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https://www.readbyqxmd.com/read/28062855/expression-of-the-erf1-translation-termination-factor-is-controlled-by-an-autoregulatory-circuit-involving-readthrough-and-nonsense-mediated-decay-in-plants
#1
Tünde Nyikó, Andor Auber, Levente Szabadkai, Anna Benkovics, Mariann Auth, Zsuzsanna Mérai, Zoltán Kerényi, Andrea Dinnyés, Ferenc Nagy, Dániel Silhavy
When a ribosome reaches a stop codon, the eukaryotic Release Factor 1 (eRF1) binds to the A site of the ribosome and terminates translation. In yeasts and plants, both over- and underexpression of eRF1 lead to altered phenotype indicating that eRF1 expression should be strictly controlled. However, regulation of eRF1 level is still poorly understood. Here we show that expression of plant eRF1 is controlled by a complex negative autoregulatory circuit, which is based on the unique features of the 3'untranslated region (3'UTR) of the eRF1-1 transcript...
January 6, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/27986851/activation-mode-of-the-eukaryotic-m2g10-trna-methyltransferase-trm11-by-its-partner-protein-trm112
#2
Gabrielle Bourgeois, Julien Marcoux, Jean-Michel Saliou, Sarah Cianférani, Marc Graille
Post-transcriptional and post-translational modifications of factors involved in translation are very important for the control and accuracy of protein biosynthesis. Among these factors, tRNAs harbor the largest variety of grafted chemical structures, which participate in tRNA stability or mRNA decoding. Here, we focused on Trm112 protein, which associates with four different eukaryotic methyltransferases modifying tRNAs (Trm9 and Trm11) but also 18S-rRNA (Bud23) and translation termination factor eRF1 (Mtq2)...
December 15, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27940554/rna-helicase-ddx19-stabilizes-ribosomal-elongation-and-termination-complexes
#3
Tatiana Mikhailova, Ekaterina Shuvalova, Alexander Ivanov, Denis Susorov, Alexey Shuvalov, Peter M Kolosov, Elena Alkalaeva
The human DEAD-box RNA-helicase DDX19 functions in mRNA export through the nuclear pore complex. The yeast homolog of this protein, Dbp5, has been reported to participate in translation termination. Using a reconstituted mammalian in vitro translation system, we show that the human protein DDX19 is also important for translation termination. It is associated with the fraction of translating ribosomes. We show that DDX19 interacts with pre-termination complexes (preTCs) in a nucleotide-dependent manner. Furthermore, DDX19 increases the efficiency of termination complex (TC) formation and the peptide release in the presence of eukaryotic release factors...
December 9, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27933082/rna-seq-transcriptome-response-of-flax-linum-usitatissimum-l-to-the-pathogenic-fungus-fusarium-oxysporum-f-sp-lini
#4
Leonardo Galindo-González, Michael K Deyholos
Fusarium oxysporum f. sp. lini is a hemibiotrophic fungus that causes wilt in flax. Along with rust, fusarium wilt has become an important factor in flax production worldwide. Resistant flax cultivars have been used to manage the disease, but the resistance varies, depending on the interactions between specific cultivars and isolates of the pathogen. This interaction has a strong molecular basis, but no genomic information is available on how the plant responds to attempted infection, to inform breeding programs on potential candidate genes to evaluate or improve resistance across cultivars...
2016: Frontiers in Plant Science
https://www.readbyqxmd.com/read/27863242/decoding-mammalian-ribosome-mrna-states-by-translational-gtpase-complexes
#5
Sichen Shao, Jason Murray, Alan Brown, Jack Taunton, V Ramakrishnan, Ramanujan S Hegde
In eukaryotes, accurate protein synthesis relies on a family of translational GTPases that pair with specific decoding factors to decipher the mRNA code on ribosomes. We present structures of the mammalian ribosome engaged with decoding factor⋅GTPase complexes representing intermediates of translation elongation (aminoacyl-tRNA⋅eEF1A), termination (eRF1⋅eRF3), and ribosome rescue (Pelota⋅Hbs1l). Comparative analyses reveal that each decoding factor exploits the plasticity of the ribosomal decoding center to differentially remodel ribosomal proteins and rRNA...
November 17, 2016: Cell
https://www.readbyqxmd.com/read/27830682/-identification-of-new-genes-that-affect-psi-prion-toxicity-in-saccharomyces-cerevisiae-yeast
#6
A G Matveenko, M V Belousov, S A Bondarev, S E Moskalenko, G A Zhouravleva
Translation termination is an important step in gene expression. Its correct processing is governed by eRF1 (Sup45) and eRF3 (Sup35) proteins. In Saccharomyces cerevisiae, mutations in the corresponding genes, as well as Sup35 aggregation in [PSI^(+)] cells that propagate the prion form of Sup35 lead to inaccurate stop codon recognition and, consequently, nonsense suppression. The presence of stronger prion variants results in the more efficient suppression of nonsense mutations. Previously, we proposed a synthetic lethality test that enables the identification of genes that may influence either translation termination factors or [PSI^(+)] manifestation...
September 2016: Molekuliarnaia Biologiia
https://www.readbyqxmd.com/read/27787902/ubc18-mediates-erf1-degradation-under-light-dark-cycles
#7
Mei-Chun Cheng, Wen-Chieh Kuo, Yi-Ming Wang, Hsing-Yu Chen, Tsan-Piao Lin
Ethylene Response Factor 1 (ERF1) plays a crucial role in biotic and abiotic stress responses. Previous studies have shown that ERF1 regulates stress-responsive gene expression by binding to different cis-acting elements in response to various stress signals. ERF1 was also reported to be unstable in the dark, and it regulates hypocotyl elongation. Here, we elucidated the mechanism underlying degradation of ERF1. Yeast two-hybrid screening showed that UBIQUITIN-CONJUGATING ENZYME 18 (UBC18) interacted with ERF1...
October 27, 2016: New Phytologist
https://www.readbyqxmd.com/read/27626604/evaluation-of-different-oral-formulations-of-clindamycin-extended-release-in-dogs
#8
E Ortega, L Gutiérrez, M J Bernad, F Salmerón, I Juárez, D Vargas
The purpose of this study was to evaluate the pharmacokinetics of extended-release formulations (ERFs) of clindamycin with polymeric-based matrices. In a crossover study, 21 healthy adult dogs were randomly assigned (in groups of 7) to receive a single oral dose (20 mg/kg) of clindamycin without excipients (control) or an extended-release formulation containing clindamycin+Hydroxypropyl methylcellulose (HPMC)+poloxamer at a ratio of 1 : 0.04 : 0.5 (ERF1) or containing clindamycin+HPMC+acrylic acid polymer (AAP) at the same proportions (ERF2)...
January 2017: Drug Research
https://www.readbyqxmd.com/read/27593378/an-unprecedented-non-canonical-nuclear-genetic-code-with-all-three-termination-codons-reassigned-as-sense-codons
#9
Kristína Záhonová, Alexei Y Kostygov, Tereza Ševčíková, Vyacheslav Yurchenko, Marek Eliáš
A limited number of non-canonical genetic codes have been described in eukaryotic nuclear genomes. Most involve reassignment of one or two termination codons as sense ones [1-4], but no code variant is known that would have reassigned all three termination codons. Here, we describe such a variant that we discovered in a clade of trypanosomatids comprising nominal Blastocrithidia species. In these protists, UGA has been reassigned to encode tryptophan, while UAG and UAA (UAR) have become glutamate encoding. Strikingly, UAA and, less frequently, UAG also serve as bona fide termination codons...
September 12, 2016: Current Biology: CB
https://www.readbyqxmd.com/read/27472435/glutathione-mediated-regulation-of-nitric-oxide-s-nitrosothiol-and-redox-homeostasis-confers-cadmium-tolerance-by-inducing-transcription-factors-and-stress-response-genes-in-tomato
#10
Md Kamrul Hasan, Congcong Liu, Fanan Wang, Golam Jalal Ahammed, Jie Zhou, Ming-Xing Xu, Jing-Quan Yu, Xiao-Jian Xia
Glutathione (GSH) plays a critical role in plant growth, development and responses to stress. However, the mechanism by which GSH regulates tolerance to cadmium (Cd) stress still remains unclear. Here we show that inhibition of GSH biosynthesis by buthionine sulfoximine (BSO) aggravated Cd toxicity by increasing accumulation of reactive oxygen species (ROS) and reducing contents of nitric oxide (NO) and S-nitrosothiol (SNO) in tomato roots. In contrast, exogenous GSH alleviated Cd toxicity by substantially minimizing ROS accumulation and increasing contents of NO and SNO, and activities of antioxidant enzymes that eventually reduced oxidative stress...
October 2016: Chemosphere
https://www.readbyqxmd.com/read/27418677/pabp-enhances-release-factor-recruitment-and-stop-codon-recognition-during-translation-termination
#11
Alexandr Ivanov, Tatyana Mikhailova, Boris Eliseev, Lahari Yeramala, Elizaveta Sokolova, Denis Susorov, Alexey Shuvalov, Christiane Schaffitzel, Elena Alkalaeva
Poly(A)-binding protein (PABP) is a major component of the messenger RNA-protein complex. PABP is able to bind the poly(A) tail of mRNA, as well as translation initiation factor 4G and eukaryotic release factor 3a (eRF3a). PABP has been found to stimulate translation initiation and to inhibit nonsense-mediated mRNA decay. Using a reconstituted mammalian in vitro translation system, we show that PABP directly stimulates translation termination. PABP increases the efficiency of translation termination by recruitment of eRF3a and eRF1 to the ribosome...
September 19, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27329342/structural-basis-of-suppression-of-host-translation-termination-by-moloney-murine-leukemia-virus
#12
Xuhua Tang, Yiping Zhu, Stacey L Baker, Matthew W Bowler, Benjamin Jieming Chen, Chen Chen, J Robert Hogg, Stephen P Goff, Haiwei Song
Retroviral reverse transcriptase (RT) of Moloney murine leukemia virus (MoMLV) is expressed in the form of a large Gag-Pol precursor protein by suppression of translational termination in which the maximal efficiency of stop codon read-through depends on the interaction between MoMLV RT and peptidyl release factor 1 (eRF1). Here, we report the crystal structure of MoMLV RT in complex with eRF1. The MoMLV RT interacts with the C-terminal domain of eRF1 via its RNase H domain to sterically occlude the binding of peptidyl release factor 3 (eRF3) to eRF1...
June 22, 2016: Nature Communications
https://www.readbyqxmd.com/read/27325745/distinct-types-of-translation-termination-generate-substrates-for-ribosome-associated-quality-control
#13
Natalia Shcherbik, Tatiana A Chernova, Yury O Chernoff, Dimitri G Pestov
Cotranslational degradation of polypeptide nascent chains plays a critical role in quality control of protein synthesis and the rescue of stalled ribosomes. In eukaryotes, ribosome stalling triggers release of 60S subunits with attached nascent polypeptides, which undergo ubiquitination by the E3 ligase Ltn1 and proteasomal degradation facilitated by the ATPase Cdc48. However, the identity of factors acting upstream in this process is less clear. Here, we examined how the canonical release factors Sup45-Sup35 (eRF1-eRF3) and their paralogs Dom34-Hbs1 affect the total population of ubiquitinated nascent chains associated with yeast ribosomes...
August 19, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27191951/correction-arabidopsis-erf1-mediates-cross-talk-between-ethylene-and-auxin-biosynthesis-during-primary-root-elongation-by-regulating-asa1-expression
#14
Jie-Li Mao, Zi-Qing Miao, Zhen Wang, Lin-Hui Yu, Xiao-Teng Cai, Cheng-Bin Xiang
[This corrects the article DOI: 10.1371/journal.pgen.1005760.].
May 2016: PLoS Genetics
https://www.readbyqxmd.com/read/27113714/expression-of-ghnac2-from-g-herbaceum-improves-root-growth-and-imparts-tolerance-to-drought-in-transgenic-cotton-and-arabidopsis
#15
Samatha Gunapati, Ram Naresh, Sanjay Ranjan, Deepti Nigam, Aradhana Hans, Praveen C Verma, Rekha Gadre, Uday V Pathre, Aniruddha P Sane, Vidhu A Sane
NAC proteins are plant-specific transcription factors that play essential roles in regulating development and responses to abiotic and biotic stresses. We show that over-expression of the cotton GhNAC2 under the CaMV35S promoter increases root growth in both Arabidopsis and cotton under unstressed conditions. Transgenic Arabidopsis plants also show improved root growth in presence of mannitol and NaCl while transgenic cotton expressing GhNAC2 show reduced leaf abscission and wilting upon water stress compared to control plants...
2016: Scientific Reports
https://www.readbyqxmd.com/read/26988377/cold-stress-improves-the-production-of-artemisinin-depending-on-the-increase-of-endogenous-jasmonate
#16
Wanhong Liu, Huanyan Wang, Yupei Chen, Shunqin Zhu, Min Chen, Xiaozhong Lan, Guoping Chen, Zhihua Liao
Previous publications reported that the artemisinin level was increased in Artemisia annua following a night-frost period. However, the molecular mechanism was not clear. In this study, we found that exogenous jasmonate effectively enhanced the freezing tolerance of A. annua. The jasmonate biosynthetic genes (LOX1, LOX2, AOC and JAR1) were induced by cold stress, leading to an increase in endogenous jasmonate in cold-treated A. annua. Increased endogenous jasmonate enhanced the expression of three jasmonate-responsive transcription factors, ERF1, ERF2, and ORA, all of which were reported to transcriptionally activate the expression of artemisinin biosynthetic genes, such as ADS, CYP71AV1, DBR2 and ALDH1...
March 14, 2016: Biotechnology and Applied Biochemistry
https://www.readbyqxmd.com/read/26797129/substrate-specificity-of-the-hemk2-protein-glutamine-methyltransferase-and-identification-of-novel-substrates
#17
Denis Kusevic, Srikanth Kudithipudi, Albert Jeltsch
Bacterial HEMK2 homologs initially had been proposed to be involved in heme biogenesis or to function as adenine DNA methyltransferase. Later it was shown that this family of enzymes has protein glutamine methyltransferase activity, and they methylate the glutamine residue in the GGQ motif of ribosomal translation termination factors. The murine HEMK2 enzyme methylates Gln(185) of the eukaryotic translation termination factor eRF1. We have employed peptide array libraries to investigate the peptide sequence recognition specificity of murine HEMK2...
March 18, 2016: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/26759455/rules-of-uga-n-decoding-by-near-cognate-trnas-and-analysis-of-readthrough-on-short-uorfs-in-yeast
#18
Petra Beznosková, Stanislava Gunišová, Leoš Shivaya Valášek
The molecular mechanism of stop codon recognition by the release factor eRF1 in complex with eRF3 has been described in great detail; however, our understanding of what determines the difference in termination efficiencies among various stop codon tetranucleotides and how near-cognate (nc) tRNAs recode stop codons during programmed readthrough in Saccharomyces cerevisiae is still poor. Here, we show that UGA-C as the only tetranucleotide of all four possible combinations dramatically exacerbated the readthrough phenotype of the stop codon recognition-deficient mutants in eRF1...
March 2016: RNA
https://www.readbyqxmd.com/read/26745809/arabidopsis-erf1-mediates-cross-talk-between-ethylene-and-auxin-biosynthesis-during-primary-root-elongation-by-regulating-asa1-expression
#19
Jie-Li Mao, Zi-Qing Miao, Zhen Wang, Lin-Hui Yu, Xiao-Teng Cai, Cheng-Bin Xiang
The gaseous phytohormone ethylene participates in the regulation of root growth and development in Arabidopsis. It is known that root growth inhibition by ethylene involves auxin, which is partially mediated by the action of the WEAK ETHYLENE INSENSITIVE2/ANTHRANILATE SYNTHASE α1 (WEI2/ASA1), encoding a rate-limiting enzyme in tryptophan (Trp) biosynthesis, from which auxin is derived. However, the molecular mechanism by which ethylene decreases root growth via ASA1 is not understood. Here we report that the ethylene-responsive AP2 transcription factor, ETHYLENE RESPONSE FACTOR1 (ERF1), plays an important role in primary root elongation of Arabidopsis...
January 2016: PLoS Genetics
https://www.readbyqxmd.com/read/26740584/human-nonsense-mediated-mrna-decay-factor-upf2-interacts-directly-with-erf3-and-the-surf-complex
#20
Andrés López-Perrote, Raquel Castaño, Roberto Melero, Teresa Zamarro, Hitomi Kurosawa, Tetsuo Ohnishi, Akiko Uchiyama, Kyoko Aoyagi, Gretel Buchwald, Naoyuki Kataoka, Akio Yamashita, Oscar Llorca
Nonsense-mediated mRNA decay (NMD) is an mRNA degradation pathway that regulates gene expression and mRNA quality. A complex network of macromolecular interactions regulates NMD initiation, which is only partially understood. According to prevailing models, NMD begins by the assembly of the SURF (SMG1-UPF1-eRF1-eRF3) complex at the ribosome, followed by UPF1 activation by additional factors such as UPF2 and UPF3. Elucidating the interactions between NMD factors is essential to comprehend NMD, and here we demonstrate biochemically and structurally the interaction between human UPF2 and eukaryotic release factor 3 (eRF3)...
February 29, 2016: Nucleic Acids Research
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