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https://www.readbyqxmd.com/read/29432129/identification-of-two-distinct-classes-of-the-human-ino80-complex-genome-wide
#1
John S Runge, Jesse R Raab, Terry Magnuson
Chromatin remodeling and histone modifying enzymes play a critical role in shaping the regulatory output of a cell. Although much is known about these classes of proteins, identifying the mechanisms by which they coordinate gene expression programs remains an exciting topic of investigation. One factor that may contribute to the targeting and activity of chromatin regulators is local chromatin landscape. We leveraged genomic approaches and publically-available datasets to characterize the chromatin landscape at targets of the human INO80 chromatin remodeling complex (INO80-C)...
February 5, 2018: G3: Genes—Genomes—Genetics
https://www.readbyqxmd.com/read/29425509/polycomb-group-protein-yy1-is-an-essential-regulator-of-hematopoietic-stem-cell-quiescence
#2
Zhanping Lu, Courtney C Hong, Guangyao Kong, Anna L F V Assumpção, Irene M Ong, Emery H Bresnick, Jing Zhang, Xuan Pan
Yin yang 1 (YY1) is a ubiquitous transcription factor and mammalian polycomb group protein (PcG) with important functions to regulate embryonic development, lineage differentiation, and cell proliferation. YY1 mediates stable PcG-dependent transcriptional repression via recruitment of PcG proteins that catalyze histone modifications. Many questions remain unanswered regarding how cell- and tissue-specificity is achieved by PcG proteins. Here, we demonstrate that a conditional knockout of Yy1 in hematopoietic stem cells (HSCs) decreases long-term repopulating activity and ectopic YY1 expression expands HSCs...
February 6, 2018: Cell Reports
https://www.readbyqxmd.com/read/29407374/characterization-of-interaction-between-trim28-and-yy1-in-silencing-proviral-dna-of-moloney-murine-leukemia-virus
#3
Andreia Lee, Oya CingÖz, Yosef Sabo, Stephen P Goff
Moloney Murine Leukemia Virus (M-MLV) proviral DNA is transcriptionally silenced in embryonic cells by a large repressor complex tethered to the provirus by two sequence-specific DNA binding proteins, ZFP809 and YY1. A central component of the complex is Trim28, a scaffold protein that regulates many target genes involved in cell cycle progression, DNA damage responses, and viral gene expression. The silencing activity of Trim28, and its interactions with corepressors are often regulated by post-translational modifications such as sumoylation and phosphorylation...
January 26, 2018: Virology
https://www.readbyqxmd.com/read/29396463/the-mir-135b-bmal1-yy1-loop-disturbs-pancreatic-clockwork-to-promote-tumourigenesis-and-chemoresistance
#4
Weiliang Jiang, Senlin Zhao, Jia Shen, Lihong Guo, Yi Sun, Yuntian Zhu, Zhixiong Ma, Xin Zhang, Yangyang Hu, Wenqin Xiao, Kai Li, Sisi Li, Li Zhou, Li Huang, Zhanjun Lu, Yun Feng, Junhua Xiao, Eric Erquan Zhang, Lijuan Yang, Rong Wan
Circadian disruption has been implicated in tumour development, but the underlying mechanism remains unclear. Here, we show that the molecular clockwork within malignant human pancreatic epithelium is disrupted and that this disruption is mediated by miR-135b-induced BMAL1 repression. miR-135b directly targets the BMAL1 3'-UTR and thereby disturbs the pancreatic oscillator, and the downregulation of miR-135b is essential for the realignment of the cellular clock. Asynchrony between miR-135b and BMAL1 expression impairs the local circadian gating control of tumour suppression and significantly promotes tumourigenesis and resistance to gemcitabine in pancreatic cancer (PC) cells, as demonstrated by bioinformatics analyses of public PC data sets and in vitro and in vivo functional studies...
February 2, 2018: Cell Death & Disease
https://www.readbyqxmd.com/read/29393412/wwc3-inhibits-intimal-proliferation-following-vascular-injury-via-the-hippo-signaling-pathway
#5
Beijia Chen, Guinan Liu
The Hippo signaling pathway is involved in the formation and development of the cardiovascular system. In the present study, the effects of WWC family member 3 (WWC3) on vascular smooth muscle cells (VSMCs) following injury were investigated, in addition to the associated mechanisms underlying this process. Platelet‑derived growth factor BB (PDGF‑BB) was used as a cell injury factor, and rats with balloon injuries were used as a model of carotid intimal injury. Furthermore, the expression levels of WWC3 in VSMCs and arteries post‑injury were investigated, in addition to the effect of WWC3 on the proliferation and migration of VSMCs...
January 25, 2018: Molecular Medicine Reports
https://www.readbyqxmd.com/read/29383875/multiple-roles-of-ring-1-and-yy1-binding-protein-in-physiology-and-disease
#6
REVIEW
Shaohua Zhan, Tianxiao Wang, Wei Ge, Jinming Li
Ring 1 and YY1 binding protein (RYBP) was first identified in 1999, and its structure includes a conserved Npl4 Zinc finger motif at the N-terminus, a central region that is characteristically enriched with arginine and lysine residues and a C-terminal region enriched with serine and threonine amino acids. Over nearly 20 years, multiple studies have found that RYBP functions as an organ developmental adaptor. There is also evidence that RYBP regulates the expression of different genes involved in various aspects of biological processes, via a mechanism that is dependent on interactions with components of PcG complexes and/or through binding to different transcriptional factors...
January 31, 2018: Journal of Cellular and Molecular Medicine
https://www.readbyqxmd.com/read/29365100/proteomic-analysis-of-foxp-proteins-reveals-interactions-between-cortical-transcription-factors-associated-with-neurodevelopmental-disorders
#7
Sara B Estruch, Sarah A Graham, Martí Quevedo, Arianna Vino, Dick H W Dekkers, Pelagia Deriziotis, Elliot Sollis, Jeroen Demmers, Raymond A Poot, Simon E Fisher
FOXP transcription factors play important roles in neurodevelopment, but little is known about how their transcriptional activity is regulated. FOXP proteins cooperatively regulate gene expression by forming homo- and hetero-dimers with each other. Physical associations with other transcription factors might also modulate the functions of FOXP proteins. However, few FOXP-interacting transcription factors have been identified so far. Therefore, we sought to discover additional transcription factors that interact with the brain-expressed FOXP proteins, FOXP1, FOXP2 and FOXP4, through affinity-purifications of protein complexes followed by mass spectrometry...
January 22, 2018: Human Molecular Genetics
https://www.readbyqxmd.com/read/29358858/influence-of-tbx21-t-1993c-variant-on-autoimmune-hepatitis-development-by-yin-yang-1-binding
#8
Wei Sun, Hong-Yan Wu, Song Chen
AIM: To investigated the mechanism of the association between the TBX21 T-1993C promoter polymorphism and autoimmune hepatitis type 1 (AIH-1) development. METHODS: In vivo, In vivo, and reporter analyses were performed to determine the function of transcription factors binding to the T-1993C element of the TBX21 promoter in human CD4+ T and B cell lines. Flow cytometry and quantitative real-time PCR were used to analyze T-box transcription factor (T-bet) and interferon-γ (IFN-γ) expressions in CD4+ T cells, B cells and monocytes from the peripheral blood of AIH-1 patients including 5-1993TC and 15-1993TT genotype carriers, and healthy controls including 10-1993TC and 25-1993TT genotype carriers...
December 28, 2017: World Journal of Gastroenterology: WJG
https://www.readbyqxmd.com/read/29356241/tumor-necrosis-factor-%C3%AE-regulates-human-follicular-dendritic-cell-secreted-protein-gene-transcription-in-gingival-epithelial-cells
#9
Yasunobu Iwai, Keisuke Noda, Mizuho Yamazaki, Ayako Kato, Masaru Mezawa, Hideki Takai, Yohei Nakayama, Yorimasa Ogata
Follicular dendritic cell-secreted protein (FDC-SP) is a secreted protein expressed in follicular dendritic cells, periodontal ligament and junctional epithelium. To elucidate the transcriptional regulation of the human FDC-SP gene by tumor necrosis factor-α (TNF-α), we conducted real-time PCR, Western blotting, transient transfection analyses with chimeric constructs of the FDC-SP gene promoter linked to a luciferase reporter gene, gel mobility shift and chromatin immunoprecipitation assays using Ca9-22 gingival epithelial cells...
January 22, 2018: Genes to Cells: Devoted to Molecular & Cellular Mechanisms
https://www.readbyqxmd.com/read/29328431/bioinformatic-analysis-of-gene-expression-profiling-of-intracranial-aneurysm
#10
Lijuan Bo, Bo Wei, Zhanfeng Wang, Chaohui Li, Zheng Gao, Zhuang Miao
Intracranial aneurysm (IA) is a severe clinical condition of primary concern and currently, there is no effective therapeutic reagent. The present study aimed to investigate the molecular mechanism of IA via bioinformatic analysis. Various gene expression profiles (GSE26969) were downloaded from the Gene Expression Omnibus database, including 3 IA and 3 normal superficial temporal artery samples. Firstly, the limma package in R language was used to identify differentially expressed genes (DEGs; P‑value <0...
December 29, 2017: Molecular Medicine Reports
https://www.readbyqxmd.com/read/29322514/the-yin-and-yang-of-yy1-in-tumor-growth-and-suppression
#11
REVIEW
Levon M Khachigian
Yin Yang-1 (YY1) is a zinc finger protein and member of the GLI-Kruppel family that can activate or inactivate gene expression depending on interacting partners, promoter context and chromatin structure, and may be involved in the transcriptional control of ∼10% of the total mammalian gene set. A growing body of literature indicates that YY1 is overexpressed in multiple cancer types and that increased YY1 levels correlate with poor clinical outcomes in many cancers. However the role of YY1 in the promotion or suppression of tumor growth remains controversial and its regulatory effects may be tumor cell type dependent at least in experimental systems...
January 11, 2018: International Journal of Cancer. Journal International du Cancer
https://www.readbyqxmd.com/read/29320735/rybp-is-a-k63-ubiquitin-chain-binding-protein-that-inhibits-homologous-recombination-repair
#12
Mohammad A M Ali, Hilmar Strickfaden, Brian L Lee, Leo Spyracopoulos, Michael J Hendzel
Ring1-YY1-binding protein (RYBP) is a member of the non-canonical polycomb repressive complex 1 (PRC1), and like other PRC1 members, it is best described as a transcriptional regulator. However, several PRC1 members were recently shown to function in DNA repair. Here, we report that RYBP preferentially binds K63-ubiquitin chains via its Npl4 zinc finger (NZF) domain. Since K63-linked ubiquitin chains are assembled at DNA double-strand breaks (DSBs), we examined the contribution of RYBP to DSB repair. Surprisingly, we find that RYBP is K48 polyubiquitylated by RNF8 and rapidly removed from chromatin upon DNA damage by the VCP/p97 segregase...
January 9, 2018: Cell Reports
https://www.readbyqxmd.com/read/29305708/identification-of-specific-feed-forward-apoptosis-mechanisms-and-associated-higher-survival-rates-for-low-grade-glioma-and-lung-squamous-cell-carcinoma
#13
Dhiraj Sikaria, Yaping N Tu, Diana A Fisler, James A Mauro, George Blanck
The mechanisms of cell proliferation due to the overexpression of certain transcription factors (TFs) have been well documented in the cancer setting. However, many of these same TFs have pro-apoptotic effects, particularly when expressed or activated at high levels, a process referred to as feed-forward apoptosis (FFA). To determine whether cancers could be stratified on the basis of specific FFA signatures, RNASeq data representing samples from the cancer genome atlas were analyzed, revealing that high expression of the pro-proliferative TFs, MYC and YY1, is associated with a favorable outcome in low-grade glioma (LGG) and lung squamous cell carcinoma (LUSC), respectively...
January 5, 2018: Journal of Cancer Research and Clinical Oncology
https://www.readbyqxmd.com/read/29282478/tumor-necrosis-factor-%C3%AE-stimulates-human-amelotin-gene-transcription-in-gingival-epithelial-cells
#14
Mizuho Yamazaki, Yasunobu Iwai, Keisuke Noda, Sari Matsui, Ayako Kato, Hideki Takai, Yohei Nakayama, Yorimasa Ogata
OBJECTIVE: Amelotin (AMTN) is an enamel protein that is localized in the basal lamina of ameloblasts in their maturation stage and the internal basal lamina of junctional epithelium (JE) and it is suggested that AMTN could be involved in the dentogingival attachment. To elucidate the transcriptional regulation of human AMTN gene in inflamed gingiva, we have analyzed the effect of tumor necrosis factor-α (TNF-α) on the expression of AMTN gene in Ca9-22 and Sa3 human gingival epithelial cells...
December 27, 2017: Inflammation Research: Official Journal of the European Histamine Research Society ... [et Al.]
https://www.readbyqxmd.com/read/29247020/yy1-facilitates-enhancer-promoter-contacts-to-promote-gene-expression
#15
(no author information available yet)
YY1 preferentially occupies active enhancers and promoters and forms dimers to promote DNA looping.
December 15, 2017: Cancer Discovery
https://www.readbyqxmd.com/read/29224777/yy1-is-a-structural-regulator-of-enhancer-promoter-loops
#16
Abraham S Weintraub, Charles H Li, Alicia V Zamudio, Alla A Sigova, Nancy M Hannett, Daniel S Day, Brian J Abraham, Malkiel A Cohen, Behnam Nabet, Dennis L Buckley, Yang Eric Guo, Denes Hnisz, Rudolf Jaenisch, James E Bradner, Nathanael S Gray, Richard A Young
There is considerable evidence that chromosome structure plays important roles in gene control, but we have limited understanding of the proteins that contribute to structural interactions between gene promoters and their enhancer elements. Large DNA loops that encompass genes and their regulatory elements depend on CTCF-CTCF interactions, but most enhancer-promoter interactions do not employ this structural protein. Here, we show that the ubiquitously expressed transcription factor Yin Yang 1 (YY1) contributes to enhancer-promoter structural interactions in a manner analogous to DNA interactions mediated by CTCF...
November 30, 2017: Cell
https://www.readbyqxmd.com/read/29221988/modulations-of-keap1-nrf2-signaling-axis-by-tiia-ameliorated-the-oxidative-stress-induced-myocardial-apoptosis
#17
Shi-Hai Yan, Ning-Wei Zhao, Zhi-Rong Geng, Jia-Yin Shen, Fu-Ming Liu, Dong Yan, Jie Zhou, Chao Nie, Cheng-Cai Huang, Zhu-Yuan Fang
Mounting evidence has strongly implicated oxidative stress in the development of cardiac dysfunction, and myocardial apoptosis contributes to the pathogenesis of heart failure. Quantitative cardiac proteomics data revealed that pressure load by TAC resulted in a significant decline in mitochondrial metabolic activity, where TIIA (Tanshinone IIA sulfonate) treatment reversed it in vivo, which might be mediated by Nrf2. In NRVMs, TIIA treatment ameliorated H2O2-induced caspase-3/9 activations through the suppression of p38 and mTOR signaling pathways, where caspase-mediated cleavage of YY1 and PARP resulted in the defects in mitochondrial biogenesis and DNA repair, and this event finally led to cardiomyocyte apoptosis...
December 5, 2017: Free Radical Biology & Medicine
https://www.readbyqxmd.com/read/29216638/microrna-122-inhibits-lipid-droplet-formation-and-hepatic-triglyceride-accumulation-via-yin-yang-1
#18
Guo-Yi Wu, Chen Rui, Ji-Qiao Chen, Eiketsu Sho, Shan-Shan Zhan, Xian-Wen Yuan, Yi-Tao Ding
BACKGROUND/AIMS: An increase in intracellular lipid droplet formation and hepatic triglyceride (TG) content usually results in nonalcoholic fatty liver disease. However, the mechanisms underlying the regulation of hepatic TG homeostasis remain unclear. METHODS: Oil red O staining and TG measurement were performed to determine the lipid content. miRNA expression was evaluated by quantitative PCR. A luciferase assay was performed to validate the regulation of Yin Yang 1 (YY1) by microRNA (miR)-122...
2017: Cellular Physiology and Biochemistry
https://www.readbyqxmd.com/read/29168185/yy1-suppresses-proliferation-and-migration-of-pancreatic-ductal-adenocarcinoma-by-regulating-the-cdkn3-mdm2-p53-p21-signaling-pathway
#19
Dongfang Liu, Jingjing Zhang, Yang Wu, Guodong Shi, Hao Yuan, Zipeng Lu, Qicong Zhu, Pengfei Wu, Cheng Lu, Feng Guo, Jianmin Chen, Kuirong Jiang, Yi Miao
Pancreatic ductal adenocarcinoma (PDAC) is one of the malignant lethal tumors. It has been reported that the transcriptional regulator Yin Yang-1 (YY1) suppressed the invasion and metastasis of PDAC. However, the function of YY1 on proliferation and migration of pancreatic cancer remains to be clarified. In this study, we found that YY1 overexpression or knockdown can inhibit or promote the proliferation and migration of pancreatic cancer cells. Digital gene expression (DGE) sequencing indicates that cyclin-dependent kinase inhibitor 3 (CDKN3) may be the candidate target gene of YY1...
November 23, 2017: International Journal of Cancer. Journal International du Cancer
https://www.readbyqxmd.com/read/29167838/yy1-controls-e%C3%AE-3-rr-dna-loop-formation-and-immunoglobulin-heavy-chain-class-switch-recombination
#20
Parul Mehra, Tatiana Gerasimova, Arindam Basu, Vibha Jha, Anupam Banerjee, Vishal Sindhava, Falon Gray, Corbett T Berry, Ranjan Sen, Michael L Atchison
No abstract text is available yet for this article.
November 29, 2016: Blood Advances
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