Thermal and pH Stabilities of i-DNA: Confronting in vitro Experiments with Models and In-Cell NMR Data

Mingpan Cheng; Dehui Qiu; Liezel Tamon; Eva Ištvánková; Pavlína Víšková; Samir Amrane; Aurore Guédin; Jielin Chen; Laurent Lacroix; Huangxian Ju; Lukáš Trantírek; Aleksandr B. Sahakyan; Jun Zhou; Jean Louis Mergny

doi:10.1002/anie.202016801

Thermal and pH Stabilities of i-DNA: Confronting in vitro Experiments with Models and In-Cell NMR Data

Mingpan Cheng, Dehui Qiu, Liezel Tamon, Eva Ištvánková, Pavlína Víšková, Samir Amrane, Aurore Guédin, Jielin Chen, Laurent Lacroix, Huangxian Ju, Lukáš Trantírek, Aleksandr B. Sahakyan, Jun Zhou, Jean Louis Mergny

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

Abstract

Recent studies indicate that i-DNA, a four-stranded cytosine-rich DNA also known as the i-motif, is actually formed in vivo; however, a systematic study on sequence effects on stability has been missing. Herein, an unprecedented number of different sequences (271) bearing four runs of 3–6 cytosines with different spacer lengths has been tested. While i-DNA stability is nearly independent on total spacer length, the central spacer plays a special role on stability. Stability also depends on the length of the C-tracts at both acidic and neutral pHs. This study provides a global picture on i-DNA stability thanks to the large size of the introduced data set; it reveals unexpected features and allows to conclude that determinants of i-DNA stability do not mirror those of G-quadruplexes. Our results illustrate the structural roles of loops and C-tracts on i-DNA stability, confirm its formation in cells, and allow establishing rules to predict its stability.

Original language	English
Pages (from-to)	10286-10294
Number of pages	9
Journal	Angewandte Chemie - International Edition
Volume	60
Issue number	18
DOIs	https://doi.org/10.1002/anie.202016801
Publication status	Published - 26 Apr 2021

Keywords

DNA
i-motif
intracellular stability
pH transition
thermal stability

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Cheng, M., Qiu, D., Tamon, L., Ištvánková, E., Víšková, P., Amrane, S., Guédin, A., Chen, J., Lacroix, L., Ju, H., Trantírek, L., Sahakyan, A. B., Zhou, J., & Mergny, J. L. (2021). Thermal and pH Stabilities of i-DNA: Confronting in vitro Experiments with Models and In-Cell NMR Data. Angewandte Chemie - International Edition, 60(18), 10286-10294. https://doi.org/10.1002/anie.202016801

@article{a6435d4194494939a9fe3cbcfb1f70bc,

title = "Thermal and pH Stabilities of i-DNA: Confronting in vitro Experiments with Models and In-Cell NMR Data",

abstract = "Recent studies indicate that i-DNA, a four-stranded cytosine-rich DNA also known as the i-motif, is actually formed in vivo; however, a systematic study on sequence effects on stability has been missing. Herein, an unprecedented number of different sequences (271) bearing four runs of 3–6 cytosines with different spacer lengths has been tested. While i-DNA stability is nearly independent on total spacer length, the central spacer plays a special role on stability. Stability also depends on the length of the C-tracts at both acidic and neutral pHs. This study provides a global picture on i-DNA stability thanks to the large size of the introduced data set; it reveals unexpected features and allows to conclude that determinants of i-DNA stability do not mirror those of G-quadruplexes. Our results illustrate the structural roles of loops and C-tracts on i-DNA stability, confirm its formation in cells, and allow establishing rules to predict its stability.",

keywords = "DNA, i-motif, intracellular stability, pH transition, thermal stability",

author = "Mingpan Cheng and Dehui Qiu and Liezel Tamon and Eva I{\v s}tv{\'a}nkov{\'a} and Pavl{\'i}na V{\'i}{\v s}kov{\'a} and Samir Amrane and Aurore Gu{\'e}din and Jielin Chen and Laurent Lacroix and Huangxian Ju and Luk{\'a}{\v s} Trant{\'i}rek and Sahakyan, \{Aleksandr B.\} and Jun Zhou and Mergny, \{Jean Louis\}",

note = "Publisher Copyright: {\textcopyright} 2021 Wiley-VCH GmbH",

year = "2021",

month = apr,

day = "26",

doi = "10.1002/anie.202016801",

language = "English",

volume = "60",

pages = "10286--10294",

journal = "Angewandte Chemie - International Edition",

issn = "1433-7851",

number = "18",

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Cheng, M, Qiu, D, Tamon, L, Ištvánková, E, Víšková, P, Amrane, S, Guédin, A, Chen, J, Lacroix, L, Ju, H, Trantírek, L, Sahakyan, AB, Zhou, J & Mergny, JL 2021, 'Thermal and pH Stabilities of i-DNA: Confronting in vitro Experiments with Models and In-Cell NMR Data', Angewandte Chemie - International Edition, vol. 60, no. 18, pp. 10286-10294. https://doi.org/10.1002/anie.202016801

TY - JOUR

T1 - Thermal and pH Stabilities of i-DNA

T2 - Confronting in vitro Experiments with Models and In-Cell NMR Data

AU - Cheng, Mingpan

AU - Qiu, Dehui

AU - Tamon, Liezel

AU - Ištvánková, Eva

AU - Víšková, Pavlína

AU - Amrane, Samir

AU - Guédin, Aurore

AU - Chen, Jielin

AU - Lacroix, Laurent

AU - Ju, Huangxian

AU - Trantírek, Lukáš

AU - Sahakyan, Aleksandr B.

AU - Zhou, Jun

AU - Mergny, Jean Louis

PY - 2021/4/26

Y1 - 2021/4/26

N2 - Recent studies indicate that i-DNA, a four-stranded cytosine-rich DNA also known as the i-motif, is actually formed in vivo; however, a systematic study on sequence effects on stability has been missing. Herein, an unprecedented number of different sequences (271) bearing four runs of 3–6 cytosines with different spacer lengths has been tested. While i-DNA stability is nearly independent on total spacer length, the central spacer plays a special role on stability. Stability also depends on the length of the C-tracts at both acidic and neutral pHs. This study provides a global picture on i-DNA stability thanks to the large size of the introduced data set; it reveals unexpected features and allows to conclude that determinants of i-DNA stability do not mirror those of G-quadruplexes. Our results illustrate the structural roles of loops and C-tracts on i-DNA stability, confirm its formation in cells, and allow establishing rules to predict its stability.

AB - Recent studies indicate that i-DNA, a four-stranded cytosine-rich DNA also known as the i-motif, is actually formed in vivo; however, a systematic study on sequence effects on stability has been missing. Herein, an unprecedented number of different sequences (271) bearing four runs of 3–6 cytosines with different spacer lengths has been tested. While i-DNA stability is nearly independent on total spacer length, the central spacer plays a special role on stability. Stability also depends on the length of the C-tracts at both acidic and neutral pHs. This study provides a global picture on i-DNA stability thanks to the large size of the introduced data set; it reveals unexpected features and allows to conclude that determinants of i-DNA stability do not mirror those of G-quadruplexes. Our results illustrate the structural roles of loops and C-tracts on i-DNA stability, confirm its formation in cells, and allow establishing rules to predict its stability.

KW - DNA

KW - i-motif

KW - intracellular stability

KW - pH transition

KW - thermal stability

U2 - 10.1002/anie.202016801

DO - 10.1002/anie.202016801

M3 - Article

C2 - 33605024

AN - SCOPUS:85102924495

SN - 1433-7851

VL - 60

SP - 10286

EP - 10294

JO - Angewandte Chemie - International Edition

JF - Angewandte Chemie - International Edition

IS - 18

ER -

Thermal and pH Stabilities of i-DNA: Confronting in vitro Experiments with Models and In-Cell NMR Data

Abstract

Keywords

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