Directory of Open Access Journals (DOAJ)
Nikita Biziaev, Elizaveta Sokolova, Dmitry V. Yanvarev, I. Yu. Toropygin, Alexey Shuvalov, Tatiana Egorova, Elena Alkalaeva,
... completed when the stop codon (UAA, UAG, or UGA) occupies the ribosomal A site, where the eukaryotic ... al.Rabbit β-globin is extended beyond its UGA stop codon by multiple suppressions and translational reading ... M. The signal for translational readthrough of a UGA codon in Sindbis virus RNA involves a single ... factor 2 and affect the decoding efficiency of UGA-containing signals.Nucl. Acids Res. 1998; 26: 954- ... factor 2 and affect the decoding efficiency of UGA-containing signals.Nucl. Acids Res. 1998; 26: 954- ...
Tópico(s): RNA Research and Splicing
2022 - Elsevier BV | Journal of Biological Chemistry
Shreya Pundir, Xueliang Ge, Suparna Sanyal,
... of the three stop codons (UAA, UAG, and UGA) on the mRNA at the ribosomal A site. ... But, UAG is read specifically by RF1 and UGA by RF2 (1Scolnick E. Tompkins R. Caskey T. ... to the RC with either cognate UAA and UGA codons or near-cognate UAG and UGG codons, ... mRF2 and RF2 on the cognate UAA and UGA codons (Table 1). This result, in complete agreement ... values on the two cognate codons UAA and UGA (Table 1). However, both mRF2 and RF2 show slightly higher catalytic efficiency (kcat/KM) for UGA (28.2 ± 0.36 and 24.3 ± 0. ...
Tópico(s): Genomics and Phylogenetic Studies
2021 - Elsevier BV | Journal of Biological Chemistry
National Bureau of Economic Research (NBER)
Marc Weber, Raul Burgos, Eva Yus, Jae‐Seong Yang, María Lluch‐Senar, Luís Serrano,
... modulate the efficiency of translation termination at the UGA stop codon context in E. coli (Björnsson et ... 4e-24). This preference was exacerbated in the UGA context, where NNA codons were clearly favored over ... with an A in the context of a UGA stop codon creates an overlapping starting AUG codon, ... 4 nt, in which the use of the UGA stop codon is particularly frequent (Lillo & Krakauer, 2007). ... that the preference for NNA codons in the UGA stop codon context could reflect selection constraints of ... analyzed (Fig 2) the codon biases in the UGA stop codon context when excluding genes for which ...
Tópico(s): Genomics and Phylogenetic Studies
2020 - Springer Nature | Molecular Systems Biology
Gürkan Korkmaz, Suparna Sanyal,
... of the three stop codons (UAA, UAG, or UGA) is translocated into the ribosomal A site, and ... whereas UAG is read specifically by RF1 and UGA by RF2 (2.Scolnick E. Tompkins R. Caskey ... it underpins the specificity of RF2 for the UGA codon. RF1 accepts both an adenine and a ... in the A site. These include UAG and UGA stop codons and UGG (Trp), UCA (Ser), and ... contained one of the five different codons (UAG, UGA, UGG, UCA, or AAA) in the A site, ... of their WT counterparts (UAG for RF1 or UGA for RF2 mutants) with similar efficiency (A values ...
Tópico(s): Antimicrobial Resistance in Staphylococcus
2017 - Elsevier BV | Journal of Biological Chemistry
Leila Touat‐Todeschini, Yuichi Shichino, Mathieu Dangin, Nicolas Thierry‐Mieg, Benoît Gilquin, Edwige Hiriart, Ravi Sachidanandam, Emeline Lambert, Janine Brettschneider, M. Reuter, Jan Kadlec, Ramesh S. Pillai, Akira Yamashita, Masayuki Yamamoto, André Verdel,
... Todeschini Institut for Advanced Biosciences, UMR InsermU1209/CNRS5309/UGA, University of Grenoble Alpes, Grenoble, France Search for ... Dangin Institut for Advanced Biosciences, UMR InsermU1209/CNRS5309/UGA, University of Grenoble Alpes, Grenoble, France Search for ... Hiriart Institut for Advanced Biosciences, UMR InsermU1209/CNRS5309/UGA, University of Grenoble Alpes, Grenoble, France Search for ... Lambert Institut for Advanced Biosciences, UMR InsermU1209/CNRS5309/UGA, University of Grenoble Alpes, Grenoble, France Search for ...
Tópico(s): Plant Virus Research Studies
2017 - Springer Nature | The EMBO Journal
J. L. Blount, G. David Buntin, P. Roberts,
... J. L. Blount, J. L. Blount 2 1 UGA Entomology, UGA Griffin, 1109 Experiment St., Griffin, GA 30221 ( jonilb@uga.edu ; gbuntin@uga.edu ), 2 Corresponding author, e-mail: jonilb@uga.edu Search for other works by this author ... Scholar G. D. Buntin, G. D. Buntin 1 UGA Entomology, UGA Griffin, 1109 Experiment St., Griffin, GA 30221 ( jonilb@uga.edu ; gbuntin@uga.edu ), Search for other works by this author ... Scholar P. M. Roberts P. M. Roberts 3 UGA Entomology, UGA Tifton, 2360 Rainwater Rd., Horticulture Bldg., ...
Tópico(s): Phytoplasmas and Hemiptera pathogens
2015 - Oxford University Press | Journal of Economic Entomology
Rodrigo F. Ortiz‐Meoz, Rachel Green,
... of the stem (G1922) is specifically critical for UGA codon recognition by the class 1 release factor ... of the stem (G1922) is specifically critical for UGA codon recognition by the class 1 release factor ... helix (C1914, Ψ1911) based on observed decreases in UGA read-through, and other "ribosomal ambiguity" mutations in the stem (G1922) based on observed increases in UGA read-through. Although these studies highlighted a potential ... are specifically essential for facilitating the recognition of UGA codons by RF2. These data argue for a ...
Tópico(s): RNA Research and Splicing
2011 - Elsevier BV | Journal of Biological Chemistry
Richard L. Hutto, Ryan J. Stutzman,
... interés del uso de Unidades de Grabación Autónomas (UGA's) para obtener datos de conteo por punto ... de conteos por punto de humanos y de UGA's y para proveer información sobre las posibles limitaciones de UGA's, comparamos los resultados de conteos por punto ... con los resultados de conteos por punto usando UGA's. Los observadores humanos y las UGA's registraron aves en 56 puntos de conteo ... vegetación ribereño mixto). Los observadores humanos y las UGA's en combinación generaron un total de 858 ... 7% de las detecciones fueron grabados solo por UGA's, 40.9% solo por los observadores y ...
Tópico(s): Species Distribution and Climate Change
2009 - Association of Field Ornithologists | Journal of Field Ornithology
Jessica M. Wohlgamuth-Benedum, Mary Anne T. Rubio, Zdeněk Paris, Shaojun Long, Pavel Poliak, Julius Lukeš, Juan Alfonzo,
... cytoplasmic protein synthesis but cannot decode the mitochondrial UGA codons. Following mitochondrial import, this problem is circumvented ... UCA, which can now decode the predominant mitochondrial UGA tryptophan codons. This tRNA also undergoes an unusual ... cytoplasmic protein synthesis but cannot decode the mitochondrial UGA codons. Following mitochondrial import, this problem is circumvented ... UCA, which can now decode the predominant mitochondrial UGA tryptophan codons. This tRNA also undergoes an unusual ...
Tópico(s): RNA and protein synthesis mechanisms
2009 - Elsevier BV | Journal of Biological Chemistry
Malavika Gupta, Paul R. Copeland,
... the 3′-untranslated region and an in-frame UGA codon are the requisite cis-acting elements for ... of codon context in determining the efficiency of UGA readthrough at each of the 10 rat Sel ... individually cloned 27-nucleotide-long fragments representing each UGA codon context into a luciferase reporter construct harboring ... Significant differences, spanning an 8-fold range of UGA readthrough efficiency, were observed, but these differences were ... P SECIS elements resulted in differential effects on UGA readthrough. Interestingly, even when both SECIS elements harbored ...
Tópico(s): Trace Elements in Health
2007 - Elsevier BV | Journal of Biological Chemistry
Michael Howard, Gaurav Aggarwal, Christine B. Anderson, Shikha Khatri, Kevin M. Flanigan, John F. Atkins,
... adjacent to a subset of eukaryal selenocysteine-specifying UGA codons Michael T Howard Corresponding Author Michael T ... domains of life by dynamic translational redefinition of UGA codons. In eukarya and archaea, selenocysteine insertion requires ... redefinition element located adjacent to a selenocysteine-encoding UGA codon in the eukaryal gene, SEPN1. This element ... high-level (6%) translational redefinition of the SEPN1 UGA codon in human cells. Readthrough levels further increased ... stem loop starting six nucleotides 3′ of the UGA codon. Sequences capable of forming strong RNA structures ...
Tópico(s): Selenium in Biological Systems
2005 - Springer Nature | The EMBO Journal
Azmi Hamzaoğlu, Ufuk Talu, Mehmet Tezer, Cuneyt Mirzanl, Ünsal Domaniç, Süleyman Bora Göksan,
... radiographs taken with the patient under general anesthesia (UGA) just before surgery and correlation of all findings ... if supine traction radiographs taken with the patient UGA help provide better assessment of curve flexibility and ... also supine traction radiographs taken with the patient UGA just before surgery. All structural curves were measured, ... no significant difference from traction with the patient UGA but with significant difference from bending radiographs. For ... significantly better than traction radiographs with the patient UGA. For the lumbar and thoracic curves more than ...
Tópico(s): Pelvic and Acetabular Injuries
2005 - Lippincott Williams & Wilkins | Spine
Yan Zhang, Pavel V. Baranov, John F. Atkins, Vadim N. Gladyshev,
... normally function as stop signals. Sec specification by UGA codons requires the presence of a cis-acting ... of these are followed with nearby UAA or UGA codons. In addition, unambiguous UAG stop signals could ... normally function as stop signals. Sec specification by UGA codons requires the presence of a cis-acting ... of these are followed with nearby UAA or UGA codons. In addition, unambiguous UAG stop signals could ... eukaryota and archaea, or immediately downstream of Sec UGA codons in eubacteria (13Hatfield D.L. Gladyshev V. ...
Tópico(s): Metalloenzymes and iron-sulfur proteins
2005 - Elsevier BV | Journal of Biological Chemistry
Donna M. Driscoll, Laurent Chavatte,
... InMendeleyWechatReddit Figures & Info The dual function of the UGA codon poses a serious challenge for the annotation of genomes. Although UGA usually signals the termination of protein synthesis, it ... Standard gene-analysis programs cannot predict whether a UGA codon encodes Sec or Stop. Bioinformatic tools for ... 2002; Driscoll & Copeland, 2003). The alternative decoding of UGA as Sec depends on cis-acting sequences in ... untranslated region that triggers the recoding of the UGA codon into Sec (the location of which is ...
Tópico(s): Mercury impact and mitigation studies
2004 - Springer Nature | EMBO Reports
Laurent Chavatte, Stéphanie Kervestin, Alain Favre, Olivier Jean‐Jean,
... of Euplotes eRF1 is involved in discriminating against UGA and UGG. On the basis of these results, ... presence of a stop codon—UAA, UAG or UGA—in the A site of the ribosome is ... decoding either UAA and UAG, or UAA and UGA, respectively. It is now well supported that class ... UAG are translated into glutamine in several species (UGA = stop variant code), whereas in the hypotrich genus Euplotes, UGA is translated into cysteine (Caron and Meyer, 1985; ... from 11 to only one for ciliates using UGA = stop variant code) when the set of eRF1 ...
Tópico(s): Genomics and Phylogenetic Studies
2003 - Springer Nature | The EMBO Journal
... of two sequences prone to either +1 (CCC_UGA) or −1 (A_AAA_AAG) frameshifting (the triplets ... moderate selection against A_AAA_AAG sequences. CCC_UGA +1 frameshifting on the sequence CCC_UGA has been reported in several artificial constructs expressed ... the level of frameshifting on the 18 CCC_UGA sites (originally identified using the Colibri database) in ... genes including ∼10 codons upstream of the CCC_UGA and 10 codons downstream (or as far as, ... frame with the MBP gene. Termination at CCC_UGA results in a protein similar in mass to ...
Tópico(s): Genomics and Phylogenetic Studies
2003 - Springer Nature | The EMBO Journal
... of selenocysteine into proteins is directed by specific UGA codons and mRNA secondary structures, designated SECIS elements. ... GTP and selenocysteyl-tRNASec to the site of UGA decoding. A SECIS-like structure was identified in ... 2001). It is encoded by an in-frame UGA codon interrupting the reading frame of the respective ... mRNA structure is located immediately 3′ of the UGA codon that determines the position of selenocysteine incorporation ... allow the translation of codons 3′ of the UGA directing selenocysteine insertion (Thanbichler et al., 2000). The ...
Tópico(s): RNA modifications and cancer
2002 - Springer Nature | The EMBO Journal
Alim S. Seit‐Nebi, Ludmila Frolova, Lev L. Kisselev,
... omnipotent translation termination factor eRF1 into ciliate-like UGA-only unipotent eRF1 Alim Seit-Nebi Alim Seit- ... three stop codons into a unipotent 'ciliate-like' UGA-only eRF1. The conserved Cys127 located in the ... a critical role in stop codon recognition. The UGA-only response has also been achieved by concomitant ... natural amino acids. The remaining three codons, UAA, UGA and UGA, are thought to be recognized by proteins called ... et al., 2001). For example, in ciliate Euplotes, UGA is reassigned for cysteine, and in vitro Euplotes ...
Tópico(s): Advanced biosensing and bioanalysis techniques
2002 - Springer Nature | EMBO Reports
... favoritesDownload CitationsTrack CitationsPermissions ShareFacebookTwitterLinked InMendeleyWechatReddit Figures & Info An UGA stop codon context which is inefficient because of ... genes are small, and the weak termination codon UGA is under-represented in small, highly expressed E. ... decode the three stop codons UAA, UAG and UGA. Instead, the stop codon UAG is decoded by release factor 1 (RF1). UGA is recognized by RF2. UAA is recognized by ... 1994). The efficiency of a stop codon, especially UGA, in promoting termination is very sensitive to the ...
Tópico(s): RNA modifications and cancer
2002 - Springer Nature | The EMBO Journal
Sergey V. Novoselov, Mahadev Rao, Natalia V. Onoshko, Huijun Zhi, Gregory V. Kryukov, Youbin Xiang, Donald P. Weeks, Dolph L. Hatfield, Vadim N. Gladyshev,
... was isolated that recognized specifically the Sec codon UGA. Subsequent gene cloning and bioinformatics analyses identified eight ... protein co-translationally in response to the codon UGA and the specific Sec insertion machinery. The Sec ... archaea and eukaryotes, and the universal use of UGA to designate Sec in these organisms suggests a ... SelW1 and PHGPx1 sequences and is encoded by UGA Based on the three SelW1 and five PHGPx1 ... methods. PHGPx1 and SelW1 ORFs contained in-frame UGA codons that corresponded to the Sec codons in ...
Tópico(s): Organoselenium and organotellurium chemistry
2002 - Springer Nature | The EMBO Journal
... between release factor 2 and the tRNASec decoding UGA at the recoding site of Escherichia coli formate ... during translation of the fdhF selenocysteine recoding site (UGA) were studied with wild-type and modified fdhF sequences. Altering sequences surrounding the recoding site UGA without affecting RNA secondary structure indicated that the ... a significant influence on selenocysteine incorporation efficiency. The UGA in the wild-type fdhF sequence remains 'visible' ... between release factor 2 and tRNASec for decoding UGA. Increasing the cellular concentration of either of these ...
Tópico(s): Genomics and Phylogenetic Studies
2001 - Springer Nature | The EMBO Journal
Paul R. Copeland, Julia E. Fletcher, Bradley A. Carlson, Dolph L. Hatfield, Donna M. Driscoll,
... Figures & Info In eukaryotes, the decoding of the UGA codon as selenocysteine (Sec) requires a Sec insertion ... may be involved in preventing termination at the UGA/Sec codon. Introduction The incorporation of selenocysteine (Sec) ... code as it requires the recoding of a UGA stop codon when it is found in the ... immediately downstream from an in-frame opal codon (UGA) that directs the insertion of Sec (Huttenhofer et ... 3′ untranslated region (UTR) far downstream from the UGA codon (Berry et al., 1991a). The distance between ...
Tópico(s): Genomics, phytochemicals, and oxidative stress
2000 - Springer Nature | The EMBO Journal
Dídac Segura, Nuria Garzón, C. Nomen, Marta Prades, Sara Valls,
... a horse D. Segura, D. Segura Equine Unit (UGA), Hospital Clínic Veterinari, Facultat de Veterinària, Edifici V, ... by this authorNuria Garzón, Nuria Garzón Equine Unit (UGA), Hospital Clínic Veterinari, Facultat de Veterinària, Edifici V, ... by this authorC. Nomen, C. Nomen Equine Unit (UGA), Hospital Clínic Veterinari, Facultat de Veterinària, Edifici V, ... by this authorMarta Prades, Marta Prades Equine Unit (UGA), Hospital Clínic Veterinari, Facultat de Veterinària, Edifici V, ... by this authorSara Valls, Sara Valls Equine Unit (UGA), Hospital Clínic Veterinari, Facultat de Veterinària, Edifici V, ...
Tópico(s): Omental and Epiploic Conditions
1999 - Wiley | Equine Veterinary Education
Xuan Zhou, Sang Ick Park, Mohamed E. Moustafa, Bradley A. Carlson, Pamela F. Crain, Alan M. Diamond, Dolph L. Hatfield, Byeong Jae Lee,
... aminoacylated with serine, forms selenocysteyl-tRNA, and decodes UGA. The K m of Sec tRNA and serine ... aminoacylated with serine, forms selenocysteyl-tRNA, and decodes UGA. The K m of Sec tRNA and serine ... has been characterized to date. The use of UGA as a codon for selenocysteine (Sec) 1The abbreviations ... for inserting Sec into selenoprotein in response to UGA in protein biosynthesis have been characterized in several ... 1998, Abstract 414C.Google Scholar) have shown that UGA occurs in the opening reading frame of Gld ...
Tópico(s): RNA modifications and cancer
1999 - Elsevier BV | Journal of Biological Chemistry
Wu Wen, Sherri L. Weiss, Roger A. Sunde,
A UGA codon and a selenocysteine insertion sequence in the 3'-untranslated region are the only established mRNA elements ... study was to systematically examine the effect of UGA codon position on efficiency of Sec insertion. In ... glutathione peroxidase-1 (F-GPX1) expression vector, the UGA at the native position (U47) was mutated to ... 178, and Ser-195 were individually mutated to UGA and transiently expressed in COS-7 cells. 75Se ... suggesting that Sec is more efficiently incorporated at UGA codons positioned in the middle of the coding ...
Tópico(s): Redox biology and oxidative stress
1998 - Elsevier BV | Journal of Biological Chemistry