Biophysical Properties and Thermal Stability of Oligonucleotides of RNA Containing 7,8-Dihydro-8-hydroxyadenosine
Identifieur interne : 001D30 ( Main/Exploration ); précédent : 001D29; suivant : 001D31Biophysical Properties and Thermal Stability of Oligonucleotides of RNA Containing 7,8-Dihydro-8-hydroxyadenosine
Auteurs : Ana M. Chauca-Diaz ; Yu Jung Choi ; Marino J E. ResendizSource :
- Biopolymers [ 0006-3525 ] ; 2014.
Descripteurs français
- KwdFr :
- MESH :
- analogues et dérivés : Adénosine.
- ARN, Adénosine, Conformation d'acide nucléique, Dichroïsme circulaire, Oligonucléotides.
English descriptors
- KwdEn :
- MESH :
- chemical , analogs & derivatives : Adenosine.
- chemical , chemistry : Adenosine, Oligonucleotides, RNA.
- Circular Dichroism, Nucleic Acid Conformation.
Abstract
Circular dichroism (CD) was used to assess the stabilization/destabilization imposed by oxidative lesion 7,8-dihydro-8-hydroxyadenosine (8-oxoA) on strands of RNA with different structural motifs. RNA:RNA homoduplex destabilization was observed in a position dependent manner using 10-mers as models that displayed differences between 12.7 and 15.1°C. We found that increasing the number of modifications resulted in depressed Tm values of about 12–15°C per lesion. The same effect was observed on RNA:DNA heteroduplex samples. We also tested the effects of this lesion in short hairpins containing the tetraloop UUCX (X = A, 8-oxoA). We found that the stem was hypersensitive to substitution of A by 8-oxoA and that it destabilized the structure by >23°C. Concomitant substitution at the stem and loop prevented formation of this secondary structure or lead to other less-stable hairpins. Incorporation of this lesion at the first base of the loop had no effect on either structure. Overall, we found that the effects of 8-oxoA on RNA structure are position dependent and that its stabilization may vary from sharp decreases to small increments, in some cases, leading to the formation of other more/less stable structures. These structural changes may have larger biological implications, particularly if the oxidatively modified RNA persists, thus leading to changes in RNA reactivity and function. © 2014 Wiley Periodicals, Inc. Biopolymers 103: 167–174, 2015.
Url:
DOI: 10.1002/bip.22579
PubMed: 25363418
PubMed Central: 4302245
Affiliations:
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Chauca-Diaz</name></author><author><name sortKey="Jung Choi, Yu" sort="Jung Choi, Yu" uniqKey="Jung Choi Y" first="Yu" last="Jung Choi">Yu Jung Choi</name></author><author><name sortKey="Resendiz, Marino J E" sort="Resendiz, Marino J E" uniqKey="Resendiz M" first="Marino J E" last="Resendiz">Marino J E. Resendiz</name></author></analytic><series><title level="j">Biopolymers</title><idno type="ISSN">0006-3525</idno><idno type="eISSN">1097-0282</idno><imprint><date when="2014">2014</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Adenosine (analogs & derivatives)</term><term>Adenosine (chemistry)</term><term>Circular Dichroism</term><term>Nucleic Acid Conformation</term><term>Oligonucleotides (chemistry)</term><term>RNA (chemistry)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ARN ()</term><term>Adénosine ()</term><term>Adénosine (analogues et dérivés)</term><term>Conformation d'acide nucléique</term><term>Dichroïsme circulaire</term><term>Oligonucléotides ()</term></keywords><keywords scheme="MESH" type="chemical" qualifier="analogs & derivatives" xml:lang="en"><term>Adenosine</term></keywords><keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>Adenosine</term><term>Oligonucleotides</term><term>RNA</term></keywords><keywords scheme="MESH" qualifier="analogues et dérivés" xml:lang="fr"><term>Adénosine</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Circular Dichroism</term><term>Nucleic Acid Conformation</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>ARN</term><term>Adénosine</term><term>Conformation d'acide nucléique</term><term>Dichroïsme circulaire</term><term>Oligonucléotides</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>Circular dichroism (CD) was used to assess the stabilization/destabilization imposed by oxidative lesion 7,8-dihydro-8-hydroxyadenosine (8-oxoA) on strands of RNA with different structural motifs. RNA:RNA homoduplex destabilization was observed in a position dependent manner using 10-mers as models that displayed differences between 12.7 and 15.1°C. We found that increasing the number of modifications resulted in depressed T<sub>m</sub> values of about 12–15°C per lesion. The same effect was observed on RNA:DNA heteroduplex samples. We also tested the effects of this lesion in short hairpins containing the tetraloop UUCX (X = A, 8-oxoA). We found that the stem was hypersensitive to substitution of A by 8-oxoA and that it destabilized the structure by >23°C. Concomitant substitution at the stem and loop prevented formation of this secondary structure or lead to other less-stable hairpins. Incorporation of this lesion at the first base of the loop had no effect on either structure. Overall, we found that the effects of 8-oxoA on RNA structure are position dependent and that its stabilization may vary from sharp decreases to small increments, in some cases, leading to the formation of other more/less stable structures. These structural changes may have larger biological implications, particularly if the oxidatively modified RNA persists, thus leading to changes in RNA reactivity and function. © 2014 Wiley Periodicals, Inc. Biopolymers 103: 167–174, 2015.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Dickinson, Bc" uniqKey="Dickinson B">BC Dickinson</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Fleming, Am" uniqKey="Fleming A">AM Fleming</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Zhou, C" uniqKey="Zhou C">C Zhou</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Bohne, C" uniqKey="Bohne C">C Bohne</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Cadet, J" uniqKey="Cadet J">J Cadet</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Poulsen, He" uniqKey="Poulsen H">HE Poulsen</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Cooke, Ms" uniqKey="Cooke M">MS Cooke</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="De Bont, R" uniqKey="De Bont R">R De Bont</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Henriksen, T" uniqKey="Henriksen T">T Henriksen</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Nunomura, A" uniqKey="Nunomura A">A Nunomura</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Li, Z" uniqKey="Li Z">Z Li</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Steenken, S" uniqKey="Steenken S">S Steenken</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Singh, Ta" uniqKey="Singh T">TA Singh</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Rokhlenko, Y" uniqKey="Rokhlenko Y">Y Rokhlenko</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Nilov, Ci" uniqKey="Nilov C">CI 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Mje" uniqKey="Resendiz M">MJE Resendiz</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Deng, N J" uniqKey="Deng N">N-J Deng</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Ma, H" uniqKey="Ma H">H Ma</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Williams, Dj" uniqKey="Williams D">DJ Williams</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Clark, Cl" uniqKey="Clark C">CL Clark</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Cheatham, Te" uniqKey="Cheatham T">TE Cheatham</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Ghanty, U" uniqKey="Ghanty U">U Ghanty</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Hernandez, Ar" uniqKey="Hernandez A">AR Hernández</name></author></analytic></biblStruct><biblStruct><analytic><author><name 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Chauca-Diaz</name><name sortKey="Jung Choi, Yu" sort="Jung Choi, Yu" uniqKey="Jung Choi Y" first="Yu" last="Jung Choi">Yu Jung Choi</name><name sortKey="Resendiz, Marino J E" sort="Resendiz, Marino J E" uniqKey="Resendiz M" first="Marino J E" last="Resendiz">Marino J E. Resendiz</name></noCountry></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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