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https://www.readbyqxmd.com/read/28419593/protein-sumoylation-and-phosphorylation-intersect-in-arabidopsis-signaling
#1
Ella Nukarinen, Konstantin Tomanov, Ionida Ziba, Wolfram Weckwerth, Andreas Bachmair
Conjugation of the small ubiquitin-related modifier SUMO to protein substrates impacts on stress responses and on development. We analyzed the proteome and phosphoproteome of mutants in this pathway. Mutants chosen had defects in SUMO ligase SIZ1, which catalyzes attachment of single SUMO moieties onto substrates, and in ligases PIAL1 and 2, which are known to form SUMO chains. 2657 proteins and 550 phosphopeptides were identified and quantified. Approximately 40% of the proteins and 20% of the phosphopeptides showed abundance differences in at least one of the analyzed genotypes, demonstrating the influence of SUMO conjugation on protein abundance and phosphorylation...
April 17, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28418008/quantitative-analyses-of-the-global-proteome-and-phosphoproteome-reveal-the-different-impacts-of-propofol-and-dexmedetomidine-on-ht22-cells
#2
Honggang Zhang, Juan Ye, Zhaomei Shi, Chen Bu, Fangping Bao
Propofol and dexmedetomidine are both commonly used anaesthetics. Although they employ two different mechanisms to induce anaesthesia, both compounds influence the hippocampus and the HT22 cell line. HT22 cells are broadly used in neurobiological research. In this study, we assessed the effects of propofol and dexmedetomidine on signalling in HT22 cells. Using the SILAC (stable isotope labelling with amino acids in cell culture) labelling technique, IMAC (immobilized metal affinity chromatography) enrichment and high-resolution LC-MS/MS (liquid chromatography tandem mass spectrometry) analysis, we investigated the quantitative proteome and phosphoproteome in HT22 cells treated with propofol or dexmedetomidine...
April 18, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28409321/an-integrative-overview-of-the-molecular-and-physiological-responses-of-sugarcane-under-drought-conditions
#3
Camilo Elber Vital, Andrea Giordano, Eduardo de Almeida Soares, Thomas Christopher Rhys Williams, Rosilene Oliveira Mesquita, Pedro Marcus Pereira Vidigal, Amanda de Santana Lopes, Túlio Gomes Pacheco, Marcelo Rogalski, Humberto Josué de Oliveira Ramos, Marcelo Ehlers Loureiro
Drought is the main abiotic stress constraining sugarcane production. However, our limited understanding of the molecular mechanisms involved in the drought stress responses of sugarcane impairs the development of new technologies to increase sugarcane drought tolerance. Here, an integrated approach was performed to reveal the molecular and physiological changes in two closely related sugarcane cultivars, including the most extensively planted cultivar in Brazil (cv. RB867515), in response to moderate (-0.5 MPa) and severe (-1 MPa) drought stress at the transcriptional, translational, and posttranslational levels...
April 13, 2017: Plant Molecular Biology
https://www.readbyqxmd.com/read/28408662/the-gdnf-responsive-phosphoprotein-landscape-identifies-raptor-phosphorylation-required-for-spermatogonial-progenitor-cell-proliferation
#4
Min Wang, Yueshuai Guo, Mei Wang, Tao Zhou, Yuanyuan Xue, Guihua Du, Xiang Wei, Jing Wang, Lin Qi, Hao Zhang, Lufan Li, Lan Ye, Xuejiang Guo, Xin Wu
Cytokine-dependent renewal of stem cells is a fundamental requisite for tissue homeostasis and regeneration. Spermatogonial progenitor cells (SPCs) including stem cells support life-long spermatogenesis and male fertility, but pivotal phosphorylation events that regulate fate decisions in SPCs remain unresolved. Here, we described a quantitative mass-spectrometry-based proteomic and phosphoproteomic analyses of SPCs following sustained stimulation with glial cell-derived neurotrophic factor (GDNF), an extrinsic factor supporting SPC proliferation...
April 13, 2017: Molecular & Cellular Proteomics: MCP
https://www.readbyqxmd.com/read/28402964/set-mediates-tce-induced-liver-cell-apoptosis-through-dephosphorylation-and-upregulation-of-nucleolin
#5
Xiaohu Ren, Xinfeng Huang, Xifei Yang, Yungang Liu, Wei Liu, Haiyan Huang, Desheng Wu, Fei Zou, Jianjun Liu
Trichloroethylene (TCE) is an occupational and environmental chemical that can cause severe hepatotoxicity. While our previous studies showed that the phosphatase inhibitor SET is a key mediator of TCE-induced liver cell apoptosis, the molecular mechanisms remain elusive. Using quantitative phosphoproteomic analysis, we report here that nucleolin is a SET-regulated phosphoprotein in human liver HL-7702 cells. Functional analysis suggested that SET promoted dephosphorylation of nucleolin, decreased its binding to its transcriptional activator, c-myc, and upregulated nucleolin expression in TCE-treated cells...
April 3, 2017: Oncotarget
https://www.readbyqxmd.com/read/28397399/belinostat-exerts-anti-tumor-cytotoxicity-through-the-ubiquitin-proteasome-pathway-in-lung-squamous-cell-carcinoma
#6
Li Ren Kong, Tuan Zea Tan, Weijie Richard Ong, Chonglei Bi, Hung Huynh, Soo Chin Lee, Wee Joo Chng, Pieter Johan Adam Eichhorn, Boon Cher Goh
There have been advances in personalized therapy directed by molecular profiles in lung adenocarcinoma but not in lung squamous cell carcinoma (SCC). The lack of actionable driver oncogenes in SCC has restricted the use of small molecule inhibitors. Here, we show that SCC cell lines displayed differential sensitivities to belinostat, a pan-histone deacetylase (HDAC) inhibitor. Phosphoproteomic analysis of belinostat-treated SCC cells revealed significant downregulation of the MAPK pathway, along with induction of apoptosis...
April 11, 2017: Molecular Oncology
https://www.readbyqxmd.com/read/28390667/pyridoxal-5-phosphate-mediated-preparation-of-immobilized-metal-affinity-material-for-highly-selective-and-sensitive-enrichment-of-phosphopeptides
#7
Qian Wang, Xiao-Mei He, Xi Chen, Gang-Tian Zhu, Ren-Qi Wang, Yu-Qi Feng
Phosphorylation is a crucial post-translational modification, which plays pivotal roles in various biological processes. Analysis of phosphopeptides by mass spectrometry (MS) is intractable on account of their low stoichiometry and the ion suppression from non-phosphopeptides. Thus, enrichment of phosphopeptides before MS analysis is indispensable. In this work, we employed pyridoxal 5'-phosphate (PLP), as an immobilized metal affinity chromatography (IMAC) ligand for the enrichment of phosphopeptides. PLP was grafted onto several substrates such as silica (SiO2), oxidized carbon nanotube (OCNT) and silica coated magnetic nanoparticles (Fe3O4@SiO2)...
April 1, 2017: Journal of Chromatography. A
https://www.readbyqxmd.com/read/28387310/targeting-bmk1-impairs-the-drug-resistance-to-combined-inhibition-of-braf-and-mek1-2-in-melanoma
#8
Chengli Song, Lina Wang, Qiang Xu, Kai Wang, Dan Xie, Zhe Yu, Kui Jiang, Lujian Liao, John R Yates, Jiing-Dwan Lee, Qingkai Yang
Combined inhibition of BRAF and MEK1/2 (CIBM) improves therapeutic efficacy of BRAF-mutant melanoma. However, drug resistance to CIBM is inevitable and the drug resistance mechanisms still remain to be elucidated. Here, we show that BMK1 pathway contributes to the drug resistance to CIBM. Considering that ERK1/2 pathway regulates cellular processes by phosphorylating, we first performed a SILAC phosphoproteomic profiling of CIBM. Phosphorylation of 239 proteins was identified to be downregulated, while phosphorylation of 47 proteins was upregulated...
April 7, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28383256/phosphoproteomics-with-activated-ion-electron-transfer-dissociation
#9
Nicholas M Riley, Alexander S Hebert, Gerhard Dürnberger, Florian Stanek, Karl Mechtler, Michael S Westphall, Joshua J Coon
The ability to localize phosphosites to specific amino acid residues is crucial to translating phosphoproteomic data into biological meaningful contexts. In a companion manuscript ( Anal. Chem. 2017 , DOI: 10.1021/acs.analchem.7b00213 ), we described a new implementation of activated ion electron transfer dissociation (AI-ETD) on a quadrupole-Orbitrap-linear ion trap hybrid MS system (Orbitrap Fusion Lumos), which greatly improved peptide fragmentation and identification over ETD and other supplemental activation methods...
April 17, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28382632/a-phosphoproteomic-landscape-of-rice-oryza-sativa-tissues
#10
Yifeng Wang, Xiaohong Tong, Jiehua Qiu, Zhiyong Li, Juan Zhao, Yuxuan Hou, Liqun Tang, Jian Zhang
Protein phosphorylation is an important post-translational modification that regulates various plant developmental processes. Here, we report a comprehensive, quantitative phosphoproteomic profile of six rice tissues, including callus, leaf, root, shoot meristem, young panicle and mature panicle from Nipponbare by employing a MS-based, label-free approach. A total of 7171 unique phosphorylation sites in 4792 phosphopeptides from 2657 phosphoproteins were identified, including 4613 peptides were differentially phosphorylated among the tissues...
April 5, 2017: Physiologia Plantarum
https://www.readbyqxmd.com/read/28382306/apolipoprotein-e-mimetic-peptide-cn-105-improves-outcomes-in-ischemic-stroke
#11
Tian Ming Tu, Brad J Kolls, Erik J Soderblom, Viviana Cantillana, Paul Durham Ferrell, M Arthur Moseley, Haichen Wang, Hana N Dawson, Daniel T Laskowitz
OBJECTIVE: At present, the absence of a pharmacological neuroprotectant represents an important unmet clinical need in the treatment of ischemic and traumatic brain injury. Recent evidence suggests that administration of apolipoprotein E mimetic therapies represent a viable therapeutic strategy in this setting. We investigate the neuroprotective and anti-inflammatory properties of the apolipoprotein E mimetic pentapeptide, CN-105, in a microglial cell line and murine model of ischemic stroke...
April 2017: Annals of Clinical and Translational Neurology
https://www.readbyqxmd.com/read/28382018/phosphoproteome-profiling-reveals-circadian-clock-regulation-of-posttranslational-modifications-in-the-murine-hippocampus
#12
Cheng-Kang Chiang, Bo Xu, Neel Mehta, Janice Mayne, Warren Y L Sun, Kai Cheng, Zhibin Ning, Jing Dong, Hanfa Zou, Hai-Ying Mary Cheng, Daniel Figeys
The circadian clock is an endogenous oscillator that drives daily rhythms in physiology, behavior, and gene expression. The underlying mechanisms of circadian timekeeping are cell-autonomous and involve oscillatory expression of core clock genes that is driven by interconnecting transcription-translation feedback loops (TTFLs). Circadian clock TTFLs are further regulated by posttranslational modifications, in particular, phosphorylation. The hippocampus plays an important role in spatial memory and the conversion of short- to long-term memory...
2017: Frontiers in Neurology
https://www.readbyqxmd.com/read/28377730/commentary-deep-phosphoproteomic-measurements-pinpointing-drug-induced-protective-mechanisms-in-neuronal-cells
#13
COMMENT
Amit K Yadav
No abstract text is available yet for this article.
2017: Frontiers in Physiology
https://www.readbyqxmd.com/read/28370450/global-regulatory-roles-of-the-camp-pka-pathway-revealed-by-phenotypic-transcriptomic-and-phosphoproteomic-analyses-in-a-null-mutant-of-the-pka-catalytic-subunit-in-candida-albicans
#14
Chengjun Cao, Mei Wu, Jian Bing, Li Tao, Xuefen Ding, Xiaoyun Liu, Guanghua Huang
The conserved cAMP-dependent protein kinase (PKA) plays critical roles in the regulation of morphological transitions and virulence in the human fungal pathogen Candida albicans. It has long been thought that the PKA catalytic subunit is essential for cell viability in this fungus. Paradoxically, the single adenylyl cyclase-encoding gene, CYR1, which is required for the production of cAMP in C. albicans, is not essential for cell growth. Here, we successfully generated a double mutant of TPK1 and TPK2 (tpk2/tpk2 tpk1/tpk1, t2t1), which encode two isoforms of the PKA catalytic subunit, suggesting that it is not essential for cell viability...
March 30, 2017: Molecular Microbiology
https://www.readbyqxmd.com/read/28366542/key-biological-processes-driving-metastatic-spread-of-pancreatic-cancer-as-identified-by-multi-omics-studies
#15
REVIEW
T Y S Le Large, M F Bijlsma, G Kazemier, H M W van Laarhoven, E Giovannetti, C R Jimenez
Pancreatic ductal adenocarcinoma (PDAC) is an extremely aggressive malignancy, characterized by a high metastatic burden, already at the time of diagnosis. The metastatic potential of PDAC is one of the main reasons for the poor outcome next to lack of significant improvement in effective treatments in the last decade. Key mutated driver genes, such as activating KRAS mutations, are concordantly expressed in primary and metastatic tumors. However, the biology behind the metastatic potential of PDAC is not fully understood...
March 30, 2017: Seminars in Cancer Biology
https://www.readbyqxmd.com/read/28357858/phosphoproteomic-analysis-of-paper-mulberry-reveals-phosphorylation-functions-in-chilling-tolerance
#16
Zhi Pi, Mei-Ling Zhao, Xian-Jun Peng, Shi-Hua Shen
Paper mulberry is a valuable woody species with a good chilling tolerance. In this study, phosphoproteomic analysis, physiological measurement, and mRNA quantification were employed to explore the molecular mechanism of chilling (4 °C) tolerance in paper mulberry. After chilling for 6 h, 427 significantly changed phosphoproteins were detected in paper mulberry seedlings without obvious physiological injury. When obvious physiological injury occurred after chilling for 48 h, a total of 611 phosphoproteins were found to be significantly changed at the phosphorylation level...
April 13, 2017: Journal of Proteome Research
https://www.readbyqxmd.com/read/28356110/understanding-cell-signaling-in-cancer-stem-cells-for-targeted-therapy-can-phosphoproteomics-help-to-reveal-the-secrets
#17
REVIEW
Wolfgang Gruber, Tamara Scheidt, Fritz Aberger, Christian G Huber
BACKGROUND: Cancer represents heterogeneous and aberrantly proliferative manifestations composed of (epi)genetically and phenotypically distinct cells with a common clonal origin. Cancer stem cells (CSC) make up a rare subpopulation with the remarkable capacity to initiate, propagate and spread a malignant disease. Furthermore, CSC show increased therapy resistance, thereby contributing to disease relapse. Elimination of CSC, therefore, is a crucial aim to design efficacious treatments for long-term survival of cancer patients...
March 29, 2017: Cell Communication and Signaling: CCS
https://www.readbyqxmd.com/read/28355574/phosphoproteomics-of-primary-cells-reveals-druggable-kinase-signatures-in-ovarian-cancer
#18
Chiara Francavilla, Michela Lupia, Kalliopi Tsafou, Alessandra Villa, Katarzyna Kowalczyk, Rosa Rakownikow Jersie-Christensen, Giovanni Bertalot, Stefano Confalonieri, Søren Brunak, Lars J Jensen, Ugo Cavallaro, Jesper V Olsen
Our understanding of the molecular determinants of cancer is still inadequate because of cancer heterogeneity. Here, using epithelial ovarian cancer (EOC) as a model system, we analyzed a minute amount of patient-derived epithelial cells from either healthy or cancerous tissues by single-shot mass-spectrometry-based phosphoproteomics. Using a multi-disciplinary approach, we demonstrated that primary cells recapitulate tissue complexity and represent a valuable source of differentially expressed proteins and phosphorylation sites that discriminate cancer from healthy cells...
March 28, 2017: Cell Reports
https://www.readbyqxmd.com/read/28349272/%C3%AE-np63-activates-egfr-signaling-to-induce-loss-of-adhesion-in-triple-negative-basal-like-breast-cancer-cells
#19
Jitka Holcakova, Marta Nekulova, Paulina Orzol, Rudolf Nenutil, Jan Podhorec, Marek Svoboda, Petra Dvorakova, Mariana Pjechova, Lenka Hernychova, Borivoj Vojtesek, Philip J Coates
PURPOSE: The basal-A subtype of triple-negative breast cancer is characterized by high levels of ΔNp63. Various functions have been proposed for p63 in breast cancer initiation and growth, and p63 mediates chemotherapeutic response in a subset of triple-negative breast cancers. We investigated the signaling pathways that are controlled by ΔNp63 in basal-A triple-negative breast cancer. METHODS: Human basal-A triple-negative breast cancer cell lines with ΔNp63α induction or inhibition were studied, along with primary human triple-negative breast cancer tissues...
March 27, 2017: Breast Cancer Research and Treatment
https://www.readbyqxmd.com/read/28347515/an-immobilized-titanium-iv-ion-affinity-chromatography-adsorbent-for-solid-phase-extraction-of-phosphopeptides-for-phosphoproteome-analysis
#20
Yating Yao, Jing Dong, Mingming Dong, Fangjie Liu, Yan Wang, Jiawei Mao, Mingliang Ye, Hanfa Zou
In this study, we developed a centrifugation assisted solid phase extraction (SPE) method for the selective enrichment of phosphopeptides using a new Ti(4+)-IMAC material synthesized in-house. This new material has the feature of big size and large specific surface area which makes it more suitable to enrich phosphopeptides in a SPE way. The spin tips loaded with the Ti(4+)-IMAC material were applied to enrich phosphopeptides from the complex protein digests. It was found that phosphopeptides can be specifically enriched from tryptic digest of bovine serum albumin and β-casein at a molar ratio up to 1000:1...
March 20, 2017: Journal of Chromatography. A
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