Thermal and pH stabilities of i‐DNA: confronting in vitro
experiments with models and in‐cell NMR data

J 2021

Thermal and pH stabilities of i‐DNA: confronting in vitro experiments with models and in‐cell NMR data

CHENG, Mingpan, Dehui QIU, Liezel TAMON, Eva IŠTVÁNKOVÁ, Pavlína VÍŠKOVÁ et. al.

Basic information

Original name

Thermal and pH stabilities of i‐DNA: confronting in vitro experiments with models and in‐cell NMR data

Authors

CHENG, Mingpan, Dehui QIU, Liezel TAMON, Eva IŠTVÁNKOVÁ (203 Czech Republic, belonging to the institution), Pavlína VÍŠKOVÁ (203 Czech Republic, belonging to the institution), Samir AMRANE, Aurore GUÉDIN, Jielin CHEN, Laurent LACROIX, Huangxian JU, Lukáš TRANTÍREK (203 Czech Republic, guarantor, belonging to the institution), Aleksandr B. SAHAKYAN, Jun ZHOU and Jean-Louis MERGNY

Edition

ANGEWANDTE CHEMIE-INTERNATIONAL EDITION, Wiley-VCH Verlag GmbH, 2021, 1433-7851

Other information

Language

English

Type of outcome

Článek v odborném periodiku

Field of Study

10608 Biochemistry and molecular biology

Country of publisher

Germany

Confidentiality degree

není předmětem státního či obchodního tajemství

References:

URL

Impact factor

Impact factor: 16.823

RIV identification code

RIV/00216224:14740/21:00118900

Organization unit

Central European Institute of Technology

DOI

http://dx.doi.org/10.1002/anie.202016801

UT WoS

000631801800001

Keywords in English

DNA; i-motif; thermal stability; pH transition; intracellular stability

Abstract

V originále

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.

Links

GX19-26041X, research and development project

Name: Strukturní biologie nové generace: Od izolovaných molekul k buňkám, od buněk ke tkáním.

Investor: Czech Science Foundation

LQ1601, research and development project

Name: CEITEC 2020 (Acronym: CEITEC2020)

Investor: Ministry of Education, Youth and Sports of the CR

90043, large research infrastructures

Name: CIISB

Citovat

CHENG, Mingpan, 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 and Jean-Louis MERGNY. Thermal and pH stabilities of i‐DNA: confronting in vitro experiments with models and in‐cell NMR data. ANGEWANDTE CHEMIE-INTERNATIONAL EDITION. Wiley-VCH Verlag GmbH, 2021, vol. 60, No 18, p. 10286-10294. ISSN 1433-7851. Available from: https://dx.doi.org/10.1002/anie.202016801.

@article{1754819,
   author = {Cheng, Mingpan and Qiu, Dehui and Tamon, Liezel and Ištvánková, Eva and Víšková, Pavlína and Amrane, Samir and Guédin, Aurore and Chen, Jielin and Lacroix, Laurent and Ju, Huangxian and Trantírek, Lukáš and Sahakyan, Aleksandr B. and Zhou, Jun and Mergny, JeanandLouis},
   article_number = {18},
   doi = {http://dx.doi.org/10.1002/anie.202016801},
   keywords = {DNA; i-motif; thermal stability; pH transition; intracellular stability},
   language = {eng},
   issn = {1433-7851},
   journal = {ANGEWANDTE CHEMIE-INTERNATIONAL EDITION},
   title = {Thermal and pH stabilities of i‐DNA: confronting in vitro experiments with models and in‐cell NMR data},
   url = {https://onlinelibrary.wiley.com/doi/10.1002/anie.202016801},
   volume = {60},
   year = {2021}
}

TY  - JOUR
ID  - 1754819
AU  - Cheng, Mingpan - Qiu, Dehui - Tamon, Liezel - Ištvánková, Eva - Víšková, Pavlína - Amrane, Samir - Guédin, Aurore - Chen, Jielin - Lacroix, Laurent - Ju, Huangxian - Trantírek, Lukáš - Sahakyan, Aleksandr B. - Zhou, Jun - Mergny, Jean-Louis
PY  - 2021
TI  - Thermal and pH stabilities of i‐DNA: confronting in vitro experiments with models and in‐cell NMR data
JF  - ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
VL  - 60
IS  - 18
SP  - 10286-10294
EP  - 10286-10294
PB  - Wiley-VCH Verlag GmbH
SN  - 14337851
KW  - DNA
KW  - i-motif
KW  - thermal stability
KW  - pH transition
KW  - intracellular stability
UR  - https://onlinelibrary.wiley.com/doi/10.1002/anie.202016801
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.
ER  -

CHENG, Mingpan, 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 and Jean-Louis MERGNY. Thermal and pH stabilities of i‐DNA: confronting in vitro experiments with models and in‐cell NMR data. \textit{ANGEWANDTE CHEMIE-INTERNATIONAL EDITION}. Wiley-VCH Verlag GmbH, 2021, vol.~60, No~18, p.~10286-10294. ISSN~1433-7851. Available from: https://dx.doi.org/10.1002/anie.202016801.

Detailed Information on Publication Record