characterized dataset for further use in CVD multi-omics integrative analysis...
April 17, 2018: Journal of Translational Medicine
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