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https://www.readbyqxmd.com/read/28069074/a-next-generation-microarray-further-reveals-stage-enriched-gene-expression-pattern-in-the-blood-fluke-schistosoma-japonicum
#1
Pengfei Cai, Shuai Liu, Xianyu Piao, Nan Hou, Hong You, Donald P McManus, Qijun Chen
BACKGROUND: Schistosomiasis is caused by infection with blood flukes of the genus Schistosoma, and ranks, in terms of disability-adjusted life years (DALYs), as the third most important neglected tropical disease. Schistosomes have several discrete life stages involving dramatic morphological changes during their development, which require subtle gene expression modulations to complete the complex life-cycle. RESULTS: In the current study, we employed a second generation schistosome DNA chip printed with the most comprehensive probe array for studying the Schistosoma japonicum transcriptome, to explore stage-associated gene expression in different developmental phases of S...
January 10, 2017: Parasites & Vectors
https://www.readbyqxmd.com/read/28046103/transcriptome-profiling-identifies-ribosome-biogenesis-as-a-target-of-alcohol-teratogenicity-and-vulnerability-during-early-embryogenesis
#2
Mark E Berres, Ana Garic, George R Flentke, Susan M Smith
Fetal alcohol spectrum disorder (FASD) is a leading cause of neurodevelopmental disability. Individuals with FASD may exhibit a characteristic facial appearance that has diagnostic utility. The mechanism by which alcohol disrupts craniofacial development is incompletely understood, as are the genetic factors that can modify individual alcohol vulnerability. Using an established avian model, we characterized the cranial transcriptome in response to alcohol to inform the mechanism underlying these cells' vulnerability...
2017: PloS One
https://www.readbyqxmd.com/read/28040594/transcriptome-analysis-of-egfr-tyrosine-kinase-inhibitors-resistance-associated-long-noncoding-rna-in-non-small-cell-lung-cancer
#3
Pei Ma, Meiling Zhang, Fengqi Nie, Zebo Huang, Jing He, Wei Li, Liang Han
The non-small cell lung cancer (NSCLC) patients harbor mutations in the epidermal growth factor receptor (EGFR) can be therapeutically targeted by EGFR tyrosine kinase inhibitors (EGFR-TKI), such as gefitinib, and show improved progression-free survival. However, most of the patients who are initially responsive to EGFR TKIs with activating EGFR mutations eventually develop acquired resistance after long-term therapy, and are followed by disease progression. Recently, diverse mechanisms of acquired EGFR TKI resistance have been reported, but little is known about the role of long noncoding RNAs in EGFR TKIs resistance...
December 29, 2016: Biomedicine & Pharmacotherapy, Biomédecine & Pharmacothérapie
https://www.readbyqxmd.com/read/28030852/drug-induced-premature-senescence-model-in-human-dental-follicle-stem-cells
#4
Yuanfen Zhai, Rongbin Wei, Junjun Liu, Huihui Wang, Wenping Cai, Mengmeng Zhao, Yongguang Hu, Shuwei Wang, Tianshu Yang, Xiaodong Liu, Jianhua Yang, Shangfeng Liu
Aging is identified by a progressive decline of physiological integrity leading to age-related degenerative diseases, but its causes is unclear. Human dental pulp stem cells (hDPSCs) has a remarkable rejuvenated capacity that relies on its resident stem cells. However, because of the lack of proper senescence models, exploration of the underlying molecular mechanisms has been hindered. Here, we established a cellular model utilizing a hydroxyurea (HU) treatment protocol and effectively induced Human dental pulp stem cells to undergo cellular senescence...
December 21, 2016: Oncotarget
https://www.readbyqxmd.com/read/28008150/prkar2b-plays-an-oncogenic-role-in-the-castration-resistant-prostate-cancer
#5
Jianjun Sha, Wei Xue, Baijun Dong, Jiahua Pan, Xiaorong Wu, Dong Li, Dongming Liu, Yiran Huang
Castration-resistant prostate cancer (CRPC) is an advanced form of prostate cancer. Despite some progresses have been made, the mechanism of CRPC development is still largely unknown, including the genes involved in its development have not been well defined. Here, we identifiedPRKAR2B to be a gene over-expressingin castration-resistant prostate cancer by analyzing the different online databases. Followed functional validation experiments showed that PRKAR2B promoted CRPC cell proliferation and invasion, and inhibited CRPC cell apoptosis...
December 20, 2016: Oncotarget
https://www.readbyqxmd.com/read/28003305/co-occurring-mutations-of-tumor-suppressor-genes-lats2-and-nf2-in-malignant-pleural-mesothelioma
#6
Robin Tranchant, Lisa Quetel, Anne Tallet, Clément Meiller, Annie Renier, Leanne de Koning, Aurélien de Reyniès, Francoise Le Pimpec Barthes, Jessica Zucman-Rossi, Marie-Claude Jaurand, Didier Jean
PURPOSE: To better define MPM heterogeneity and identify molecular subtypes of malignant pleural mesothelioma (MPM), we focus on the tumor suppressor gene LATS2, a member of the Hippo signaling pathway, which plays a key role in mesothelial carcinogenesis. EXPERIMENTAL DESIGN: Sixty-one MPM primary cultures established in our laboratory were screened for mutations in LATS2. Gene inactivation was modeled using siRNAs. Gene and protein expressions were analyzed by quantitative RT-PCR, western blot and RPPA...
December 21, 2016: Clinical Cancer Research: An Official Journal of the American Association for Cancer Research
https://www.readbyqxmd.com/read/27999389/transcriptome-analysis-to-understand-the-toxicity-of-latrodectus-tredecimguttatus-eggs
#7
Dehong Xu, Xianchun Wang
Latrodectus tredecimguttatus is a kind of highly venomous black widow spider, with toxicity coming from not only venomous glands but also other parts of its body as well as newborn spiderlings and eggs. Up to date, although L. tredecimguttatus eggs have been demonstrated to be rich in proteinaceous toxins, there is no systematic investigation on such active components at transcriptome level. In this study, we performed a high-throughput transcriptome sequencing of L. tredecimguttatus eggs with Illumina sequencing technology...
December 20, 2016: Toxins
https://www.readbyqxmd.com/read/27997714/genomic-and-transcriptomic-analysis-of-imatinib-resistance-in-gastrointestinal-stromal-tumors
#8
Tsuyoshi Takahashi, Asmaa Elzawahry, Sachiyo Mimaki, Eisaku Furukawa, Rie Nakatsuka, Hiromi Nakamura, Takahiko Nishigaki, Satoshi Serada, Tetsuji Naka, Seiichi Hirota, Tatsuhiro Shibata, Katsuya Tsuchihara, Toshirou Nishida, Mamoru Kato
Gastrointestinal stromal tumors represent the most common mesenchymal tumor of the digestive tract, driven by gain-of-function mutations in KIT. Despite its proven benefits, half of the patients treated with imatinib show disease progression within 2 years due to secondary resistance mutations in KIT. It remains unclear how the genomic and transcriptomic features change during the acquisition of imatinib resistance. Here, we performed exome sequencing and microarray transcription analysis for four imatinib-resistant cell lines and one cell line briefly exposed to imatinib...
December 20, 2016: Genes, Chromosomes & Cancer
https://www.readbyqxmd.com/read/27994654/downregulation-of-rnf128-predicts-progression-and-poor-prognosis-in-patients-with-urothelial-carcinoma-of-the-upper-tract-and-urinary-bladder
#9
Yi-Ying Lee, Chieh-Tien Wang, Steven Kuan-Hua Huang, Wen-Jeng Wu, Chun-Nung Huang, Ching-Chia Li, Ti-Chun Chan, Peir-In Liang, Chung-Hsi Hsing, Chien-Feng Li
Background: The TP53 tumor suppressor gene plays a crucial role in the carcinogenesis of many malignancies, including urothelial carcinoma (UC). Overexpression of p53 is associated with poor prognosis in UC. Recently, RING finger protein 128 (RNF128) was shown to be involved in p53-induced apoptosis, forming a negative feedback loop. However, the significance of RNF128 in patients with UC remains unknown. In this study, our aim was to evaluate the expression of RNF128 in UC and to assess its predictive and prognostic value in a well-established cohort...
2016: Journal of Cancer
https://www.readbyqxmd.com/read/27986595/the-chac1-inhibited-notch3-pathway-is-involved-in-temozolomide-induced-glioma-cytotoxicity
#10
Peng-Hsu Chen, Wan-Lin Shen, Chwen-Ming Shih, Kuo-Hao Ho, Chia-Hsiung Cheng, Cheng-Wei Lin, Chin-Cheng Lee, Ann-Jeng Liu, Ku-Chung Chen
Glioblastoma multiforme (GBM) is the high-grade primary glioma in adults. Temozolomide (TMZ), an alkylating agent of the imidazotetrazine series, is a first-line chemotherapeutic drug for clinical therapy. However, the expense of TMZ therapy and increasing drug resistance to TMZ decreases its therapeutic effects. Therefore, our aim was to investigate the detailed molecular mechanisms of TMZ-mediated cytotoxicity to enhance the efficacy of TMZ in clinical GBM therapy. First, TMZ-mediated gene expression profiles and networks in U87-MG cells were identified by transcriptome microarray and bioinformatic analyses...
December 13, 2016: Neuropharmacology
https://www.readbyqxmd.com/read/27983601/transcriptome-of-cultured-lung-fibroblasts-in-idiopathic-pulmonary-fibrosis-meta-analysis-of-publically-available-microarray-datasets-reveals-repression-of-inflammation-and-immunity-pathways
#11
Laurent Plantier, Hélène Renaud, Renaud Respaud, Sylvain Marchand-Adam, Bruno Crestani
Heritable profibrotic differentiation of lung fibroblasts is a key mechanism of idiopathic pulmonary fibrosis (IPF). Its mechanisms are yet to be fully understood. In this study, individual data from four independent microarray studies comparing the transcriptome of fibroblasts cultured in vitro from normal (total n = 20) and IPF (total n = 20) human lung were compiled for meta-analysis following normalization to z-scores. One hundred and thirteen transcripts were upregulated and 115 were downregulated in IPF fibroblasts using the Significance Analysis of Microrrays algorithm with a false discovery rate of 5%...
December 13, 2016: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/27981244/evaluating-side-effects-of-nanoparticle-mediated-sirna-delivery-to-mesenchymal-stem-cells-using-next-generation-sequencing-and-enrichment-analysis
#12
Dominic W Malcolm, Janet E Sorrells, Daniel Van Twisk, Juilee Thakar, Danielle S W Benoit
RNA interference has immense potential to modulate cell functions. However, effective delivery of small interfering RNA (siRNA) while avoiding deleterious side effects has proven challenging. This study investigates both intended and unintended effects of diblock copolymer nanoparticle (NP) delivery of siRNA delivery to human mesenchymal stem cells (hMSC). Specifically, siRNA delivery was investigated at a range of NP-siRNA:hMSC ratios with a focus on the effects of NP-siRNA treatment on hMSC functions. Additionally, next generation RNA sequencing (RNAseq) was used with enrichment analysis to observe side effects in hMSC gene expression...
June 2016: Bioeng Transl Med
https://www.readbyqxmd.com/read/27980230/a-childhood-acute-lymphoblastic-leukemia-specific-lncrna-implicated-in-prednisolone-resistance-cell-proliferation-and-migration
#13
Manon Ouimet, Simon Drouin, Mathieu Lajoie, Maxime Caron, Pascal St-Onge, Romain Gioia, Chantal Richer, Daniel Sinnett
Childhood acute lymphoblastic leukemia (cALL) is the most common pediatric cancer and, despite an 85% cure rate, still represents a major cause of disease-related death in children. Recent studies have implicated long non-coding RNAs (lncRNAs) in cALL etiology, progression, and treatment response. However, barring some exceptions little is known about the functional impact of lncRNAs on cancer biology, which limits their potential as potential therapeutic targets. We wanted to investigate the functional role of lncRNAs identified as specifically overexpressed in pre-B cALL by whole-transcriptome sequencing...
December 14, 2016: Oncotarget
https://www.readbyqxmd.com/read/27980103/repositioning-fda-approved-drugs-in-combination-with-epigenetic-drugs-to-reprogram-colon-cancer-epigenome
#14
Noël J-M Raynal, Elodie M Da Costa, Justin T Lee, Vazganush Gharibyan, Saira Ahmed, Hanghang Zhang, Takahiro Sato, Gabriel G Malouf, Jean-Pierre J Issa
Epigenetic drugs, such as DNA methylation inhibitors (DNMTi) or histone deacetylase inhibitors (HDACi), are approved in monotherapy for cancer treatment. These drugs reprogram gene expression profiles, reactivate tumor suppressor genes (TSG) producing cancer cell differentiation and apoptosis. Epigenetic drugs have been shown to synergize with other epigenetic drugs or various anticancer drugs. To discover new molecular entities that enhance epigenetic therapy, we performed a high-throughput screening using FDA-approved libraries in combination with DNMTi or HDACi...
December 15, 2016: Molecular Cancer Therapeutics
https://www.readbyqxmd.com/read/27974560/zika-virus-infects-early-and-mid-gestation-human-maternal-decidual-tissues-inducing-distinct-innate-tissue-responses-in-the-maternal-fetal-interface
#15
Yiska Weisblum, Esther Oiknine-Djian, Olesya M Vorontsov, Ronit Haimov-Kochman, Zichria Zakay-Rones, Karen Meir, David Shveiky, Sharona Elgavish, Yuval Nevo, Moshe Roseman, Michal Bronstein, David Stockheim, Ido From, Iris Eisenberg, Aya A Lewkowicz, Simcha Yagel, Amos Panet, Dana G Wolf
: Zika virus (ZIKV) has emerged as a cause of congenital brain anomalies and a range of placental-related abnormalities, highlighting the need to unveil the modes of maternal-to-fetal transmission. The most likely route of vertical ZIKV transmission is via the placenta. The earliest events of ZIKV transmission in the maternal decidua, representing the maternal-uterine aspect of the chimeric placenta, have remained unexplored. Here we show that ZIKV replicates in first-trimester human maternal-decidual tissues grown ex-vivo as 3D organ cultures...
December 14, 2016: Journal of Virology
https://www.readbyqxmd.com/read/27974506/ionizing-radiation-regulates-long-non-coding-rnas-in-human-peripheral-blood-mononuclear-cells
#16
Lucian Beer, Lucas Nemec, Tanja Wagner, Robin Ristl, Lukas M Altenburger, Hendrik Jan Ankersmit, Michael Mildner
Long non-coding RNAs (lncRNAs) are non-protein coding transcripts that modulate mRNA and microRNA (miRNA) expression, thereby controlling multiple cellular processes, including transcriptional regulation of gene expression, cell differentiation and apoptosis. Ionizing radiation (IR), a strong cellular stressor, is known to influence gene expression of irradiated cells, mainly by activation of oxidative processes. Whether and how IR also affects lncRNA expression in human peripheral blood mononuclear cells (PBMCs) is still poorly understood...
December 14, 2016: Journal of Radiation Research
https://www.readbyqxmd.com/read/27957556/rbm5-reduces-small-cell-lung-cancer-growth-increases-cisplatin-sensitivity-and-regulates-key-transformation-associated-pathways
#17
Julie J Loiselle, Justin G Roy, Leslie C Sutherland
Small cell lung cancer (SCLC) is the most aggressive type of lung cancer, with almost 95% of patients succumbing to the disease. Although RBM5, a tumor suppressor gene, is downregulated in the majority of lung cancers, its role in SCLC is unknown. Using the GLC20 SCLC cell line, which has a homozygous deletion encompassing the RBM5 gene locus, we established stable RBM5 expressing sublines and investigated the effects of RBM5 re-expression. Transcriptome and target identification studies determined that RBM5 directly regulates the cell cycle and apoptosis in SCLC cells, as well as significantly downregulates other important transformation-associated pathways such as angiogenesis and cell adhesion...
November 2016: Heliyon
https://www.readbyqxmd.com/read/27940565/differentially-expressed-genes-and-gene-networks-involved-in-pig-ovarian-follicular-atresia
#18
Elena Terenina, Stephane Fabre, Agnes Bonnet, Danielle Monniaux, Christele Robert-Granie, Magali SanCristobal, Julien Sarry, Florence Vignoles, Florence Gondret, Philippe Monget, Gwenola Tosser-Klopp
Ovarian folliculogenesis corresponds to the development of follicles leading to either ovulation or degeneration, this latter process being called atresia. Even if atresia involves apoptosis, its mechanism is not well-understood. The objective of this project was to analyse global gene expression in pig granulosa cells of ovarian follicles during atresia. The transcriptome analysis was performed using 9216 cDNAs microarray to identify gene networks and candidate genes involved in pig ovarian follicular atresia...
December 9, 2016: Physiological Genomics
https://www.readbyqxmd.com/read/27926863/chronic-infection-depletes-hematopoietic-stem-cells-through-stress-induced-terminal-differentiation
#19
Katie A Matatall, Mira Jeong, Siyi Chen, Deqiang Sun, Fengju Chen, Qianxing Mo, Marek Kimmel, Katherine Y King
Chronic infections affect a third of the world's population and can cause bone marrow suppression, a severe condition that increases mortality from infection. To uncover the basis for infection-associated bone marrow suppression, we conducted repeated infection of WT mice with Mycobacterium avium. After 4-6 months, mice became pancytopenic. Their hematopoietic stem and progenitor cells (HSPCs) were severely depleted and displayed interferon gamma (IFN-γ) signaling-dependent defects in self-renewal. There was no evidence of increased HSPC mobilization or apoptosis...
December 6, 2016: Cell Reports
https://www.readbyqxmd.com/read/27922670/downregulation-of-laptm5-suppresses-cell-proliferation-and-viability-inducing-cell-cycle-arrest-at-g0-g1-phase-of-bladder-cancer-cells
#20
Liang Chen, Gang Wang, Yi Luo, Yongzhi Wang, Conghua Xie, Wei Jiang, Yu Xiao, Guofeng Qian, Xinghuan Wang
Our transcriptome analysis revealed in bladder cancer (BCa) tissues a significant induction of lysosomal-associated multispanning membrane protein 5 (LAPTM5), a lysosomal membrane protein preferentially expressing in immune cells and hematopoietic cells. Transportation of LAPTM5 from Golgi to lysosome could be inhibited by deficiency of Nedd4, a key member of E3 ubiquitin ligase family overexpressing in invasive BCa and promoting its progression. Therefore, we hypothesize that LAPTM5 may be closely correlated with BCa tumorigenesis...
January 2017: International Journal of Oncology
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