Programmed ribosomal frameshifting in decoding the SARS-CoV genome

Pavel V. Baranov; Clark M. Henderson; Christine B. Anderson; Raymond F. Gesteland; John F. Atkins; Michael T. Howard

doi:10.1016/j.virol.2004.11.038

Programmed ribosomal frameshifting in decoding the SARS-CoV genome

Pavel V. Baranov
, Clark M. Henderson
, Christine B. Anderson
, Raymond F. Gesteland
, John F. Atkins
, Michael T. Howard

School of Biochemistry and Cell Biology

Research output: Contribution to journal › Article › peer-review

Abstract

Programmed ribosomal frameshifting is an essential mechanism used for the expression of orf1b in coronaviruses. Comparative analysis of the frameshift region reveals a universal shift site U_UUA_AAC, followed by a predicted downstream RNA structure in the form of either a pseudoknot or kissing stem loops. Frameshifting in SARS-CoV has been characterized in cultured mammalian cells using a dual luciferase reporter system and mass spectrometry. Mutagenic analysis of the SARS-CoV shift site and mass spectrometry of an affinity tagged frameshift product confirmed tandem tRNA slippage on the sequence U_UUA_AAC. Analysis of the downstream pseudoknot stimulator of frameshifting in SARS-CoV shows that a proposed RNA secondary structure in loop II and two unpaired nucleotides at the stem I-stem II junction in SARS-CoV are important for frameshift stimulation. These results demonstrate key sequences required for efficient frameshifting, and the utility of mass spectrometry to study ribosomal frameshifting.

Original language	English
Pages (from-to)	498-510
Number of pages	13
Journal	Virology
Volume	332
Issue number	2
DOIs	https://doi.org/10.1016/j.virol.2004.11.038
Publication status	Published - 20 Feb 2005

Keywords

Alternative decoding
Coronavirus
Frameshift
Mass spectrometry
Pseudoknot
Recoding
SARS
Tandem slippage
Translation

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

Access to Document

10.1016/j.virol.2004.11.038

Cite this

@article{92af0a7f03364ff3b56a1c098bf6f6a1,

title = "Programmed ribosomal frameshifting in decoding the SARS-CoV genome",

abstract = "Programmed ribosomal frameshifting is an essential mechanism used for the expression of orf1b in coronaviruses. Comparative analysis of the frameshift region reveals a universal shift site U\_UUA\_AAC, followed by a predicted downstream RNA structure in the form of either a pseudoknot or kissing stem loops. Frameshifting in SARS-CoV has been characterized in cultured mammalian cells using a dual luciferase reporter system and mass spectrometry. Mutagenic analysis of the SARS-CoV shift site and mass spectrometry of an affinity tagged frameshift product confirmed tandem tRNA slippage on the sequence U\_UUA\_AAC. Analysis of the downstream pseudoknot stimulator of frameshifting in SARS-CoV shows that a proposed RNA secondary structure in loop II and two unpaired nucleotides at the stem I-stem II junction in SARS-CoV are important for frameshift stimulation. These results demonstrate key sequences required for efficient frameshifting, and the utility of mass spectrometry to study ribosomal frameshifting.",

keywords = "Alternative decoding, Coronavirus, Frameshift, Mass spectrometry, Pseudoknot, Recoding, SARS, Tandem slippage, Translation",

author = "Baranov, \{Pavel V.\} and Henderson, \{Clark M.\} and Anderson, \{Christine B.\} and Gesteland, \{Raymond F.\} and Atkins, \{John F.\} and Howard, \{Michael T.\}",

year = "2005",

month = feb,

day = "20",

doi = "10.1016/j.virol.2004.11.038",

language = "English",

volume = "332",

pages = "498--510",

journal = "Virology",

issn = "0042-6822",

publisher = "Academic Press Inc.",

number = "2",

}

TY - JOUR

T1 - Programmed ribosomal frameshifting in decoding the SARS-CoV genome

AU - Baranov, Pavel V.

AU - Henderson, Clark M.

AU - Anderson, Christine B.

AU - Gesteland, Raymond F.

AU - Atkins, John F.

AU - Howard, Michael T.

PY - 2005/2/20

Y1 - 2005/2/20

N2 - Programmed ribosomal frameshifting is an essential mechanism used for the expression of orf1b in coronaviruses. Comparative analysis of the frameshift region reveals a universal shift site U_UUA_AAC, followed by a predicted downstream RNA structure in the form of either a pseudoknot or kissing stem loops. Frameshifting in SARS-CoV has been characterized in cultured mammalian cells using a dual luciferase reporter system and mass spectrometry. Mutagenic analysis of the SARS-CoV shift site and mass spectrometry of an affinity tagged frameshift product confirmed tandem tRNA slippage on the sequence U_UUA_AAC. Analysis of the downstream pseudoknot stimulator of frameshifting in SARS-CoV shows that a proposed RNA secondary structure in loop II and two unpaired nucleotides at the stem I-stem II junction in SARS-CoV are important for frameshift stimulation. These results demonstrate key sequences required for efficient frameshifting, and the utility of mass spectrometry to study ribosomal frameshifting.

AB - Programmed ribosomal frameshifting is an essential mechanism used for the expression of orf1b in coronaviruses. Comparative analysis of the frameshift region reveals a universal shift site U_UUA_AAC, followed by a predicted downstream RNA structure in the form of either a pseudoknot or kissing stem loops. Frameshifting in SARS-CoV has been characterized in cultured mammalian cells using a dual luciferase reporter system and mass spectrometry. Mutagenic analysis of the SARS-CoV shift site and mass spectrometry of an affinity tagged frameshift product confirmed tandem tRNA slippage on the sequence U_UUA_AAC. Analysis of the downstream pseudoknot stimulator of frameshifting in SARS-CoV shows that a proposed RNA secondary structure in loop II and two unpaired nucleotides at the stem I-stem II junction in SARS-CoV are important for frameshift stimulation. These results demonstrate key sequences required for efficient frameshifting, and the utility of mass spectrometry to study ribosomal frameshifting.

KW - Alternative decoding

KW - Coronavirus

KW - Frameshift

KW - Mass spectrometry

KW - Pseudoknot

KW - Recoding

KW - SARS

KW - Tandem slippage

KW - Translation

UR - https://www.scopus.com/pages/publications/13144277572

U2 - 10.1016/j.virol.2004.11.038

DO - 10.1016/j.virol.2004.11.038

M3 - Article

C2 - 15680415

AN - SCOPUS:13144277572

SN - 0042-6822

VL - 332

SP - 498

EP - 510

JO - Virology

JF - Virology

IS - 2

ER -

Programmed ribosomal frameshifting in decoding the SARS-CoV genome

Abstract

Keywords

UN SDGs

Access to Document

Other files and links

Fingerprint

Cite this