A natural fast-cleaving branching ribozyme from the amoeboflagellate Naegleria pringsheimi

Yunjia Tang; Henrik Nielsen; Asa Birna Birgisdottir; Steinar Johansen

A natural fast-cleaving branching ribozyme from the amoeboflagellate Naegleria pringsheimi

Yunjia Tang, Henrik Nielsen, Asa Birna Birgisdottir, Steinar Johansen

6 Citationer (Scopus)

Abstract

The GIR1 branching ribozyme constitutes a separate class of naturally occurring ribozymes. Most studies have been performed with the single GIR1 known from the myxomycete Didymium iridis whereas the large number of GIR1s found in the amoeboflagellate Naegleria has remained largely uncharacterized. Here, we investigate ribozyme cleavage properties of a collection of Naegleria GIR1 ribozymes and define the variant from N. pringsheimi as a suitable model due to its superior activity in vitro. We identify the minimal ribozyme by deletion analysis applying a new RNase R based assay for the branching reaction, and by mutational analysis we demonstrate a surprising effect on the activity of structural elements J2/10 and L9 located outside the core of the ribozyme. These elements are located in regions that differ mostly from the Didymium ribozyme and illustrate the usefulness of comparative ribozyme studies.

Originalsprog	Engelsk
Tidsskrift	R N A Biology
Vol/bind	8
Udgave nummer	6
Sider (fra-til)	997-1004
Antal sider	8
ISSN	1547-6286
Status	Udgivet - nov. 2011

Citationsformater

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title = "A natural fast-cleaving branching ribozyme from the amoeboflagellate Naegleria pringsheimi",

abstract = "The GIR1 branching ribozyme constitutes a separate class of naturally occurring ribozymes. Most studies have been performed with the single GIR1 known from the myxomycete Didymium iridis whereas the large number of GIR1s found in the amoeboflagellate Naegleria has remained largely uncharacterized. Here, we investigate ribozyme cleavage properties of a collection of Naegleria GIR1 ribozymes and define the variant from N. pringsheimi as a suitable model due to its superior activity in vitro. We identify the minimal ribozyme by deletion analysis applying a new RNase R based assay for the branching reaction, and by mutational analysis we demonstrate a surprising effect on the activity of structural elements J2/10 and L9 located outside the core of the ribozyme. These elements are located in regions that differ mostly from the Didymium ribozyme and illustrate the usefulness of comparative ribozyme studies.",

author = "Yunjia Tang and Henrik Nielsen and Birgisdottir, {Asa Birna} and Steinar Johansen",

year = "2011",

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T1 - A natural fast-cleaving branching ribozyme from the amoeboflagellate Naegleria pringsheimi

AU - Tang, Yunjia

AU - Nielsen, Henrik

AU - Birgisdottir, Asa Birna

AU - Johansen, Steinar

PY - 2011/11

Y1 - 2011/11

N2 - The GIR1 branching ribozyme constitutes a separate class of naturally occurring ribozymes. Most studies have been performed with the single GIR1 known from the myxomycete Didymium iridis whereas the large number of GIR1s found in the amoeboflagellate Naegleria has remained largely uncharacterized. Here, we investigate ribozyme cleavage properties of a collection of Naegleria GIR1 ribozymes and define the variant from N. pringsheimi as a suitable model due to its superior activity in vitro. We identify the minimal ribozyme by deletion analysis applying a new RNase R based assay for the branching reaction, and by mutational analysis we demonstrate a surprising effect on the activity of structural elements J2/10 and L9 located outside the core of the ribozyme. These elements are located in regions that differ mostly from the Didymium ribozyme and illustrate the usefulness of comparative ribozyme studies.

AB - The GIR1 branching ribozyme constitutes a separate class of naturally occurring ribozymes. Most studies have been performed with the single GIR1 known from the myxomycete Didymium iridis whereas the large number of GIR1s found in the amoeboflagellate Naegleria has remained largely uncharacterized. Here, we investigate ribozyme cleavage properties of a collection of Naegleria GIR1 ribozymes and define the variant from N. pringsheimi as a suitable model due to its superior activity in vitro. We identify the minimal ribozyme by deletion analysis applying a new RNase R based assay for the branching reaction, and by mutational analysis we demonstrate a surprising effect on the activity of structural elements J2/10 and L9 located outside the core of the ribozyme. These elements are located in regions that differ mostly from the Didymium ribozyme and illustrate the usefulness of comparative ribozyme studies.

M3 - Journal article

C2 - 21941120

SN - 1547-6286

VL - 8

SP - 997

EP - 1004

JO - R N A Biology

JF - R N A Biology

IS - 6

ER -

A natural fast-cleaving branching ribozyme from the amoeboflagellate Naegleria pringsheimi

Abstract

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