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https://www.readbyqxmd.com/read/28637241/the-chromatin-remodeling-complex-swi-snf-regulates-splicing-of-meiotic-transcripts-in-saccharomyces-cerevisiae
#1
Srivats Venkataramanan, Stephen Douglass, Anoop R Galivanche, Tracy L Johnson
Despite its relatively streamlined genome, there are important examples of regulated RNA splicing in Saccharomyces cerevisiae, such as splicing of meiotic transcripts. Like other eukaryotes, S. cerevisiae undergoes a dramatic reprogramming of gene expression during meiosis, including regulated splicing of a number of crucial meiosis-specific RNAs. Splicing of a subset of these is dependent upon the splicing activator Mer1. Here we show a crucial role for the chromatin remodeler Swi/Snf in regulation of splicing of meiotic genes and find that the complex affects meiotic splicing in two ways...
May 10, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28634282/genomic-alterations-in-fatal-forms-of-non-anaplastic-thyroid-cancer-identification-of-med12-and-rbm10-as-novel-thyroid-cancer-genes-associated-with-tumor-virulence
#2
Tihana Ibrahimpasic, Bin Xu, Iñigo Landa, Snjezana Dogan, Sumit Middha, Venkatraman Seshan, Shyamprasad Deraje Vasudeva, Diane Carlson, Jocelyn Migliacci, Jeffrey A Knauf, Brian R Untch, Michael F Berger, Luc Gt Morris, R Michael Tuttle, Timothy A Chan, James A Fagin, Ronald Ghossein, Ian Ganly
Purpose. Patients with anaplastic thyroid cancer have a very high death rate. In contrast, deaths from non-anaplastic thyroid cancer are much less common. The genetic alterations in fatal non-anaplastic thyroid cancers have not been reported. <p>Experimental Design. We performed next-generation sequencing of 410 cancer genes from 57 fatal non-anaplastic thyroid primary cancers. Results were compared to The Cancer Genome Atlas study (TCGA study) of papillary thyroid cancers (PTC) and to the genomic changes reported in anaplastic thyroid cancer (ATC)...
June 20, 2017: Clinical Cancer Research: An Official Journal of the American Association for Cancer Research
https://www.readbyqxmd.com/read/28628842/matching-genomic-molecular-aberrations-with-molecular-targeted-agents-are-biliary-tract-cancers-an-ideal-playground
#3
REVIEW
Loic Verlingue, Antoine Hollebecque, Valérie Boige, Michel Ducreux, David Malka, Charles Ferté
Biliary tract cancers (BTCs) are a heterogeneous group of tumours with geographical discrepancies in terms of incidence and risk factors. However, a convergent genomic and epigenetic mutational landscape emerges from the genome-wide screens of BTCs in South East Asia, Latin America and in the Western World. Specificities are observed for some alterations and anatomical subtypes: frequent fibroblast growth factor receptor 2 (FGFR2) and isocitrate dehydrogenase 1/2 (IDH1/2) alterations are specific to intrahepatic cholangiocarcinomas (ICCs), whereas frequent ERBB2 oncogene alterations are specific to extrahepatic cholangiocarcinomas (ECCs) and gallbladder carcinomas (GBCs)...
June 16, 2017: European Journal of Cancer
https://www.readbyqxmd.com/read/28628817/dynamics-of-dissolved-nutrients-in-the-aquaculture-shrimp-ponds-of-the-min-river-estuary-china-concentrations-fluxes-and-environmental-loads
#4
Ping Yang, Derrick Y F Lai, Baoshi Jin, David Bastviken, Lishan Tan, Chuan Tong
Dissolved inorganic nutrients (NO2(-)-N, NO3(-)-N, NH4(+)-N, and PO4(3-)-P) play a critical role in the effective management of water quality and prevention of fish and shrimp diseases in aquaculture systems. In this study, dissolved inorganic nutrient concentrations in the water column and sediment porewater, and the fluxes across the sediment-water interface (SWI) were investigated in three intensive shrimp ponds with zero water exchange to examine nutrient cycling during the different growth stages of shrimps...
June 16, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/28623093/the-role-of-smarcal1-in-replication-fork-stability-and-telomere-maintenance
#5
REVIEW
Natalia Lugli, Sotirios K Sotiriou, Thanos D Halazonetis
SMARCAL1 (SWI/SNF Related, Matrix Associated, Actin Dependent Regulator Of Chromatin, Subfamily A-Like 1), also known as HARP, is an ATP-dependent annealing helicase that stabilizes replication forks during DNA damage. Mutations in this gene are the cause of Schimke immune-osseous dysplasia (SIOD), an autosomal recessive disorder characterized by T-cell immunodeficiency and growth dysfunctions. In this review, we summarize the main roles of SMARCAL1 in DNA repair, telomere maintenance and replication fork stability in response to DNA replication stress...
June 10, 2017: DNA Repair
https://www.readbyqxmd.com/read/28619072/the-arabidopsis-swi-snf-protein-baf60-mediates-seedling-growth-control-by-modulating-dna-accessibility
#6
Teddy Jégu, Alaguraj Veluchamy, Juan S Ramirez-Prado, Charley Rizzi-Paillet, Magalie Perez, Anaïs Lhomme, David Latrasse, Emeline Coleno, Serge Vicaire, Stéphanie Legras, Bernard Jost, Martin Rougée, Fredy Barneche, Catherine Bergounioux, Martin Crespi, Magdy M Mahfouz, Heribert Hirt, Cécile Raynaud, Moussa Benhamed
BACKGROUND: Plant adaptive responses to changing environments involve complex molecular interplays between intrinsic and external signals. Whilst much is known on the signaling components mediating diurnal, light, and temperature controls on plant development, their influence on chromatin-based transcriptional controls remains poorly explored. RESULTS: In this study we show that a SWI/SNF chromatin remodeler subunit, BAF60, represses seedling growth by modulating DNA accessibility of hypocotyl cell size regulatory genes...
June 15, 2017: Genome Biology
https://www.readbyqxmd.com/read/28611094/agonist-specific-protein-interactomes-of-glucocorticoid-and-androgen-receptor-as-revealed-by-proximity-mapping
#7
Joanna K Lempiäinen, Einari A Niskanen, Kaisa-Mari Vuoti, Riikka E Lampinen, Helka Göös, Markku Varjosalo, Jorma J Palvimo
Glucocorticoid receptor (GR) and androgen receptor (AR) are steroid-inducible transcription factors (TFs). GR and AR are central regulators of various metabolic, homeostatic and differentiation processes and hence important therapeutic targets, especially in inflammation and prostate cancer, respectively. Hormone binding to these steroid receptors (SRs) leads to DNA binding and activation or repression of their target genes with the aid of interacting proteins, coregulators. However, protein interactomes of these important drug targets have remained poorly defined...
June 13, 2017: Molecular & Cellular Proteomics: MCP
https://www.readbyqxmd.com/read/28602977/brm-smarca2-promotes-the-proliferation-and-chemoresistance-of-pancreatic-cancer-cells-by-targeting-jak2-stat3-signaling
#8
Zhengkui Zhang, Feng Wang, Chong Du, Huahu Guo, Ling Ma, Xiaoran Liu, Marko Kornmann, Xiaodong Tian, Yinmo Yang
BACKGROUND: BRM is one of two evolutionarily conserved catalytic ATPase subunits of SWI/SNF complexes and plays important role in cell proliferation, linage specification and development, cell adhesion, cytokine responses and DNA repair. BRM is often inactivated in various types of cancer indicating its indispensable roles in oncogenesis but the mechanisms remain poorly understood. METHODS: BRM expression in clinical pancreatic cancer samples was examined by immunohistochemistry and the correlation with patient survival was analyzed...
June 7, 2017: Cancer Letters
https://www.readbyqxmd.com/read/28599463/cancer-gene-panel-analysis-of-cultured-circulating-tumor-cells-and-primary-tumor-tissue-from-patients-with-breast-cancer
#9
Eunjoo Hwang, Ji-Hyun Uh, Hye Seon Lee, Cham Han Lee, Soo Jeong Lee, Sei Hyun Ahn, Byung Ho Son, Jong Won Lee, Jong Han Yu, Nak-Jung Kwon, Woo Chung Lee, Kap-Seok Yang, Sung Ho Choi, Myoung Shin Kim, Jinseon Lee, Byung Hee Jeon
Although numerous effective therapies have improved the survival rate of patients with breast cancer, a number of patients present with tumor recurrence and metastasis. A liquid biopsy of circulating tumor cells (CTC) is a non-invasive method to obtain tumor cells and may be used as substitute for a tumor tissue biopsy. The present study focuses on determining whether CTC culture is an optimal method of obtaining sufficient amounts of CTCs for molecular analysis. The current study demonstrates a method of isolating and culturing CTCs from patients with breast cancer and the construction of a molecular profile of cultured cells using the Ion AmpliSeq Cancer Gene Panel V2...
June 2017: Oncology Letters
https://www.readbyqxmd.com/read/28592388/characterization-of-clinical-cases-of-advanced-papillary-renal-cell-carcinoma-via-comprehensive-genomic-profiling
#10
Sumanta K Pal, Siraj M Ali, Evgeny Yakirevich, Daniel M Geynisman, Jose A Karam, Julia A Elvin, Garrett M Frampton, Xuan Huang, Douglas I Lin, Mark Rosenzweig, Doron Lipson, Philip J Stephens, Jeffrey S Ross, Vincent A Miller, Neeraj Agarwal, Brian Shuch, Toni K Choueiri, Jon H Chung
BACKGROUND: Papillary renal cell carcinoma (PRCC) is a rare subset of RCC. The Cancer Genome Atlas (TCGA) data largely reflect localized disease, and there are limited data for advanced PRCC. OBJECTIVE: To characterize the frequency of genomic alterations (GAs) in patients with advanced PRCC for whom comprehensive genomic profiling (CGP) was performed in the context of routine clinical care. DESIGN, SETTING, AND PARTICIPANTS: Formalin-fixed, paraffin-embedded tissue was obtained for 169 consecutive patients with confirmed PRCC...
May 30, 2017: European Urology
https://www.readbyqxmd.com/read/28589484/longitudinal-volume-quantification-of-deep-medullary-veins-in-patients-with-cerebral-venous-sinus-thrombosis-venous-volume-assessment-in-cerebral-venous-sinus-thrombosis-using-swi
#11
A K Dempfle, A Harloff, F Schuchardt, J Bäuerle, S Yang, H Urbach, K Egger
PURPOSE: Susceptibility-weighted imaging (SWI) visualizes small cerebral veins with high sensitivity and could, thus, enable quantification of hemodynamics of deep medullary veins. We aimed to evaluate volume changes of deep medullary veins in patients with acute cerebral venous sinus thrombosis (CVST) over time in comparison to healthy controls. METHODS: All magnetic resonance imaging (MRI) experiments were executed at 3 T using a 32-channel head coil. Based on SWI and semiautomatic postprocessing (statistical parametric mapping [SPM8] and ANTs), the volume of deep medullary veins was quantified in 14 patients with acute CVST at baseline and the 6‑month follow-up, as well as in 13 healthy controls undergoing repeated MRI examination with an interscan interval of at least 1 month...
June 6, 2017: Clinical Neuroradiology
https://www.readbyqxmd.com/read/28588126/differences-in-subependymal-vein-anatomy-may-predispose-preterm-infants-to-gmh-ivh
#12
Domenico Tortora, Mariasavina Severino, Mariya Malova, Alessandro Parodi, Giovanni Morana, Jan Sedlacik, Paul Govaert, Joseph J Volpe, Andrea Rossi, Luca Antonio Ramenghi
BACKGROUND AND PURPOSE: The anatomy of the deep venous system plays an important role in the pathogenesis of brain lesions in the preterm brain as shown by different histological studies. The aims of this study were to compare the subependymal vein anatomy of preterm neonates with germinal matrix haemorrhage-intraventricular haemorrhage (GMH-IVH), as evaluated by susceptibility-weighted imaging (SWI) venography, with a group of age-matched controls with normal brain MRI, and to explore the relationship between the anatomical features of subependymal veins and clinical risk factors for GMH-IVH...
June 6, 2017: Archives of Disease in Childhood. Fetal and Neonatal Edition
https://www.readbyqxmd.com/read/28580390/glucocorticoid-receptor-mediated-cis-repression-of-osteogenic-genes-requires-brm-swi-snf
#13
Michael J Pico, Sharareh Hashemi, Fuhua Xu, Kevin Hong Nguyen, Robert Donnelly, Elizabeth Moran, Stephen Flowers
Glucocorticoids are an effective therapy for a variety of severe inflammatory and autoimmune disorders; however, the therapeutic use of glucocorticoids is severely limited by their negative side effects, particularly on osteogenesis. Glucocorticoids regulate transcription by binding to the glucocorticoid receptor (GR), which then binds the promoters of target genes to induce either activation or repression. The gene activation effects of nuclear hormone receptors broadly require the cooperation of the chromatin remodeling complex known as SWI/SNF, which is powered by an ATPase core...
December 2016: Bone Reports
https://www.readbyqxmd.com/read/28580051/cerebral-misery-perfusion-on-susceptibility-weighted-imaging-in-acute-carotid-dissection
#14
Arian Mashhood, Paggie Kim, Frankis Almaguel, Geoffery McWilliams, J Paul Jacobson
The cerebral vasculature incorporates several fail-safes that must be breached before an irreversible ischemic event takes place. In particular, when autoregulatory vasodilatation fails secondary to falling cerebral perfusion pressure (CPP; stage I hemodynamic failure), increases in the oxygen extraction fraction work to maintain the cerebral metabolic rate of oxygen. Previously, failure of this mechanism, stage II hemodynamic failure, or misery perfusion, has been imaged via positron emission tomography/computed tomography (PET/CT)...
October 2016: Journal of Radiology Case Reports
https://www.readbyqxmd.com/read/28579039/total-mismatch-of-diffusion-weighted-imaging-and-susceptibility-weighted-imaging-in-patients-with-acute-cerebral-ischemia
#15
Min-Gyu Park, Jeong A Yeom, Seung Kug Baik, Kyung-Pil Park
BACKGROUND AND PURPOSE: Multiple hypointense vessels (MHV) on susceptibility-weighted imaging (SWI) is associated with an increased oxygen demand in acute cerebral ischemia. Occasionally, some patients exhibit extensive MHV on SWI despite of negative diffusion-weighted imaging (DWI), which is a phenomenon called total mismatch DWI-SWI. We analyzed the clinical characteristics and imaging findings in patients with the total DWI-SWI mismatch. MATERIALS AND METHODS: We selected patients with total DWI-SWI mismatch who underwent MRI within 12hours from onset...
May 31, 2017: Journal of Neuroradiology. Journal de Neuroradiologie
https://www.readbyqxmd.com/read/28571703/diagnosis-of-intracranial-calcification-and-hemorrhage-in-pediatric-patients-comparison-of-quantitative-susceptibility-mapping-and-phase-images-of-susceptibility-weighted-imaging
#16
S Ciraci, K Gumus, S Doganay, M S Dundar, G D Kaya Ozcora, S B Gorkem, H Per, A Coskun
PURPOSE: To prospectively compare the diagnostic capabilities of quantitative susceptibility mapping (QSM) with those of phase images of susceptibility-weighted imaging (SWI) in the detection and differentiation of intracranial calcification and hemorrhage in pediatric patients. METHOD: Sixteen pediatric patients (9 girls, 7 boys) with a mean age of 9.4±6.3 (SD) years (range, 6 days-15 years) were included. Fifty-nine calcifications and 31 hemorrhages were detected...
May 29, 2017: Diagnostic and Interventional Imaging
https://www.readbyqxmd.com/read/28565751/application-of-high-field-magnetic-resonance-imaging-in-parkinson-s-disease
#17
Peng-Fei Qiao, Feng Shi, Ming-Fang Jiang, Yang Gao, Guang-Ming Niu
The present study aimed to observe the structural changes of the extracorticospinal tract in Parkinson's disease (PD) using susceptibility-weighted imaging (SWI) and diffusion tensor imaging (DTI) magnetic resonance (MR) scans. The association of DTI parameters and brain-iron accumulation with PD was examined and imaging signs useful in the diagnosis of PD were explored. The study included 30 patients with PD and 30 age- and gender-matched healthy controls who underwent routine MR, SWI and DTI scans. The corrected phase (CP) values of the substantia nigra (SN), red nucleus (RN), globus pallidus (GP) and putamen (PUT) were measured, and fractional anisotropy (FA) and apparent diffusion coefficient (ADC) values were obtained...
May 2017: Experimental and Therapeutic Medicine
https://www.readbyqxmd.com/read/28560152/improved-cerebral-microbleeds-detection-using-their-magnetic-signature-on-t2-phase-contrast-a-comparison-study-in-a-clinical-setting
#18
Takoua Kaaouana, Anne Bertrand, Fatma Ouamer, Bruno Law-Ye, Nadya Pyatigorskaya, Ali Bouyahia, Nathalie Thiery, Carole Dufouil, Christine Delmaire, Didier Dormont, Ludovic de Rochefort, Marie Chupin
INTRODUCTION/PURPOSE: In vivo detection of cerebral microbleeds (CMBs) from T2* gradient recalled echo (GRE) magnitude image suffers from low specificity, modest inter-rater reproducibility and is biased by its sensitivity to acquisition parameters. New methods were proposed for improving this identification, but they mostly rely on 3D acquisitions, not always feasible in clinical practice. A fast 2D phase processing technique for computing internal field maps (IFM) has been shown to make it possible to characterize CMBs through their magnetic signature in routine clinical setting, based on 2D multi-slice acquisitions...
2017: NeuroImage: Clinical
https://www.readbyqxmd.com/read/28558987/genomic-characterization-of-renal-medullary-carcinoma-and-treatment-outcomes
#19
Maria I Carlo, Joshua Chaim, Sujata Patil, Yelena Kemel, Alison M Schram, Kaitlin Woo, Devyn Coskey, Gouri J Nanjangud, Martin H Voss, Darren R Feldman, James J Hsieh, A Ari Hakimi, Ying-Bei Chen, Robert J Motzer, Chung-Han Lee
BACKGROUND: Renal medullary carcinoma (RMC) is a rare and aggressive type of kidney cancer that primarily affects young adults with sickle cell trait; outcomes are poor despite treatment. Identifying molecular features of this tumor could provide biologic rationale for novel targeted therapies. The objective was to report on clinical outcomes with systemic therapy and characterize molecular features. PATIENTS AND METHODS: This was a retrospective analysis on 36 patients given a pathologic diagnosis of RMC at one institution from 1995 to 2015...
April 26, 2017: Clinical Genitourinary Cancer
https://www.readbyqxmd.com/read/28555282/smarca4-deficient-pulmonary-adenocarcinoma-clinicopathological-immunohistochemical-and-molecular-characteristics-of-a-novel-aggressive-neoplasm-with-a-consistent-ttf1-neg-ck7-pos-heppar-1-pos-immunophenotype
#20
Abbas Agaimy, Florian Fuchs, Evgeny A Moskalev, Horia Sirbu, Arndt Hartmann, Florian Haller
Alterations in SMARCA4, a member of the chromatin remodeling Switch Sucrose Non-Fermentable (SWI/SNF) complex, characterize a subset of non-small cell lung cancer (NSCLC), but detailed morphological and immunophenotypic description of this tumor type is lacking. We describe 20 NSCLC cases found on routine screening not to express SMARCA4 by immunohistochemistry (IHC). These tumors were stained for CK7, TTF1, SMARCA2, SMARCA4, SMARCB1, and HepPar-1 and analyzed for molecular alterations, using a 160 cancer-related gene panel including the full coding sequence of SMARCA4...
May 30, 2017: Virchows Archiv: An International Journal of Pathology
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