Non canonical bases differentially represented in the sex
chromosomes of the dioecious plant Silene latifolia

J 2024

Non canonical bases differentially represented in the sex chromosomes of the dioecious plant Silene latifolia

HUBINSKÝ, Marcel, Roman HOBZA, Marta STARCZAK, Daniel GACKOWSKI, Zdeněk KUBÁT et. al.

Základní údaje

Originální název

Non canonical bases differentially represented in the sex chromosomes of the dioecious plant Silene latifolia

Autoři

HUBINSKÝ, Marcel (703 Slovensko, garant, domácí), Roman HOBZA (203 Česká republika), Marta STARCZAK, Daniel GACKOWSKI, Zdeněk KUBÁT, Tomáš JANÍČEK, Lucie HORÁKOVÁ a José Luís RODRÍGUEZ LORENZO (724 Španělsko)

Vydání

Journal of Experimental Botany, Oxford University Press, 2024, 0022-0957

Další údaje

Jazyk

angličtina

Typ výsledku

Článek v odborném periodiku

Obor

10611 Plant sciences, botany

Stát vydavatele

Velká Británie a Severní Irsko

Utajení

není předmětem státního či obchodního tajemství

Odkazy

URL

Impakt faktor

Impact factor: 6.900 v roce 2022

Organizační jednotka

Přírodovědecká fakulta

DOI

http://dx.doi.org/10.1093/jxb/erae178

UT WoS

001243510300001

Klíčová slova anglicky

Silene latifolia; sex chromosomes; transposable elements; cytosine modifications; dosage compensation; oxi-mCs

Štítky

rivok

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 16. 7. 2024 09:21, Mgr. Marie Šípková, DiS.

Anotace

V originále

The oxidation of 5-methylcytosine (5mC) to 5-hydroxymethylcytosine (5hmC), 5-formylcytosine (5fC), and 5-carboxylcytosine (5caC), known as oxi-mCs, garners significant interest in plants as potential epigenetic marks. While research in mammals has established a role in cell reprogramming, carcinogenesis and gene regulation, their functions in plants remain unclear. In rice, 5hmC has been associated with transposable elements and heterochromatin. This study utilizes Silene latifolia, a dioecious plant with heteromorphic sex chromosomes and a genome with a large proportion of transposable elements, which provides a favourable environment for the study of oxi-mCs in individual sexes. Notably, we detected surprisingly high levels of oxi-mCs in S. latifolia comparable to mammals. Nuclei showed enrichment in heterochromatic regions, except for 5hmC which signal was homogeneously distributed. Intriguingly, the same X chromosome in females displayed overall enrichment of 5hmC and 5fC regarding its counterpart. This fact is shared with 5mC resembling dosage compensation. Colocalization showed higher correlation between 5mC and 5fC than with 5hmC, suggesting no potential relationship between 5hmC and 5fC. Additionally, the promoter of several sex-linked genes and sex biased TEs gathered on a clear sex-dependent clustering. Together, these findings unveil a hypothetical role of oxi-mCs in S. latifolia sex chromosome development, warranting further exploration.

Návaznosti

90250, velká výzkumná infrastruktura

Název: Czech-BioImaging III

Citovat

HUBINSKÝ, Marcel, Roman HOBZA, Marta STARCZAK, Daniel GACKOWSKI, Zdeněk KUBÁT, Tomáš JANÍČEK, Lucie HORÁKOVÁ a José Luís RODRÍGUEZ LORENZO. Non canonical bases differentially represented in the sex chromosomes of the dioecious plant Silene latifolia. Journal of Experimental Botany. Oxford University Press, 2024, roč. 75, č. 13, s. 3849-3861. ISSN 0022-0957. Dostupné z: https://dx.doi.org/10.1093/jxb/erae178.

@article{2397238,
   author = {Hubinský, Marcel and Hobza, Roman and Starczak, Marta and Gackowski, Daniel and Kubát, Zdeněk and Janíček, Tomáš and Horáková, Lucie and Rodríguez Lorenzo, José Luís},
   article_number = {13},
   doi = {http://dx.doi.org/10.1093/jxb/erae178},
   keywords = {Silene latifolia; sex chromosomes; transposable elements; cytosine modifications; dosage compensation; oxi-mCs},
   language = {eng},
   issn = {0022-0957},
   journal = {Journal of Experimental Botany},
   title = {Non canonical bases differentially represented in the sex chromosomes of the dioecious plant Silene latifolia},
   url = {https://academic.oup.com/jxb/advance-article/doi/10.1093/jxb/erae178/7656699},
   volume = {75},
   year = {2024}
}

TY  - JOUR
ID  - 2397238
AU  - Hubinský, Marcel - Hobza, Roman - Starczak, Marta - Gackowski, Daniel - Kubát, Zdeněk - Janíček, Tomáš - Horáková, Lucie - Rodríguez Lorenzo, José Luís
PY  - 2024
TI  - Non canonical bases differentially represented in the sex chromosomes of the dioecious plant Silene latifolia
JF  - Journal of Experimental Botany
VL  - 75
IS  - 13
SP  - 3849-3861
EP  - 3849-3861
PB  - Oxford University Press
SN  - 00220957
KW  - Silene latifolia
KW  - sex chromosomes
KW  - transposable elements
KW  - cytosine modifications
KW  - dosage compensation
KW  - oxi-mCs
UR  - https://academic.oup.com/jxb/advance-article/doi/10.1093/jxb/erae178/7656699
N2  - The oxidation of 5-methylcytosine (5mC) to 5-hydroxymethylcytosine (5hmC), 5-formylcytosine (5fC), and 5-carboxylcytosine (5caC), known as oxi-mCs, garners significant interest in plants as potential epigenetic marks. While research in mammals has established a role in cell reprogramming, carcinogenesis and gene regulation, their functions in plants remain unclear. In rice, 5hmC has been associated with transposable elements and heterochromatin. This study utilizes Silene latifolia, a dioecious plant with heteromorphic sex chromosomes and a genome with a large proportion of transposable elements, which provides a favourable environment for the study of oxi-mCs in individual sexes. Notably, we detected surprisingly high levels of oxi-mCs in S. latifolia comparable to mammals. Nuclei showed enrichment in heterochromatic regions, except for 5hmC which signal was homogeneously distributed. Intriguingly, the same X chromosome in females displayed overall enrichment of 5hmC and 5fC regarding its counterpart. This fact is shared with 5mC resembling dosage compensation. Colocalization showed higher correlation between 5mC and 5fC than with 5hmC, suggesting no potential relationship between 5hmC and 5fC. Additionally, the promoter of several sex-linked genes and sex biased TEs gathered on a clear sex-dependent clustering. Together, these findings unveil a hypothetical role of oxi-mCs in S. latifolia sex chromosome development, warranting further exploration.
ER  -

HUBINSKÝ, Marcel, Roman HOBZA, Marta STARCZAK, Daniel GACKOWSKI, Zdeněk KUBÁT, Tomáš JANÍČEK, Lucie HORÁKOVÁ a José Luís RODRÍGUEZ LORENZO. Non canonical bases differentially represented in the sex chromosomes of the dioecious plant Silene latifolia. \textit{Journal of Experimental Botany}. Oxford University Press, 2024, roč.~75, č.~13, s.~3849-3861. ISSN~0022-0957. Dostupné z: https://dx.doi.org/10.1093/jxb/erae178.

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