keyword
MENU ▼
Read by QxMD icon Read
search

RNA biogenesis

keyword
https://www.readbyqxmd.com/read/28732203/antiviral-immunity-and-circular-rna-no-end-in-sight
#1
Cristhian Cadena, Sun Hur
In this issue of Molecular Cell, two papers by Chen et al. (2017) and Li et al. (2017) describe new insights into circRNA biogenesis and function, connecting circRNAs to innate immune pathways.
July 20, 2017: Molecular Cell
https://www.readbyqxmd.com/read/28729028/micrornas-as-key-effectors-in-the-p53-network
#2
Frauke Goeman, Sabrina Strano, Giovanni Blandino
The guardian of the genome p53 is embedded in a fine-spun network of MicroRNAs. p53 is able to activate or repress directly the transcription of MicroRNAs that are participating in the tumor-suppressive mission of p53. On the other hand, the expression of p53 is under tight control of MicroRNAs that are either targeting directly p53 or factors that are modifying its protein level or activity. Although the most important function of p53 is suggested to be transcriptional regulation, there are several nontranscriptional functions described...
2017: International Review of Cell and Molecular Biology
https://www.readbyqxmd.com/read/28724797/increasing-the-level-of-peroxisome-proliferator-activated-receptor-%C3%AE-coactivator-1%C3%AE-in-podocytes-results-in-collapsing-glomerulopathy
#3
Szu-Yuan Li, Jihwan Park, Chengxiang Qiu, Seung Hyeok Han, Matthew B Palmer, Zoltan Arany, Katalin Susztak
Inherited and acquired mitochondrial defects have been associated with podocyte dysfunction and chronic kidney disease (CKD). Peroxisome proliferator-activated receptor γ coactivator-1α (PGC1α) is one of the main transcriptional regulators of mitochondrial biogenesis and function. We hypothesized that increasing PGC1α expression in podocytes could protect from CKD. We found that PGC1α and mitochondrial transcript levels are lower in podocytes of patients and mouse models with diabetic kidney disease (DKD)...
July 20, 2017: JCI Insight
https://www.readbyqxmd.com/read/28720596/elongator-regulates-hypocotyl-growth-in-darkness-and-during-photomorphogenesis
#4
Magdalena Woloszynska, Olimpia Gagliardi, Filip Vandenbussche, Steven De Groeve, Luis Alonso Baez, Pia Neyt, Sabine Le Gall, Jorge Fung, Paloma Mas, Dominique Van Der Straeten, Mieke Van Lijsebettens
Elongator promotes RNA polymerase II-mediated transcript elongation through epigenetic activities such as histone acetylation. Elongator regulates growth, development, immune response, sensitivity to drought and abscisic acid. We demonstrate that elo mutants exhibit defective hypocotyl elongation but have a normal apical hook in darkness and are hyposensitive to light during photomorphogenesis. These elo phenotypes are supported by transcriptome changes, i.e. downregulation of circadian clock components, positive regulators of skoto- or photomorphogenesis, hormonal pathways and cell wall biogenesis-related factors...
July 18, 2017: Journal of Cell Science
https://www.readbyqxmd.com/read/28716689/brg1-and-smarcal1-transcriptionally-co-regulate-drosha-dgcr8-and-dicer-in-response-to-doxorubicin-induced-dna-damage
#5
Ketki Patne, Radhakrishnan Rakesh, Vijendra Arya, Upasana Bedi Chanana, Ramesh Sethy, Pynskhem Bok Swer, Rohini Muthuswami
Recent investigations have emphasized the role of miRNA biogenesis proteins in the synthesis of non-coding RNA when double-strand DNA breaks are induced by ionizing radiations. However, the role of these ncRNA and their regulation in response to doxorubicin-induced DNA damage is not known. In this paper, BRG1 and SMARCAL1, members of the ATP-dependent chromatin remodelling family, are shown to co-regulate the transcription of DROSHA, DGCR8, and DICER in response to double-strand DNA breaks induced by doxorubicin...
July 14, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/28712868/salicylates-promote-mitochondrial-biogenesis-by-regulating-the-expression-of-pgc-1%C3%AE-in-murine-3t3-l1-pre-adipocytes
#6
Yimin Yan, Xiaohong Yang, Tao Zhao, Yi Zou, Rui Li, Yancheng Xu
Mitochondrial dysfunction has been associated with insulin resistance and diabetes. Decreased mitochondrial density and mitochondrial copy numbers have been found in insulin-resistant individuals. Restoration of the number of mitochondria and normal mitochondrial function has become an important therapeutic target of diabetes. Salicylate, the main active ingredient in aspirin, has been in medicinal use since ancient times. Little information regarding the effects of salicylate on mitochondrial function has been reported...
July 13, 2017: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/28710287/rna-search-engines-empower-the-bacterial-intranet
#7
REVIEW
Tom Dendooven, Ben F Luisi
RNA acts not only as an information bearer in the biogenesis of proteins from genes, but also as a regulator that participates in the control of gene expression. In bacteria, small RNA molecules (sRNAs) play controlling roles in numerous processes and help to orchestrate complex regulatory networks. Such processes include cell growth and development, response to stress and metabolic change, transcription termination, cell-to-cell communication, and the launching of programmes for host invasion. All these processes require recognition of target messenger RNAs by the sRNAs...
July 14, 2017: Biochemical Society Transactions
https://www.readbyqxmd.com/read/28701348/dna-damage-regulates-direct-association-of-tor-kinase-with-the-rna-polymerase-ii-transcribed-hmo1-gene
#8
Arvind Panday, Ashish Gupta, Kavitha Srinivasa, Lijuan Xiao, Mathew D Smith, Anne Grove
The mechanistic target of rapamycin complex 1 (mTORC1) senses nutrient sufficiency and cellular stress. When mTORC1 is inhibited, protein synthesis is reduced in an intricate process that includes a concerted downregulation of genes encoding rRNA and ribosomal proteins. The Saccharomyces cerevisiae high mobility group protein Hmo1p has been implicated in coordinating this response to mTORC1 inhibition. We show here that Tor1p binds directly to the HMO1 gene (but not to genes that are not linked to ribosome biogenesis) and that presence of Tor1p is associated with activation of gene activity...
July 12, 2017: Molecular Biology of the Cell
https://www.readbyqxmd.com/read/28696509/an-l-rna-aptamer-with-expanded-chemical-functionality-that-inhibits-microrna-biogenesis
#9
Adam Michael Kabza, Jonathan Thomas Sczepanski
In order to facilitate isolation of L-aptamers with novel RNA-binding properties, we have employed a cationic nucleotide, 5-aminoallyl-uridine, during the mirror image in vitro selection process. In this effort, we identified a modified L-RNA aptamer (MLRA) capable of binding oncogenic pre-miR-19a with exceptional affinity, and we show that the cationic modification is absolutely critical for binding. Furthermore, formation of the MLRA-pre-miR-19a complex inhibits Dicer-mediated cleavage of the pre-miR, thus blocking formation of the mature functional microRNA...
July 11, 2017: Chembiochem: a European Journal of Chemical Biology
https://www.readbyqxmd.com/read/28696283/suboptimal-t-cell-receptor-signaling-compromises-protein-translation-ribosome-biogenesis-and-proliferation-of-mouse-cd8-t-cells
#10
Thomas C J Tan, John Knight, Thomas Sbarrato, Kate Dudek, Anne E Willis, Rose Zamoyska
Global transcriptomic and proteomic analyses of T cells have been rich sources of unbiased data for understanding T-cell activation. Lack of full concordance of these datasets has illustrated that important facets of T-cell activation are controlled at the level of translation. We undertook translatome analysis of CD8 T-cell activation, combining polysome profiling and microarray analysis. We revealed that altering T-cell receptor stimulation influenced recruitment of mRNAs to heavy polysomes and translation of subsets of genes...
July 10, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28694820/white-stripe-leaf4-encodes-a-novel-p-type-ppr-protein-required-for-chloroplast-biogenesis-during-early-leaf-development
#11
Ying Wang, Yulong Ren, Kunneng Zhou, Linglong Liu, Jiulin Wang, Yang Xu, Huan Zhang, Long Zhang, Zhiming Feng, Liwei Wang, Weiwei Ma, Yunlong Wang, Xiuping Guo, Xin Zhang, Cailin Lei, Zhijun Cheng, Jianmin Wan
Pentatricopeptide repeat (PPR) proteins comprise a large family in higher plants and perform diverse functions in organellar RNA metabolism. Despite the rice genome encodes 477 PRR proteins, the regulatory effects of PRR proteins on chloroplast development remains unknown. In this study, we report the functional characterization of the rice white stripe leaf4 (wsl4) mutant. The wsl4 mutant develops white-striped leaves during early leaf development, characterized by decreased chlorophyll content and malformed chloroplasts...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28694531/high-throughput-sequencing-of-rna-transcriptomes-in-ruditapes-philippinarum-identifies-genes-involved-in-osmotic-stress-response
#12
Hongtao Nie, Liwen Jiang, Peng Chen, Zhongming Huo, Feng Yang, Xiwu Yan
Ruditapes philippinarum, is an economically important marine bivalve species. The ability to cope with low salinity stress is quite important for the survival of aquatic species under natural conditions. In this study, the transcriptional response of the Manila clam to low salinity stress was characterized using RNA sequencing. The transcriptomes of a low salinity-treatment group (FRp1, FRp2), which survived under low salinity stress, and control group (SRp1, SRp2), which was not subjected to low salinity stress, were sequenced with the Illumina HiSeq platform...
July 10, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28685144/post-transcriptional-regulation-of-ribosome-biogenesis-in-yeast
#13
COMMENT
Isabelle C Kos-Braun, Martin Koš
Most microorganisms are exposed to the constantly and often rapidly changing environment. As such they evolved mechanisms to balance their metabolism and energy expenditure with the resources available to them. When re-sources become scarce or conditions turn out to be unfavourable for growth, cells reduce their metabolism and energy usage to survive. One of the major energy consuming processes in the cell is ribosome biogenesis. Unsurprisingly, cells encountering adverse conditions immediately shut down production of new ribosomes...
May 1, 2017: Microbial Cell
https://www.readbyqxmd.com/read/28685141/placeholder-factors-in-ribosome-biogenesis-please-pave-my-way
#14
REVIEW
Francisco J Espinar-Marchena, Reyes Babiano, Jesús Cruz
The synthesis of cytoplasmic eukaryotic ribosomes is an extraordinarily energy-demanding cellular activity that occurs progressively from the nucleolus to the cytoplasm. In the nucleolus, precursor rRNAs associate with a myriad of trans-acting factors and some ribosomal proteins to form pre-ribosomal particles. These factors include snoRNPs, nucleases, ATPases, GTPases, RNA helicases, and a vast list of proteins with no predicted enzymatic activity. Their coordinate activity orchestrates in a spatiotemporal manner the modification and processing of precursor rRNAs, the rearrangement reactions required for the formation of productive RNA folding intermediates, the ordered assembly of the ribosomal proteins, and the export of pre-ribosomal particles to the cytoplasm; thus, providing speed, directionality and accuracy to the overall process of formation of translation-competent ribosomes...
April 27, 2017: Microbial Cell
https://www.readbyqxmd.com/read/28685140/when-a-ribosomal-protein-grows-up-the-ribosome-assembly-path-of-rps3
#15
COMMENT
Brigitte Pertschy
The biogenesis of ribosomes is a central process in all dividing cells. Eukaryotic ribosomes are composed of a large 60S and a small 40S subunit, each comprising a complex assembly of ribosomal RNA (rRNA) and ribosomal proteins (r-proteins). The synthesis of these constituents is spatially separated, with r-proteins being produced by translation in the cytoplasm, while rRNA is generated by transcription in the nucleus. Hence, the arrangement of r-proteins and rRNA into large ribonucleoprotein complexes requires dedicated mechanisms ensuring their encounter in the same compartment...
March 27, 2017: Microbial Cell
https://www.readbyqxmd.com/read/28684423/the-rna-binding-protein-hur-contributes-to-neuroinflammation-by-promoting-c-c-chemokine-receptor-6-ccr6-expression-on-th17-cells
#16
Jing Chen, Jennifer L Martindale, Carole Cramer, Myriam Gorospe, Ulus Atasoy, Paul D Drew, Shiguang Yu
In both multiple sclerosis and experimental autoimmune encephalomyelitis (EAE), the C C chemokine receptor 6 (CCR6) is critical for pathogenic T helper 17 (Th17) cell migration to the central nervous system (CNS). While many cytokines and their receptors are potently regulated via posttranscriptional mechanisms in response to various stimuli, how CCR6 expression is posttranscriptionally regulated in Th17 cells is unknown. Here, using RNA binding protein HuR conditional knockout (KO) and wild type (WT) mice, we present evidence that HuR posttranscriptionally regulates CCR6 expression by binding to and stabilizing Ccr6 mRNA and by promoting CCR6 translation...
July 6, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/28671666/multi-domain-utilization-by-tut4-and-tut7-in-control-of-let-7-biogenesis
#17
Christopher R Faehnle, Jack Walleshauser, Leemor Joshua-Tor
The uridyl transferases TUT4 and TUT7 (collectively called TUT4(7)) switch between two modes of activity, either promoting expression of let-7 microRNA (monoU) or marking it for degradation (oligoU). Lin28 modulates the switch via recruitment of TUT4(7) to the precursor pre-let-7 in stem cells and human cancers. We found that TUT4(7) utilize two multidomain functional modules during the switch from monoU to oligoU. The catalytic module (CM) is essential for both activities, while the Lin28-interacting module (LIM) is indispensable for oligoU...
July 3, 2017: Nature Structural & Molecular Biology
https://www.readbyqxmd.com/read/28666407/small-rna-fragments-derived-from-multiple-rna-classes-the-missing-element-of-multi-omics-characteristics-of-the-hepatitis-c-virus-cell-culture-model
#18
Paulina Jackowiak, Anna Hojka-Osinska, Anna Philips, Agnieszka Zmienko, Lucyna Budzko, Patrick Maillard, Agata Budkowska, Marek Figlerowicz
BACKGROUND: A pool of small RNA fragments (RFs) derived from diverse cellular RNAs has recently emerged as a rich source of functionally relevant molecules. Although their formation and accumulation has been connected to various stress conditions, the knowledge on RFs produced upon viral infections is very limited. Here, we applied the next generation sequencing (NGS) to characterize RFs generated in the hepatitis C virus (HCV) cell culture model (HCV-permissive Huh-7.5 cell line). RESULTS: We found that both infected and non-infected cells contained a wide spectrum of RFs derived from virtually all RNA classes...
June 30, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28666010/dysregulation-of-h-aca-ribonucleoprotein-components-in-chronic-lymphocytic-leukemia
#19
Patricia Carolina Dos Santos, Julieta Panero, Carmen Stanganelli, Virginia Palau Nagore, Flavia Stella, Raimundo Bezares, Irma Slavutsky
Telomeres are protective repeats of TTAGGG sequences located at the end of human chromosomes. They are essential to maintain chromosomal integrity and genome stability. Telomerase is a ribonucleoprotein complex containing an internal RNA template (hTR) and a catalytic subunit (hTERT). The human hTR gene consists of three major domains; among them the H/ACA domain is essential for telomere biogenesis. H/ACA ribonucleoprotein (RNP) complex is composed of four evolutionary conserved proteins, including dyskerin (encoded by DKC1 gene), NOP10, NHP2 and GAR1...
2017: PloS One
https://www.readbyqxmd.com/read/28665995/transcriptomes-of-six-mutants-in-the-sen1-pathway-reveal-combinatorial-control-of-transcription-termination-across-the-saccharomyces-cerevisiae-genome
#20
Xin Chen, Kunal Poorey, Melissa N Carver, Ulrika Müller, Stefan Bekiranov, David T Auble, David A Brow
Transcriptome studies on eukaryotic cells have revealed an unexpected abundance and diversity of noncoding RNAs synthesized by RNA polymerase II (Pol II), some of which influence the expression of protein-coding genes. Yet, much less is known about biogenesis of Pol II non-coding RNA than mRNAs. In the budding yeast Saccharomyces cerevisiae, initiation of non-coding transcripts by Pol II appears to be similar to that of mRNAs, but a distinct pathway is utilized for termination of most non-coding RNAs: the Sen1-dependent or "NNS" pathway...
June 2017: PLoS Genetics
keyword
keyword
93125
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"