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apoptosis transcriptome

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https://www.readbyqxmd.com/read/29777785/psmd2-regulates-breast-cancer-cell-proliferation-and-cell-cycle-progression-by-modulating-p21-and-p27-proteasomal-degradation
#1
Yunhai Li, Jing Huang, Beilei Zeng, Dejuan Yang, Jiazheng Sun, Xuedong Yin, Mengqi Lu, Zhu Qiu, Weiyan Peng, Tingxiu Xiang, Hongzhong Li, Guosheng Ren
Alterations in the ubiquitin-proteasome system (UPS) and UPS-associated proteins have been implicated in the development of many human malignancies. In this study, we investigated the expression profiles of 797 UPS-related genes using HiSeq data from The Cancer Genome Atlas and identified that PSMD2 was markedly upregulated in breast cancer. High PSMD2 expression was significantly correlated with poor prognosis. Gene set enrichment analysis revealed that transcriptome signatures involving proliferation, cell cycle, and apoptosis were critically enriched in specimens with elevated PSMD2...
May 16, 2018: Cancer Letters
https://www.readbyqxmd.com/read/29769561/transcriptome-analysis-of-circulating-pbmcs-to-understand-mechanism-of-high-altitude-adaptation-in-native-cattle-of-ladakh-region
#2
Preeti Verma, Ankita Sharma, Monika Sodhi, Kiran Thakur, Ranjit S Kataria, Saket K Niranjan, Vijay K Bharti, Prabhat Kumar, Arup Giri, Sahil Kalia, Manishi Mukesh
Ladakhi cattle is native population of Leh and Ladakh region and constantly exposed to hypobaric hypoxia over many generations. In present study, transcriptome signatures of cattle from Ladakh region (~5500 m) and Sahiwal cattle from tropical regions were evaluated using Agilent 44 K microarray chip. The top up-regulated genes in Ladakhi cows were INHBC, ITPRI, HECA, ABI3, GPR171, and HIF-1α involved in hypoxia and stress response. In Sahiwal cows, the top up-regulated genes eEF1A1, GRO1, CXCL2, DEFB3 and BOLA-DQA3 were associated with immune function and inflammatory response indicating their strong immune potential to combat the pathogens prevalent in the tropical conditions...
May 16, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29766327/characterization-of-carfilzomib-resistant-non-small-cell-lung-cancer-cell-lines
#3
Neale T Hanke, Elliot Imler, Marilyn T Marron, Bruce E Seligmann, Linda L Garland, Amanda F Baker
PURPOSE: We previously showed that carfilzomib (CFZ) has potent anti-proliferative and cytotoxic activity in a broad range of lung cancer cell lines. Here we investigate possible mechanisms of CFZ acquired resistance in lung cancer cell lines. METHODS: CFZ-resistant non-small cell lung cancer (NSCLC) cell lines were developed by exposing A549 and H520 cells to stepwise increasing concentrations of CFZ. Resistance to CFZ and cross-resistance to bortezomib and other chemotherapy drugs was measured using the MTT assay...
May 15, 2018: Journal of Cancer Research and Clinical Oncology
https://www.readbyqxmd.com/read/29760728/mesenchymal-stromal-cells-cultured-in-serum-from-heart-failure-patients-are-more-resistant-to-simulated-chronic-and-acute-stress
#4
Timo Z Nazari-Shafti, Zhiyi Xu, Andreas Matthäus Bader, Georg Henke, Kristin Klose, Volkmar Falk, Christof Stamm
Despite regulatory issues surrounding the use of animal-derived cell culture supplements, most clinical cardiac cell therapy trials using mesenchymal stromal cells (MSCs) still rely on fetal bovine serum (FBS) for cell expansion before transplantation. We sought to investigate the effect of human serum from heart failure patients (HFS) on cord blood MSCs (CB-MSCs) during short-term culture under regular conditions and during simulated acute and chronic stress. Cell survival, proliferation, metabolic activity, and apoptosis were quantified, and gene expression profiles of selected apoptosis and cell cycle regulators were determined...
2018: Stem Cells International
https://www.readbyqxmd.com/read/29759485/roles-of-alternative-rna-splicing-of-the-bif-1-gene-by-srrm4-during-the-development-of-treatment-induced-neuroendocrine-prostate-cancer
#5
Yu Gan, Yinan Li, Zhi Long, Ahn R Lee, Ning Xie, Jessica M Lovnicki, Yuxin Tang, Xiang Chen, Jiaoti Huang, Xuesen Dong
Treatment-induced neuroendocrine prostate cancer (t-NEPC) is an aggressive subtype of prostate cancer (PCa) that becomes more prevalent when hormonal therapy, chemotherapy, or radiation therapy is applied to patients with metastatic prostate adenocarcinoma (AdPC). How AdPC cells survive these anti-cancer therapies and progress into t-NEPC remains unclear. By comparing the whole transcriptomes between AdPC and t-NEPC, we identified Bif-1, an apoptosis-associated gene, which undergoes alternative RNA splicing in t-NEPC...
May 11, 2018: EBioMedicine
https://www.readbyqxmd.com/read/29757189/notch-effector-csl-promotes-squamous-cell-carcinoma-by-repressing-histone-demethylase-kdm6b
#6
Dania Al Labban, Seung-Hee Jo, Paola Ostano, Chiara Saglietti, Massimo Bongiovanni, Renato Panizzon, G Paolo Dotto
Notch 1/2 genes play tumor-suppressing functions in squamous cell carcinoma (SCC), a very common malignancy in skin and internal organs. In contrast with Notch, we show that the transcription factor CSL (also known as RBP-Jκ), a key effector of canonical Notch signaling endowed with intrinsic transcription-repressive functions, plays a tumor-promoting function in SCC development. Expression of this gene decreased in upper epidermal layers and human keratinocytes (HKCs) undergoing differentiation, while it increased in premalignant and malignant SCC lesions from skin, head/neck, and lung...
May 14, 2018: Journal of Clinical Investigation
https://www.readbyqxmd.com/read/29753783/nicotine-induced-autophagy-of-leydig-cells-rather-than-apoptosis-is-the-major-reason-of-the-decrease-of-serum-testosterone
#7
Xianglong Zhao, Wangjie Xu, Jiajie Wu, Dong Zhang, Abdelrahman Abou-Shakra, Ling Di, Zhaoxia Wang, Lianyun Wang, Fan Yang, Zhongdong Qiao
A new report has shown that nicotine exposure can decrease serum testosterone by apoptosis in Leydig cells; however, in our previous studies, we have almost never observed apoptosis there. The purpose of this study is to ensure whether apoptosis or autophagy in Leydig cells occurred. Our results confirmed again that the concentration of testosterone in the sera of nicotine-treated mice statistically decreased (P < 0.05). Furthermore, the data of single cell transcriptome indicated that the expression of autophagy-related genes was increased after nicotine exposure...
May 10, 2018: International Journal of Biochemistry & Cell Biology
https://www.readbyqxmd.com/read/29753320/adverse-effects-of-hif1a-mutation-and-maternal-diabetes-on-the-offspring-heart
#8
Radka Cerychova, Romana Bohuslavova, Frantisek Papousek, David Sedmera, Pavel Abaffy, Vladimir Benes, Frantisek Kolar, Gabriela Pavlinkova
BACKGROUND: Epidemiological studies show that maternal diabetes predisposes offspring to cardiovascular and metabolic disorders. However, the precise mechanisms for the underlying penetrance and disease predisposition remain poorly understood. We examined whether hypoxia-inducible factor 1 alpha, in combination with exposure to a diabetic intrauterine environment, influences the function and molecular structure of the adult offspring heart. METHODS AND RESULTS: In a mouse model, we demonstrated that haploinsufficient (Hif1a+/- ) offspring from a diabetic pregnancy developed left ventricle dysfunction at 12 weeks of age, as manifested by decreased fractional shortening and structural remodeling of the myocardium...
May 12, 2018: Cardiovascular Diabetology
https://www.readbyqxmd.com/read/29747587/functional-signaling-and-gene-regulatory-networks-between-the-oocyte-and-the-surrounding-cumulus-cells
#9
Fernando H Biase, Katelyn M Kimble
BACKGROUND: The maturation and successful acquisition of developmental competence by an oocyte, the female gamete, during folliculogenesis is highly dependent on molecular interactions with somatic cells. Most of the cellular interactions identified, thus far, are modulated by growth factors, ions or metabolites. We hypothesized that this interaction is also modulated at the transcriptional level, which leads to the formation of gene regulatory networks between the oocyte and cumulus cells...
May 10, 2018: BMC Genomics
https://www.readbyqxmd.com/read/29745842/functional-enrichment-analysis-based-on-long-noncoding-rna-associations
#10
Kuo-Sheng Hung, Chung-Chi Hsiao, Tun-Wen Pai, Chin-Hwa Hu, Wen-Shyong Tzou, Wen-Der Wang, Yet-Ran Chen
BACKGROUND: Differential gene expression analysis using RNA-seq data is a popular approach for discovering specific regulation mechanisms under certain environmental settings. Both gene ontology (GO) and KEGG pathway enrichment analysis are major processes for investigating gene groups that participate in common biological responses or possess related functions. However, traditional approaches based on differentially expressed genes only detect a few significant GO terms and pathways, which are frequently insufficient to explain all-inclusive gene regulation mechanisms...
April 24, 2018: BMC Systems Biology
https://www.readbyqxmd.com/read/29743261/initiation-of-follicular-atresia-gene-networks-during-early-atresia-in-pig-ovaries
#11
Jinbi Zhang, Yang Liu, Wang Yao, Qifa Li, Hong-Lin Liu, Zengxiang Pan
In mammals, more than 99% of ovarian follicles undergo a degenerative process known as atresia. The molecular events involve in atresia initiation remain incompletely understood. The objective of this study was to analyze differential gene expression profiles of medium antral ovarian follicles during early atresia in pig. The transcriptome evaluation was performed on cDNA microarrays using healthy and early atretic follicle samples and was validated by quantitative PCR. Annotation analysis applying current database (sus scrofa 11...
May 9, 2018: Reproduction: the Official Journal of the Society for the Study of Fertility
https://www.readbyqxmd.com/read/29741294/synaptotagmin-xiii-expression-and-peritoneal-metastasis-in-gastric-cancer
#12
M Kanda, D Shimizu, H Tanaka, C Tanaka, D Kobayashi, M Hayashi, H Takami, Y Niwa, S Yamada, T Fujii, H Sugimoto, Y Kodera
BACKGROUND: Peritoneal metastasis is a frequent cause of death in patients with gastric cancer. The aim of this study was to identify molecules responsible for mediating peritoneal metastasis of gastric cancer. METHODS: Transcriptome and bioinformatics analyses were conducted to identify molecules associated with peritoneal metastasis. The therapeutic effects of intraperitoneally administered small interfering (si) RNA were evaluated using mouse xenograft models...
May 9, 2018: British Journal of Surgery
https://www.readbyqxmd.com/read/29739971/whole-transcriptome-analysis-of-atrophic-ovaries-in-broody-chickens-reveals-regulatory-pathways-associated-with-proliferation-and-apoptosis
#13
Lingbin Liu, Qihai Xiao, Elizabeth R Gilbert, Zhifu Cui, Xiaoling Zhao, Yan Wang, Huadong Yin, Diyan Li, Haihan Zhang, Qing Zhu
Broodiness in laying hens results in atrophy of the ovary and consequently decreases productivity. However, the regulatory mechanisms that drive ovary development remain elusive. Thus, we collected atrophic ovaries (AO) from 380-day-old broody chickens (BC) and normal ovaries (NO) from even-aged egg-laying hens (EH) for RNA sequencing. We identified 3,480 protein-coding transcripts that were differentially expressed (DE), including 1,719 that were down-regulated and 1,761 that were up-regulated in AO. There were 959 lncRNA transcripts that were DE, including 56 that were down-regulated and 903 that were up-regulated...
May 8, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29736818/transcriptome-profiling-reveals-phlda1-as-a-novel-molecular-marker-for-ischemic-cardiomyopathy
#14
Jinhui Wang, Feifei Wang, Jingbin Zhu, Mei Song, Jinghong An, Weimin Li
Ischemic cardiomyopathy (ICM) represents a worldwide health issue owning to its high sudden death rate. Easy diagnosis and effective treatment of ICM are still lacking. Identification of novel molecular markers will help illustrate the pathophysiology of ICM and facilitate its diagnosis and targeted treatment. Transcription profiling could be an easy and efficient way for identifying new markers. However, the mega data in the available database may contain a large number of false-positive hits. To identify the true marker for ICM, we systematically compared available microarray datasets in the GEO database and identified 26 genes that are shared by all datasets...
May 8, 2018: Journal of Molecular Neuroscience: MN
https://www.readbyqxmd.com/read/29723528/resveratrol-induces-dynamic-changes-to-the-microglia-transcriptome-inhibiting-inflammatory-pathways-and-protecting-against-microglia-mediated-photoreceptor-apoptosis
#15
Johanna Wiedemann, Khalid Rashid, Thomas Langmann
Microglia activation is central to the pathophysiology of retinal degenerative disorders. Resveratrol, a naturally occurring non-flavonoid phenolic compound present in red wine has potent anti-inflammatory and immunomodulatory properties. However, molecular mechanisms by which resveratrol influences microglial inflammatory pathways and housekeeping functions remain unclear. Here, we first studied the immuno-modulatory effects of resveratrol on BV-2 microglial cells at the transcriptome level using DNA-microarrays and selected qRT-PCR analyses...
April 30, 2018: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/29721391/a-genetic-ifn-stat1-fas-axis-determines-cd4-t-stem-cell-memory-levels-and-apoptosis-in-healthy-controls-and-adult-t-cell-leukemia-patients
#16
Ricardo Khouri, Gilvanéia Silva-Santos, Tim Dierckx, Soraya Maria Menezes, Daniele Decanine, Kristof Theys, Aline Clara Silva, Lourdes Farré, Achiléa Bittencourt, Massimo Mangino, Mario Roederer, Anne-Mieke Vandamme, Johan Van Weyenbergh
Adult T-cell leukemia (ATL) is an aggressive, chemotherapy-resistant CD4+ CD25+ leukemia caused by HTLV-1 infection, which usually develops in a minority of patients several decades after infection. IFN + AZT combination therapy has shown clinical benefit in ATL, although its mechanism of action remains unclear. We have previously shown that an IFN-responsive FAS promoter polymorphism in a STAT1 binding site (rs1800682) is associated to ATL susceptibility and survival. Recently, CD4 T stem cell memory (TSCM ) Fashi cells have been identified as the hierarchical cellular apex of ATL, but a possible link between FAS, apoptosis, proliferation and IFN response in ATL has not been studied...
2018: Oncoimmunology
https://www.readbyqxmd.com/read/29713085/determinants-of-response-and-resistance-to-cd19-chimeric-antigen-receptor-car-t-cell-therapy-of-chronic-lymphocytic-leukemia
#17
Joseph A Fraietta, Simon F Lacey, Elena J Orlando, Iulian Pruteanu-Malinici, Mercy Gohil, Stefan Lundh, Alina C Boesteanu, Yan Wang, Roddy S O'Connor, Wei-Ting Hwang, Edward Pequignot, David E Ambrose, Changfeng Zhang, Nicholas Wilcox, Felipe Bedoya, Corin Dorfmeier, Fang Chen, Lifeng Tian, Harit Parakandi, Minnal Gupta, Regina M Young, F Brad Johnson, Irina Kulikovskaya, Li Liu, Jun Xu, Sadik H Kassim, Megan M Davis, Bruce L Levine, Noelle V Frey, Donald L Siegel, Alexander C Huang, E John Wherry, Hans Bitter, Jennifer L Brogdon, David L Porter, Carl H June, J Joseph Melenhorst
Tolerance to self-antigens prevents the elimination of cancer by the immune system1,2 . We used synthetic chimeric antigen receptors (CARs) to overcome immunological tolerance and mediate tumor rejection in patients with chronic lymphocytic leukemia (CLL). Remission was induced in a subset of subjects, but most did not respond. Comprehensive assessment of patient-derived CAR T cells to identify mechanisms of therapeutic success and failure has not been explored. We performed genomic, phenotypic and functional evaluations to identify determinants of response...
April 30, 2018: Nature Medicine
https://www.readbyqxmd.com/read/29705293/cytotoxicity-of-radiocontrast-dyes-in-human-umbilical-cord-mesenchymal-stem-cells
#18
Christina McKee, Naimisha Beeravolu, Shreeya Bakshi, Bryan Thibodeau, George Wilson, Mick Perez-Cruet, G Rasul Chaudhry
Radiocontrast dyes are used for a wide range of diagnostic procedures for enhancing the image of anatomical structures, pain targets, and vascular uptake. While some of these dyes show toxicity to primary cells, their effect on stem cells, particularly mesenchymal stem cells (MSCs), is unknown. This study investigates the cytotoxic effects of two clinically used radiocontrast dyes, iohexol and iopamidol, on bone marrow and human umbilical cord MSCs. Exposure to these dyes significantly affected morphology of MSCs from both sources, as treated cells appeared transparent and no longer fibroblastoid...
April 26, 2018: Toxicology and Applied Pharmacology
https://www.readbyqxmd.com/read/29704219/receptor-gene-protein-mediated-signaling-connects-methylprednisolone-exposure-to-metabolic-and-immune-related-pharmacodynamic-actions-in-liver
#19
Vivaswath S Ayyar, Siddharth Sukumaran, Debra C DuBois, Richard R Almon, Jun Qu, William J Jusko
A multiscale pharmacodynamic model was developed to characterize the receptor-mediated, transcriptomic, and proteomic determinants of corticosteroid (CS) effects on clinically relevant hepatic processes following a single dose of methylprednisolone (MPL) given to adrenalectomized (ADX) rats. The enhancement of tyrosine aminotransferase (TAT) mRNA, protein, and enzyme activity were simultaneously described. Mechanisms related to the effects of MPL on glucose homeostasis, including the regulation of CCAAT-enhancer binding protein-beta (C/EBPβ) and phosphoenolpyruvate carboxykinase (PEPCK) as well as insulin dynamics were evaluated...
April 27, 2018: Journal of Pharmacokinetics and Pharmacodynamics
https://www.readbyqxmd.com/read/29703140/molecular-mechanisms-of-an-antimicrobial-peptide-piscidin-lc-pis-in-a-parasitic-protozoan-cryptocaryon-irritans
#20
Ruanni Chen, Yong Mao, Jun Wang, Min Liu, Ying Qiao, Libing Zheng, Yongquan Su, Qiaozhen Ke, Weiqiang Zheng
BACKGROUND: Cryptocaryon irritans is an obligate parasitic ciliate protozoan that can infect various commercially important mariculture fish species and cause high lethality and economic loss. Current methods of controlling this parasite with chemicals or antibiotics are widely considered to be environmentally harmful. Piscidins with broad spectrum antibacterial, antifungal and antiviral activities were found to have potent activity against C. irritans. Little, however, has been understood about the killing mechanisms of piscidins in parasites...
March 12, 2018: BMC Genomics
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