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https://www.readbyqxmd.com/read/29329550/systematic-quantitative-analysis-of-h2a-and-h2b-variants-by-targeted-proteomics
#1
Sara El Kennani, Annie Adrait, Olga Permiakova, Anne-Marie Hesse, Côme Ialy-Radio, Myriam Ferro, Virginie Brun, Julie Cocquet, Jérôme Govin, Delphine Pflieger
BACKGROUND: Histones organize DNA into chromatin through a variety of processes. Among them, a vast diversity of histone variants can be incorporated into chromatin and finely modulate its organization and functionality. Classically, the study of histone variants has largely relied on antibody-based assays. However, antibodies have a limited efficiency to discriminate between highly similar histone variants. RESULTS: In this study, we established a mass spectrometry-based analysis to address this challenge...
January 12, 2018: Epigenetics & Chromatin
https://www.readbyqxmd.com/read/29323273/histone-octamer-rearranges-to-adapt-to-dna-unwrapping
#2
Silvija Bilokapic, Mike Strauss, Mario Halic
Nucleosomes, the basic units of chromatin, package and regulate expression of eukaryotic genomes. Although the structure of the intact nucleosome is well characterized, little is known about structures of partially unwrapped, transient intermediates. In this study, we present nine cryo-EM structures of distinct conformations of nucleosome and subnucleosome particles. These structures show that initial DNA breathing induces conformational changes in the histone octamer, particularly in histone H3, that propagate through the nucleosome and prevent symmetrical DNA opening...
January 2018: Nature Structural & Molecular Biology
https://www.readbyqxmd.com/read/29301979/increased-rounds-of-gonadotropin-stimulation-have-side-effects-on-mouse-fallopian-tubes-and-oocytes
#3
Valentina Di Nisio, Gianna Rossi, Maria Grazia Palmerini, Guido Macchiarelli, Gian Mario Tiboni, Sandra Cecconi
In this study it was evaluated if increased rounds of gonadotropin stimulation could affect in mice: i) expression levels of proteins regulating cell cycle and DNA repair in fallopian tubes and ii) meiotic spindle morphology of ovulated oocytes. To this end, adult female mice were subjected or not (Control) to 6 or 8 rounds of gonadotropin stimulation. Ovulated oocytes were incubated with anti A/B Tubulin to evaluate spindle morphology. Fallopian tubes were analyzed to detect Cyclin D1, phospho-p53/p53, phospho-AKT/AKT, phospho-GSK3B/GSK3B, SOX2, OCT3/4, phospho-B-catenin/B-catenin, phospho-CHK1, and phospho-H2A...
January 4, 2018: Reproduction: the Official Journal of the Society for the Study of Fertility
https://www.readbyqxmd.com/read/29288215/klu-suppresses-megasporocyte-cell-fate-through-swr1-mediated-activation-of-wrky28-expression-in-arabidopsis
#4
Lihua Zhao, Hanyang Cai, Zhenxia Su, Lulu Wang, Xinyu Huang, Man Zhang, Piaojuan Chen, Xiaozhuan Dai, Heming Zhao, Ravishankar Palanivelu, Xuemei Chen, Yuan Qin
Germ-line specification is essential for sexual reproduction. In the ovules of most flowering plants, only a single hypodermal cell enlarges and differentiates into a megaspore mother cell (MMC), the founder cell of the female germ-line lineage. The molecular mechanisms restricting MMC specification to a single cell remain elusive. We show that the Arabidopsis transcription factor WRKY28 is exclusively expressed in hypodermal somatic cells surrounding the MMC and is required to repress these cells from acquiring MMC-like cell identity...
December 29, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/29287332/effect-of-gamma-radiation-on-sugars-and-vitamin-c-radiolytic-pathways
#5
Hiram F Ramírez-Cahero, Ma Angeles Valdivia-López
The radiolytic decomposition of glucose, fructose, sucrose, ascorbic acid (H2A) and dehydroascorbic acid (DHAA), induced by ionizing radiation, was investigated. Aqueous solutions of these compounds were gamma-irradiated at doses of 0.5, 0.7 and 1 kGy, with a dose rate of 0.04 kGy/min, in the presence of air, followed by HPLC, HPLC-MS, EPR, and UV-VIS spectroscopy analysis of the resulting mixtures. Carboxylic acids, 2-furaldehyde, 5-hydroxymethyl-2-furaldehyde, furfuryl alcohol, 2-furoic acid and 2(5H)-furanone were identified in solutions of sugars and vitamin C, by comparing with standards...
April 15, 2018: Food Chemistry
https://www.readbyqxmd.com/read/29277230/itraq-based-quantitative-proteomics-reveals-the-biochemical-mechanism-of-cold-stress-adaption-of-razor-clam-during-controlled-freezing-point-storage
#6
Chong Wang, Jianjun Chu, Linglin Fu, Yanbo Wang, Feng Zhao, Deqing Zhou
Razor clam is a major cultivated shellfish of great economic importance and high nutritional value. Due to high corruptible potential, razor clam is generally preserved by controlled freezing-point storage (CFPS). Here, we applied isobaric tags for relative and absolute quantification (iTRAQ) labeling to investigate the biochemical mechanism of cold stress adaption in razor clam during CFPS. In total, 369 proteins were quantified, and 27 of them were identified as differentially expressed proteins during CFPS, mostly involved in energy metabolism process, DNA duplication and protein synthesis, and stress response, specifically, MAPK is the predominant pathway...
May 1, 2018: Food Chemistry
https://www.readbyqxmd.com/read/29260809/thiomolybdate-mo3s13-2-nanocluster-a-molecular-mimic-of-mos2-active-sites-for-highly-efficient-photocatalytic-hydrogen-evolution
#7
Yonggang Lei, Meiqun Yang, Jianhua Hou, Fang Wang, Entian Cui, Chao Kong, Shixiong Min
Thiomolybdate [Mo3S13]2- nanoclusters, as a molecular mimic of MoS2 edge sites, showed high efficiency in catalyzing photochemical H2 evolution from a molecular system of Ru(bpy)3Cl2-ascorbic acid (H2A) under visible light irradiation (≥420 nm), providing a turnover number of 1570 and an initial turnover frequency of 335 h-1 for H2 evolution based on the [Mo3S13]2- catalyst.
December 20, 2017: Chemical Communications: Chem Comm
https://www.readbyqxmd.com/read/29250622/targeted-photodynamic-therapy-in-visible-light-using-bodipy-appended-copper-ii-complexes-of-a-vitamin-b6-schiff-base
#8
Nandini Mukherjee, Santosh Podder, Koushambi Mitra, Shamik Majumdar, Dipankar Nandi, Akhil R Chakravarty
Copper(ii) complexes [Cu(L1/L2/L3)(A)] (1-3), where H2A·HCl is a vitamin B6 Schiff base, viz. 3-hydroxy-5-(hydroxymethyl)-4-(((2-hydroxyphenyl)imino)methyl)-2-methylpyridin-1-ium chloride, L1 and L2 are 2-(2-pyridyl)benzimidazole based borondipyrromethene (BODIPY) ligands and L3 is 2-(2-pyridyl)benzimidazole, were prepared, characterized and their visible light-induced anti-cancer activity was studied. Complex 3, characterized by X-ray crystallography, exhibits a distorted square-pyramidal geometry for copper (τ = 0...
December 18, 2017: Dalton Transactions: An International Journal of Inorganic Chemistry
https://www.readbyqxmd.com/read/29243734/chemically-synthesized-histone-h2a-lys13-di-ubiquitination-promotes-binding-of-53bp1-to-nucleosomes
#9
Jia-Bin Li, Yun-Kun Qi, Qiao-Qiao He, Hua-Song Ai, San-Ling Liu, Jia-Xing Wang, Ji-Shen Zheng, Lei Liu, Changlin Tian
No abstract text is available yet for this article.
December 15, 2017: Cell Research
https://www.readbyqxmd.com/read/29241579/punicalagin-from-pomegranate-promotes-human-papillary-thyroid-carcinoma-bcpap-cell-death-by-triggering-atm-mediated-dna-damage-response
#10
Xin Yao, Xian Cheng, Li Zhang, Huixin Yu, Jiandong Bao, Haixia Guan, Rongrong Lu
Punicalagin (PUN), a component derived from pomegranate, is well known for its anticancer activity. Our previous work revealed that PUN induces autophagic cell death in papillary thyroid carcinoma cells. We hypothesized that PUN triggers DNA damage associated with cell death because DNA damage was reported as an inducer of autophagy. Our results showed that PUN treatment caused DNA breaks as evidenced by the significant enhancement in the phosphorylation of H2A.X. However, reactive oxygen species and DNA conformational alteration, 2 common inducing factors in DNA damage, were not involved in PUN-induced DNA damage...
November 2017: Nutrition Research
https://www.readbyqxmd.com/read/29234344/lhp1-could-act-as-an-activator-and-a-repressor-of-transcription-in-plants
#11
REVIEW
Jing Feng, Jiang Lu
Polycomb group (PcG) proteins within the polycomb repressive complex 1 (PRC1) and PRC2 are significant epigenetic regulatory factors involved in important cellular and developmental processes in eukaryotes. In Arabidopsis, LIKE HETEROCHROMATIN PROTEIN 1 (LHP1), also known as TERMINAL FLOWER 2, has been proposed as a plant specific subunit of PRC1 that could bind the trimethylated lysine 27 of histone H3 (H3K27me3), which is established by PRC2 and is required for a functional plant PcG system. LHP1 not only interacts with PRC1 to catalyze monoubiquitination at lysine 119 of histone H2A but also functions with PRC2 to establish H3K27me3...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/29233925/a20-regulates-the-dna-damage-response-and-mediates-tumor-cell-resistance-to-dna-damaging-therapy
#12
Chuanzhen Yang, Weicheng Zang, Zefang Tang, Yapeng Ji, Ruidan Xu, Yongfeng Yang, Aiping Luo, Bin Hu, Zemin Zhang, Zhihua Liu, Xiaofeng Zheng
A competent DNA damage response (DDR) helps prevent cancer, but once cancer has arisen DDR can blunt the efficacy of chemotherapy and radiotherapy which cause lethal DNA breakage in cancer cells. Thus, blocking DDR may improve the efficacy of these modalities. Here we report a new DDR mechanism that interfaces with inflammatory signaling and might be blocked to improve anticancer outcomes. Specifically, we report that the ubiquitin-editing enzyme A20 binds and inhibits the E3 ubiquitin ligase RNF168, which is responsible for regulating histone H2A turnover critical for proper DNA repair...
December 12, 2017: Cancer Research
https://www.readbyqxmd.com/read/29220657/hnrnpk-recruits-pcgf3-5-prc1-to-the-xist-rna-b-repeat-to-establish-polycomb-mediated-chromosomal-silencing
#13
Greta Pintacuda, Guifeng Wei, Chloë Roustan, Burcu Anil Kirmizitas, Nicolae Solcan, Andrea Cerase, Alfredo Castello, Shabaz Mohammed, Benoît Moindrot, Tatyana B Nesterova, Neil Brockdorff
The Polycomb-repressive complexes PRC1 and PRC2 play a key role in chromosome silencing induced by the non-coding RNA Xist. Polycomb recruitment is initiated by the PCGF3/5-PRC1 complex, which catalyzes chromosome-wide H2A lysine 119 ubiquitylation, signaling recruitment of other PRC1 complexes, and PRC2. However, the molecular mechanism for PCGF3/5-PRC1 recruitment by Xist RNA is not understood. Here we define the Xist RNA Polycomb Interaction Domain (XR-PID), a 600 nt sequence encompassing the Xist B-repeat element...
December 7, 2017: Molecular Cell
https://www.readbyqxmd.com/read/29220555/multiparameter-cytometric-analysis-of-complex-cellular-response
#14
Šárka Šimečková, Radek Fedr, Ján Remšík, Zuzana Kahounová, Eva Slabáková, Karel Souček
Complex analysis of cellular responses after experimental treatment is important for screening, mechanistic understanding of treatment effects, and the identification of sensitive and resistant cell phenotypes. Modern multicolor flow cytometry has demonstrated its power for such analyses. Here, we introduce a multiparametric protocol for complex analysis of cytokinetics by the simultaneous detection of seven fluorescence parameters. This analysis includes the detection of two surface markers for immunophenotyping, analysis of proliferation based on the cell cycle and the measurement of incorporated nucleoside analogue 5-ethynyl-2'-deoxyuridine (EdU) in newly synthesized DNA, analysis of DNA damage using an anti-phospho-histone H2A...
December 8, 2017: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29209909/biochemical-and-biophysical-characterisation-of-higher-oligomeric-structure-of-rat-nucleosome-assembly-protein-1
#15
Divya Reddy, Saikat Bhattacharya, Vinod Jani, Uddhavesh Sonavane, Rajendra Joshi, Sanjay Gupta
Nucleosome assembly protein 1 (NAP1) is a histone chaperone that exchanges histone H2A-H2B dimer from chromatin templates. Studies with yeast NAP1 (yNAP1) have revealed its existence as multiple oligomeric species in solution. Here, rat NAP1 (rNAP1), which is 98% identical to the human NAP1 (hNAP1) was used as a model to characterize the oligomeric structures of this protein in higher eukaryotes. Gel filtration chromatography and Dynamic light scattering of recombinant rNAP1 indicated that the protein exists as a complex mixture of multimeric species even at 500 mM ionic strength...
December 5, 2017: Protein Journal
https://www.readbyqxmd.com/read/29206173/histone-macroh2a1-a-chromatin-point-of-intersection-between-fasting-senescence-and-cellular-regeneration
#16
REVIEW
Oriana Lo Re, Manlio Vinciguerra
Histone variants confer chromatin unique properties. They have specific genomic distribution, regulated by specific deposition and removal machineries. Histone variants, mostly of canonical histones H2A, H2B and H3, have important roles in early embryonic development, in lineage commitment of stem cells, in the converse process of somatic cell reprogramming to pluripotency and, in some cases, in the modulation of animal aging and life span. MacroH2A1 is a variant of histone H2A, present in two alternatively exon-spliced isoforms macroH2A1...
December 5, 2017: Genes
https://www.readbyqxmd.com/read/29203593/loss-of-p53-compensates-osteopenia-in-murine-mysm1-deficiency
#17
Melanie Haffner-Luntzer, Anna Kovtun, Verena Fischer, Katja Prystaz, Adelheid Hainzl, Carsten M Kroeger, Ioanna Krikki, Titus J Brinker, Anita Ignatius, Martina Gatzka
Histone modifications critically contribute to the epigenetic orchestration of bone homeostasis-in part, by modifying the access of transcription factors to specific genes involved in the osteogenic differentiation process of bone marrow mesenchymal stem cells (MSCs) and osteoblasts. Based on our previous finding that histone H2A deubiquitinase 2A-DUB/Mysm1 interacts with the p53 axis in hematopoiesis and tissue development, we analyzed the molecular basis of the skeletal phenotype of Mysm1-deficient mice and dissected the underlying p53-dependent and -independent mechanisms...
December 4, 2017: FASEB Journal: Official Publication of the Federation of American Societies for Experimental Biology
https://www.readbyqxmd.com/read/29198113/characterization-of-chlamydomonas-reinhardtii-core-histones-by-top-down-mass-spectrometry-reveals-unique-algae-specific-variants-and-post-translational-modifications
#18
Aliyya Khan, Carlo K Eikani, Hana Khan, Anthony T Iavarone, James J Pesavento
The unicellular microalga Chlamydomonas reinhardtii has played an instrumental role in the development of many new fields (bio-products, biofuels, etc.) as well as the advancement of basic science (photosynthetic apparati, flagellar function, etc.). Chlamydomonas' versatility ultimately derives from the genes encoded in its genome and the way that the expression of these genes is regulated, which is largely influenced by a family of DNA binding proteins called histones. In this study, we characterize C. reinhardtii core histones, both variants and their post-translational modifications, by chromatographic separation followed by top-down mass spectrometry (TDMS)...
December 3, 2017: Journal of Proteome Research
https://www.readbyqxmd.com/read/29196561/hierarchical-regulation-of-centromeric-cohesion-protection-by-meikin-and-shugoshin-during-meiosis-i
#19
Seira Miyazaki, Jihye Kim, Takeshi Sakuno, Yoshinori Watanabe
The kinetochore is the key apparatus regulating chromosome segregation. Particularly in meiosis, unlike in mitosis, sister kinetochores are captured by microtubules emanating from the same spindle pole (mono-orientation), and sister chromatid cohesion mediated by cohesin is protected at centromeres in the following anaphase. Shugoshin, which localizes to centromeres depending on the phosphorylation of histone H2A by Bub1 kinase, plays a central role in protecting meiotic cohesin Rec8 from separase cleavage...
December 1, 2017: Cold Spring Harbor Symposia on Quantitative Biology
https://www.readbyqxmd.com/read/29192002/ms-western-a-method-of-multiplexed-absolute-protein-quantification-is-a-practical-alternative-to-western-blotting
#20
Mukesh Kumar, Shai R Joseph, Martina Augsburg, Aliona Bogdanova, David Drechsel, Nadine L Vastenhouw, Frank Buchholz, Marc Gentzel, Andrej Shevchenko
Absolute quantification of proteins elucidates the molecular composition, regulation and dynamics of multiprotein assemblies and networks. Here we report on a method termed MS Western that accurately determines the molar abundance of dozens of user-selected proteins at the sub-femtomole level in whole cell or tissue lysates without metabolic or chemical labelling and without using specific antibodies. MS Western relies upon GeLC-MS/MS and quantifies proteins by in-gel co-digestion with an isotopically labelled QconCAT protein chimera composed of concatenated proteotypic peptides...
November 30, 2017: Molecular & Cellular Proteomics: MCP
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