Literature DB >> 23015064

Translational recoding in archaea.

Beatrice Cobucci-Ponzano1, Mosè Rossi, Marco Moracci.   

Abstract

Translational recoding includes a group of events occurring during gene translation, namely stop codon readthrough, programmed ±1 frameshifting, and ribosome bypassing, which have been found in organisms from all domains of life. They serve to regulate protein expression at translational level and represent a relatively less known exception to the traditional central 'dogma' of biology that information flows as DNA→RNA→protein and that it is stored in a co-linear way between the 5'→3' of nucleic acids and N→C-terminal of polypeptides. In archaea, in which translational recoding regulates the decoding of the 21st and the 22nd amino acids selenocysteine and pyrrolysine, respectively, only one case of programmed -1 frameshifting has been reported so far and further examples, although promising, have not been confirmed yet. We here summarize the current state-of-the-art of this field that, especially in archaea, has relevant implications for the physiology of life in extreme environments and for the origin of life.

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Year:  2012        PMID: 23015064     DOI: 10.1007/s00792-012-0482-8

Source DB:  PubMed          Journal:  Extremophiles        ISSN: 1431-0651            Impact factor:   2.395


  83 in total

1.  Conserved translational frameshift in dsDNA bacteriophage tail assembly genes.

Authors:  Jun Xu; Roger W Hendrix; Robert L Duda
Journal:  Mol Cell       Date:  2004-10-08       Impact factor: 17.970

2.  In vivo requirement of selenophosphate for selenoprotein synthesis in archaea.

Authors:  Tilmann Stock; Mirjam Selzer; Michael Rother
Journal:  Mol Microbiol       Date:  2009-11-17       Impact factor: 3.501

3.  Selenoprotein synthesis in archaea: identification of an mRNA element of Methanococcus jannaschii probably directing selenocysteine insertion.

Authors:  R Wilting; S Schorling; B C Persson; A Böck
Journal:  J Mol Biol       Date:  1997-03-07       Impact factor: 5.469

4.  Nucleotide sequence and expression of the selenocysteine-containing polypeptide of formate dehydrogenase (formate-hydrogen-lyase-linked) from Escherichia coli.

Authors:  F Zinoni; A Birkmann; T C Stadtman; A Böck
Journal:  Proc Natl Acad Sci U S A       Date:  1986-07       Impact factor: 11.205

5.  Probing the catalytically essential residues of the alpha-L-fucosidase from the hyperthermophilic archaeon Sulfolobus solfataricus.

Authors:  Beatrice Cobucci-Ponzano; Marialuisa Mazzone; Mosè Rossi; Marco Moracci
Journal:  Biochemistry       Date:  2005-04-26       Impact factor: 3.162

6.  Pyrrolysine encoded by UAG in Archaea: charging of a UAG-decoding specialized tRNA.

Authors:  Gayathri Srinivasan; Carey M James; Joseph A Krzycki
Journal:  Science       Date:  2002-05-24       Impact factor: 47.728

7.  Identification and characterization of phosphoseryl-tRNA[Ser]Sec kinase.

Authors:  Bradley A Carlson; Xue-Ming Xu; Gregory V Kryukov; Mahadev Rao; Marla J Berry; Vadim N Gladyshev; Dolph L Hatfield
Journal:  Proc Natl Acad Sci U S A       Date:  2004-08-18       Impact factor: 11.205

8.  A proteomic determination of cold adaptation in the Antarctic archaeon, Methanococcoides burtonii.

Authors:  Amber Goodchild; Neil F W Saunders; Haluk Ertan; Mark Raftery; Michael Guilhaus; Paul M G Curmi; Ricardo Cavicchioli
Journal:  Mol Microbiol       Date:  2004-07       Impact factor: 3.501

9.  The gene of an archaeal alpha-L-fucosidase is expressed by translational frameshifting.

Authors:  Beatrice Cobucci-Ponzano; Fiorella Conte; Dario Benelli; Paola Londei; Angela Flagiello; Maria Monti; Piero Pucci; Mosè Rossi; Marco Moracci
Journal:  Nucleic Acids Res       Date:  2006-08-18       Impact factor: 16.971

10.  Expanding the genetic code of yeast for incorporation of diverse unnatural amino acids via a pyrrolysyl-tRNA synthetase/tRNA pair.

Authors:  Susan M Hancock; Rajendra Uprety; Alexander Deiters; Jason W Chin
Journal:  J Am Chem Soc       Date:  2010-10-27       Impact factor: 15.419

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  14 in total

Review 1.  Augmented genetic decoding: global, local and temporal alterations of decoding processes and codon meaning.

Authors:  Pavel V Baranov; John F Atkins; Martina M Yordanova
Journal:  Nat Rev Genet       Date:  2015-08-11       Impact factor: 53.242

2.  Identification of an archaeal maltooligosyltrehalose trehalohydrolase encoded by an interrupted gene.

Authors:  Ye Zhou; Guiqiu Xie; Lin Chang; Yan Wang; Renjun Gao
Journal:  Extremophiles       Date:  2017-03-21       Impact factor: 2.395

Review 3.  Genetic code flexibility in microorganisms: novel mechanisms and impact on physiology.

Authors:  Jiqiang Ling; Patrick O'Donoghue; Dieter Söll
Journal:  Nat Rev Microbiol       Date:  2015-09-22       Impact factor: 60.633

4.  RASTtk: a modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes.

Authors:  Thomas Brettin; James J Davis; Terry Disz; Robert A Edwards; Svetlana Gerdes; Gary J Olsen; Robert Olson; Ross Overbeek; Bruce Parrello; Gordon D Pusch; Maulik Shukla; James A Thomason; Rick Stevens; Veronika Vonstein; Alice R Wattam; Fangfang Xia
Journal:  Sci Rep       Date:  2015-02-10       Impact factor: 4.379

Review 5.  Reprogramming the genetic code: The emerging role of ribosomal frameshifting in regulating cellular gene expression.

Authors:  Vivek M Advani; Jonathan D Dinman
Journal:  Bioessays       Date:  2015-12-12       Impact factor: 4.345

6.  Large-scale mass spectrometry-based analysis of Euplotes octocarinatus supports the high frequency of +1 programmed ribosomal frameshift.

Authors:  Ruanlin Wang; Zhiyun Zhang; Jun Du; Yuejun Fu; Aihua Liang
Journal:  Sci Rep       Date:  2016-09-06       Impact factor: 4.379

7.  High frequency of +1 programmed ribosomal frameshifting in Euplotes octocarinatus.

Authors:  Ruanlin Wang; Jie Xiong; Wei Wang; Wei Miao; Aihua Liang
Journal:  Sci Rep       Date:  2016-02-19       Impact factor: 4.379

Review 8.  Programmed Deviations of Ribosomes From Standard Decoding in Archaea.

Authors:  Federica De Lise; Andrea Strazzulli; Roberta Iacono; Nicola Curci; Mauro Di Fenza; Luisa Maurelli; Marco Moracci; Beatrice Cobucci-Ponzano
Journal:  Front Microbiol       Date:  2021-06-04       Impact factor: 5.640

9.  Genetic engineering of Pyrococcus furiosus to use chitin as a carbon source.

Authors:  Martina Kreuzer; Karolin Schmutzler; Ingrid Waege; Michael Thomm; Winfried Hausner
Journal:  BMC Biotechnol       Date:  2013-02-07       Impact factor: 2.563

10.  Identification of the nature of reading frame transitions observed in prokaryotic genomes.

Authors:  Ivan Antonov; Arthur Coakley; John F Atkins; Pavel V Baranov; Mark Borodovsky
Journal:  Nucleic Acids Res       Date:  2013-05-06       Impact factor: 16.971

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