keyword
MENU ▼
Read by QxMD icon Read
search

transcription elongation

keyword
https://www.readbyqxmd.com/read/29351914/high-resolution-transcription-maps-reveal-the-widespread-impact-of-roadblock-termination-in-yeast
#1
Tito Candelli, Drice Challal, Jean-Baptiste Briand, Jocelyne Boulay, Odil Porrua, Jessie Colin, Domenico Libri
Transcription termination delimits transcription units but also plays important roles in limiting pervasive transcription. We have previously shown that transcription termination occurs when elongating RNA polymerase II (RNAPII) collides with the DNA-bound general transcription factor Reb1. We demonstrate here that many different DNA-binding proteins can induce termination by a similar roadblock (RB) mechanism. We generated high-resolution transcription maps by the direct detection of RNAPII upon nuclear depletion of two essential RB factors or when the canonical termination pathways for coding and non-coding RNAs are defective...
January 19, 2018: EMBO Journal
https://www.readbyqxmd.com/read/29348174/oligomer-formation-and-g-quadruplex-binding-by-purified-murine-rif1-protein-a-key-organizer-of-higher-order-chromatin-architecture
#2
Kenji Moriyama, Naoko Yoshizawa-Sugata, Hisao Masai
Rap1-interacting protein 1(Rif1) regulates telomere length in budding yeast. We previously reported that, in metazoans and fission yeast, Rif1 also plays pivotal roles in controlling genome-wide DNA replication timing. We proposed that Rif1 may assemble chromatin compartments that contain specific replication-timing domains by promoting chromatin loop formation. Rif1 also is involved in DNA lesion repair, restart after replication fork collapse, anti-apoptosis activities, replicative senescence, and transcriptional regulation...
January 18, 2018: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/29345523/hexim1-an-rna-controlled-protein-hub
#3
Annemieke A Michels, Olivier Bensaude
Hexim1 acts as a tumor suppressor and is involved in the regulation of innate immunity. It was initially described as a non-coding RNA-dependent regulator of transcription. Here, we detail how 7SK RNA binds to Hexim1 and turns it into an inhibitor of the positive transcription elongation factor (P-TEFb). In addition to its action on P-TEFb, it plays a role in a variety of different mechanisms: it controls the stability of transcription factor components and assists binding of transcription factors to their targets...
January 18, 2018: Transcription
https://www.readbyqxmd.com/read/29342219/the-expression-profile-and-prognostic-significance-of-eukaryotic-translation-elongation-factors-in-different-cancers
#4
Md Khurshidul Hassan, Dinesh Kumar, Monali Naik, Manjusha Dixit
Eukaryotic translation factors, especially initiation factors have garnered much attention with regards to their role in the onset and progression of different cancers. However, the expression levels and prognostic significance of translation elongation factors remain poorly explored in different cancers. In this study, we have investigated the mRNA transcript levels of seven translation elongation factors in different cancer types using Oncomine and TCGA databases. Furthermore, we have identified the prognostic significance of these factors using Kaplan-Meier Plotter and SurvExpress databases...
2018: PloS One
https://www.readbyqxmd.com/read/29339073/the-human-gcom1-complex-gene-interacts-with-the-nmda-receptor-and-internexin-alpha
#5
Raymond S Roginski, Chi W Lau, Phillip P Santoiemma, Sara J Weaver, Peicheng Du, Patricia Soteropoulos, Jay Yang
The known functions of the human GCOM1 complex hub gene include transcription elongation and the intercalated disk of cardiac myocytes. However, in all likelihood, the gene's most interesting, and thus far least understood, roles will be found in the central nervous system. To investigate the functions of the GCOM1 gene in the CNS, we have cloned human and rat brain cDNAs encoding novel, 105 kDa GCOM1 combined (Gcom) proteins, designated Gcom15, and identified a new group of GCOM1 interacting genes, termed Gints, from yeast two-hybrid (Y2H) screens...
January 12, 2018: Gene
https://www.readbyqxmd.com/read/29337993/the-impact-of-ribosomal-interference-codon-usage-and-exit-tunnel-interactions-on-translation-elongation-rate-variation
#6
Khanh Dao Duc, Yun S Song
Previous studies have shown that translation elongation is regulated by multiple factors, but the observed heterogeneity remains only partially explained. To dissect quantitatively the different determinants of elongation speed, we use probabilistic modeling to estimate initiation and local elongation rates from ribosome profiling data. This model-based approach allows us to quantify the extent of interference between ribosomes on the same transcript. We show that neither interference nor the distribution of slow codons is sufficient to explain the observed heterogeneity...
January 16, 2018: PLoS Genetics
https://www.readbyqxmd.com/read/29337078/circadian-waves-of-transcriptional-repression-shape-pif-regulated-photoperiod-responsive-growth-in-arabidopsis
#7
Guiomar Martín, Arnau Rovira, Nil Veciana, Judit Soy, Gabriela Toledo-Ortiz, Charlotte M M Gommers, Marc Boix, Rossana Henriques, Eugenio G Minguet, David Alabadí, Karen J Halliday, Pablo Leivar, Elena Monte
Plants coordinate their growth and development with the environment through integration of circadian clock and photosensory pathways. In Arabidopsis thaliana, rhythmic hypocotyl elongation in short days (SD) is enhanced at dawn by the basic-helix-loop-helix (bHLH) transcription factors PHYTOCHROME-INTERACTING FACTORS (PIFs) directly inducing expression of growth-related genes [1-6]. PIFs accumulate progressively during the night and are targeted for degradation by active phytochromes in the light, when growth is reduced...
January 9, 2018: Current Biology: CB
https://www.readbyqxmd.com/read/29337075/brassinosteroids-dominate-hormonal-regulation-of-plant-thermomorphogenesis-via-bzr1
#8
Carla Ibañez, Carolin Delker, Cristina Martinez, Katharina Bürstenbinder, Philipp Janitza, Rebecca Lippmann, Wenke Ludwig, Hequan Sun, Geo Velikkakam James, Maria Klecker, Alexandra Grossjohann, Korbinian Schneeberger, Salome Prat, Marcel Quint
Thermomorphogenesis is defined as the suite of morphological changes that together are likely to contribute to adaptive growth acclimation to usually elevated ambient temperature [1, 2]. While many details of warmth-induced signal transduction are still elusive, parallels to light signaling recently became obvious (reviewed in [3]). It involves photoreceptors that can also sense changes in ambient temperature [3-5] and act, for example, by repressing protein activity of the central integrator of temperature information PHYTOCHROME-INTERACTING FACTOR 4 (PIF4 [6])...
January 5, 2018: Current Biology: CB
https://www.readbyqxmd.com/read/29334652/insight-into-the-expression-variation-of-metal-responsive-genes-in-the-seedling-of-date-palm-phoenix-dactylifera
#9
Zayneb Chaâbene, Agnieszka Rorat, Imen Rekik Hakim, Fabien Bernard, Grubb C Douglas, Amine Elleuch, Franck Vandenbulcke, Hafedh Mejdoub
Phytochelatin synthase and metallothionein gene expressions were monitored via qPCR in order to investigate the molecular mechanisms involved in Cd and Cr detoxification in date palm (Phoenix dactylifera). A specific reference gene validation procedure using BestKeeper, NormFinder and geNorm programs allowed selection of the three most stable reference genes in a context of Cd or Cr contamination among six reference gene candidates, namely elongation factor α1, actin, aldehyde dehydrogenase, SAND family, tubulin 6 and TaTa box binding protein...
December 28, 2017: Chemosphere
https://www.readbyqxmd.com/read/29332244/structural-insights-into-the-function-of-elongator
#10
REVIEW
Udit Dalwadi, Calvin K Yip
Conserved from yeast to humans, Elongator is a protein complex implicated in multiple processes including transcription regulation, α-tubulin acetylation, and tRNA modification, and its defects have been shown to cause human diseases such as familial dysautonomia. Elongator consists of two copies of six core subunits (Elp1, Elp2, Elp3, Elp4, Elp5, and Elp6) that are organized into two subcomplexes: Elp1/2/3 and Elp4/5/6 and form a stable assembly of ~ 850 kDa in size. Although the catalytic subunit of Elongator is Elp3, which contains a radical S-adenosyl-L-methionine (SAM) domain and a putative histone acetyltransferase domain, the Elp4/5/6 subcomplex also possesses ATP-modulated tRNA binding activity...
January 13, 2018: Cellular and Molecular Life Sciences: CMLS
https://www.readbyqxmd.com/read/29332189/the-arabidopsis-histone-chaperone-fact-is-required-for-stress-induced-expression-of-anthocyanin-biosynthetic-genes
#11
Alexander Pfab, Matthias Breindl, Klaus D Grasser
The histone chaperone FACT is involved in the expression of genes encoding anthocyanin biosynthetic enzymes also upon induction by moderate high-light and therefore contributes to the stress-induced plant pigmentation. The histone chaperone FACT consists of the SSRP1 and SPT16 proteins and associates with transcribing RNAPII (RNAPII) along the transcribed region of genes. FACT can promote transcriptional elongation by destabilising nucleosomes in the path of RNA polymerase II, thereby facilitating efficient transcription of chromatin templates...
January 13, 2018: Plant Molecular Biology
https://www.readbyqxmd.com/read/29326042/keratin-13-gene-is-epigenetically-suppressed-during-transforming-growth-factor-%C3%AE-1-induced-epithelial-mesenchymal-transition-in-a-human-keratinocyte-cell-line
#12
Mitsutoki Hatta, Yuki Miyake, Kunitoshi Uchida, Jun Yamazaki
Epithelial-mesenchymal transition (EMT) is a biological event in which epithelial cells lose their polarity and cell-cell adhesions and concomitantly acquire mesenchymal traits, and is thought to play an important role in pathological processes such as wound healing and cancer progression. In this study, we evaluated transforming growth factor (TGF)-β1-treated human keratinocyte HaCaT cells as an in vitro model of EMT. HaCaT cells were changed into an elongated fibroblast-like morphology, which is indicative of EMT in response to TGF-β1...
January 8, 2018: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/29325609/the-cag-polyglutamine-repeat-diseases-a-clinical-molecular-genetic-and-pathophysiologic-nosology
#13
Colleen A Stoyas, Albert R La Spada
Throughout the genome, unstable tandem nucleotide repeats can expand to cause a variety of neurologic disorders. Expansion of a CAG triplet repeat within a coding exon gives rise to an elongated polyglutamine (polyQ) tract in the resultant protein product, and accounts for a unique category of neurodegenerative disorders, known as the CAG-polyglutamine repeat diseases. The nine members of the CAG-polyglutamine disease family include spinal and bulbar muscular atrophy (SBMA), Huntington disease, dentatorubral pallidoluysian atrophy, and six spinocerebellar ataxias (SCA 1, 2, 3, 6, 7, and 17)...
2018: Handbook of Clinical Neurology
https://www.readbyqxmd.com/read/29321952/fasciculation-and-elongation-zeta-1-protein-fez1-interacts-with-the-retinoic-acid-receptor-and-participates-in-transcriptional-regulation-of-the-hoxb4-gene
#14
Mariana Bertini Teixeira, Ana Carolina M Figueira, Ariane S Furlan, Bruno Aquino, Marcos R Alborghetti, Adriana F Paes Leme, Li-Na Wei, Jörg Kobarg
Fasciculation and elongation zeta-1 (FEZ1) protein is involved in axon outgrowth and is highly expressed in the brain. It has multiple interaction partners, with functions varying from the regulation of neuronal development and intracellular transport mechanisms to transcription regulation. One of its interactors is retinoic acid receptor (RAR), which is activated by retinoic acid and controls many target genes and physiological process. Based on previous evidence suggesting a possible nuclear role for FEZ1, we wanted to deepen our understanding of this function by addressing the FEZ1-RAR interaction...
January 2018: FEBS Open Bio
https://www.readbyqxmd.com/read/29321347/identification-of-housekeeping-genes-as-references-for-quantitative-real-time-rt-pcr-analysis-in-misgurnus-anguillicaudatus
#15
Xiaohua Xia, Weiran Huo, Ruyan Wan, Xiaopei Xia, Qiyan Du, Zhongjie Chang
Quantitative real-time reverse transcription-polymerase chain reaction (qRT-PCR) is a well-known method to quantify gene expression by comparing with the reference genes. Generally, housekeeping genes were set as references, as for their stable expression in varying conditions. Here, we try to evaluate few of such genes to identify suitable housekeeping genes as references for qRT-PCR analysis of gene expression in Misgurnus anguillicaudatus. This study evaluated the expression of four commonly used housekeeping genes, i...
December 2017: Journal of Genetics
https://www.readbyqxmd.com/read/29321188/far-red-light-detection-in-the-shoot-regulates-lateral-root-development-through-the-hy5-transcription-factor
#16
Kasper van Gelderen, Chiakai Kang, Richard Paalman, Diederik H Keuskamp, Scott Hayes, Ronald Pierik
Plants in dense vegetation compete for resources and detect competitors through reflection of far-red (FR) light from surrounding plants. This reflection causes a reduced red(R):FR ratio, which is sensed through phytochromes. Low R:FR induces shade avoidance responses of the shoot and also changes the root system architecture, although this has received little attention so far. Here we investigate the molecular mechanisms through which light detection in the shoot regulates root development in Arabidopsis thaliana...
January 9, 2018: Plant Cell
https://www.readbyqxmd.com/read/29321164/kras-oncoprotein-expression-is-regulated-by-a-self-governing-eif5a-peak1-feed-forward-regulatory-loop
#17
Ken Fujimura, Huawei Wang, Felicia Watson, Richard L Klemke
There remains intense interest in tractable approaches to target or silence the KRAS oncoprotein as a rational therapeutic strategy to attack pancreatic adenocarcinoma (PDAC) and other cancers which overexpress it. Here we provide evidence that accumulation of the KRAS oncoprotein is controlled by a self-regulating feed-forward regulatory loop that utilizes a unique hypusinated isoform of the translation elongation factor eIF5A and the tyrosine kinase PEAK1. Oncogenic activation of KRAS increased eIF5A-PEAK1 translational signaling, which in turn facilitated increased KRAS protein synthesis...
January 10, 2018: Cancer Research
https://www.readbyqxmd.com/read/29316809/extracorporeal-shock-waves-trigger-tenogenic-differentiation-of-human-adipose-derived-stem-cells
#18
Letizia Rinella, Francesca Marano, Laura Paletto, Marco Fraccalvieri, Laura Annaratone, Isabella Castellano, Nicoletta Fortunati, Alessandro Bargoni, Laura Berta, Roberto Frairia, Maria Graziella Catalano
PURPOSES: Incomplete tendon healing impairs the outcome of tendon ruptures and tendinopathies. Human Adipose-derived Stem Cells (hASCs) are promising for tissue engineering applications. Extracorporeal Shock Waves (ESW) are a leading choice for the treatment of several tendinopathies. In this study, we investigated the effects of ESW treatment and tenogenic medium on the differentiation of hASCs into tenoblast-like cells. MATERIALS AND METHODS: hASCs were treated with ESW generated by a piezoelectric device and tenogenic medium...
January 9, 2018: Connective Tissue Research
https://www.readbyqxmd.com/read/29315644/solar-uv-light-regulates-flavonoid-metabolism-in-apple-malus-x-domestica
#19
Rebecca A Henry-Kirk, Blue Plunkett, Miriam Hall, Tony McGhie, Andrew C Allan, Jason J Wargent, Richard V Espley
Ultraviolet-B light (UV-B) is one environmental signal perceived by plants that affects the flavonoid pathway and influences the levels of anthocyanins, flavonols and proanthocyanidins. To understand the mechanisms underlying UV exposure, apple trees were grown under spectral filters that altered transmission of solar UV light. Fruit analysis showed that UV induced changes in physiology, metabolism and gene expression levels during development over a season. These changes were sustained after storage. Under low UV ripening was delayed, fruit size decreased, and anthocyanin and flavonols were reduced...
January 6, 2018: Plant, Cell & Environment
https://www.readbyqxmd.com/read/29315208/exogenous-24-epibrassinolide-interacts-with-light-to-regulate-anthocyanin-and-proanthocyanidin-biosynthesis-in-cabernet-sauvignon-vitis-vinifera-l
#20
Yali Zhou, Chunlong Yuan, Shicheng Ruan, Zhenwen Zhang, Jiangfei Meng, Zhumei Xi
Anthocyanins and proanthocyanidins (PAs) are crucial factors that affect the quality of grapes and the making of wine, which were stimulated by various stimuli and environment factors (sugar, hormones, light, and temperature). The aim of the study was to investigate the influence of exogenous 24-Epibrassinolide (EBR) and light on the mechanism of anthocyanins and PAs accumulation in grape berries. Grape clusters were sprayed with EBR (0.4 mg/L) under light and darkness conditions (EBR + L, EBR + D), or sprayed with deionized water under light and darkness conditions as controls (L, D), at the onset of veraison...
January 9, 2018: Molecules: a Journal of Synthetic Chemistry and Natural Product Chemistry
keyword
keyword
79462
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"