Nucleolar rDNA folds into condensed foci with a specific
combination of epigenetic marks

J 2021

Nucleolar rDNA folds into condensed foci with a specific combination of epigenetic marks

KUTASHEV, Konstantin, Michal FRANEK, Klev DIAMANTI, Jan KOMOROWSKI, Marie OLSINOVA et. al.

Základní údaje

Originální název

Nucleolar rDNA folds into condensed foci with a specific combination of epigenetic marks

Autoři

KUTASHEV, Konstantin (643 Rusko, domácí), Michal FRANEK (703 Slovensko, domácí), Klev DIAMANTI, Jan KOMOROWSKI, Marie OLSINOVA a Martina DVOŘÁČKOVÁ (203 Česká republika, garant, domácí)

Vydání

Plant Journal, Hoboken, Wiley, 2021, 0960-7412

Další údaje

Jazyk

angličtina

Typ výsledku

Článek v odborném periodiku

Obor

10611 Plant sciences, botany

Stát vydavatele

Spojené státy

Utajení

není předmětem státního či obchodního tajemství

Odkazy

URL

Impakt faktor

Impact factor: 7.091

Kód RIV

RIV/00216224:14740/21:00118848

Organizační jednotka

Středoevropský technologický institut

DOI

http://dx.doi.org/10.1111/tpj.15130

UT WoS

000606381300001

Klíčová slova anglicky

chromatin; rDNA; nucleolar foci; histone variants; chromatin immunoprecipitation; super-resolution microscopy

Štítky

CF CELLIM, CF GEN, CF PLANT, rivok

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 15. 10. 2024 14:18, Ing. Martina Blahová

Anotace

V originále

Arabidopsis thaliana 45S ribosomal genes (rDNA) are located in tandem arrays called nucleolus organizing regions on the termini of chromosomes 2 and 4 (NOR2 and NOR4) and encode rRNA, a crucial structural element of the ribosome. The current model of rDNA organization suggests that inactive rRNA genes accumulate in the condensed chromocenters in the nucleus and at the nucleolar periphery, while the nucleolus delineates active genes. We challenge the perspective that all intranucleolar rDNA is active by showing that a subset of nucleolar rDNA assembles into condensed foci marked by H3.1 and H3.3 histones that also contain the repressive H3K9me2 histone mark. By using plant lines containing a low number of rDNA copies, we further found that the condensed foci relate to the folding of rDNA, which appears to be a common mechanism of rDNA regulation inside the nucleolus. The H3K9me2 histone mark found in condensed foci represents a typical modification of bulk inactive rDNA, as we show by genome-wide approaches, similar to the H2A.W histone variant. The euchromatin histone marks H3K27me3 and H3K4me3, in contrast, do not colocalize with nucleolar foci and their overall levels in the nucleolus are very low. We further demonstrate that the rDNA promoter is an important regulatory region of the rDNA, where the distribution of histone variants and histone modifications are modulated in response to rDNA activity.

Návaznosti

EF16_013/0001775, projekt VaV

Název: Modernizace a podpora výzkumných aktivit národní infrastruktury pro biologické a medicínské zobrazování Czech-BioImaging

EF16_026/0008446, projekt VaV

Název: Integrace signálu a epigenetické reprogramování pro produktivitu rostlin

GJ19-11880Y, projekt VaV

Název: Chromatinové prostředí indukované genotoxickými látkami

Investor: Grantová agentura ČR, Chromatinové prostředí indukované genotoxickými látkami

LTC18048, projekt VaV

Název: Prostorové uspořádání významných jaderných domén a jejich proteinových složek

Investor: Ministerstvo školství, mládeže a tělovýchovy ČR, Prostorové uspořádání významných jaderných domén a jejich proteinových složek, INTER-COST

90129, velká výzkumná infrastruktura

Název: Czech-BioImaging II

90132, velká výzkumná infrastruktura

Název: NCMG II

Citovat

KUTASHEV, Konstantin, Michal FRANEK, Klev DIAMANTI, Jan KOMOROWSKI, Marie OLSINOVA a Martina DVOŘÁČKOVÁ. Nucleolar rDNA folds into condensed foci with a specific combination of epigenetic marks. Plant Journal. Hoboken: Wiley, 2021, roč. 105, č. 6, s. 1534-1548. ISSN 0960-7412. Dostupné z: https://dx.doi.org/10.1111/tpj.15130.

@article{1734976,
   author = {Kutashev, Konstantin and Franek, Michal and Diamanti, Klev and Komorowski, Jan and Olsinova, Marie and Dvořáčková, Martina},
   article_location = {Hoboken},
   article_number = {6},
   doi = {http://dx.doi.org/10.1111/tpj.15130},
   keywords = {chromatin; rDNA; nucleolar foci; histone variants; chromatin immunoprecipitation; super-resolution microscopy},
   language = {eng},
   issn = {0960-7412},
   journal = {Plant Journal},
   title = {Nucleolar rDNA folds into condensed foci with a specific combination of epigenetic marks},
   url = {https://doi.org/10.1111/tpj.15130},
   volume = {105},
   year = {2021}
}

TY  - JOUR
ID  - 1734976
AU  - Kutashev, Konstantin - Franek, Michal - Diamanti, Klev - Komorowski, Jan - Olsinova, Marie - Dvořáčková, Martina
PY  - 2021
TI  - Nucleolar rDNA folds into condensed foci with a specific combination of epigenetic marks
JF  - Plant Journal
VL  - 105
IS  - 6
SP  - 1534-1548
EP  - 1534-1548
PB  - Wiley
SN  - 09607412
KW  - chromatin
KW  - rDNA
KW  - nucleolar foci
KW  - histone variants
KW  - chromatin immunoprecipitation
KW  - super-resolution microscopy
UR  - https://doi.org/10.1111/tpj.15130
L2  - https://doi.org/10.1111/tpj.15130
N2  - Arabidopsis thaliana 45S ribosomal genes (rDNA) are located in tandem arrays called nucleolus organizing regions on the termini of chromosomes 2 and 4 (NOR2 and NOR4) and encode rRNA, a crucial structural element of the ribosome. The current model of rDNA organization suggests that inactive rRNA genes accumulate in the condensed chromocenters in the nucleus and at the nucleolar periphery, while the nucleolus delineates active genes. We challenge the perspective that all intranucleolar rDNA is active by showing that a subset of nucleolar rDNA assembles into condensed foci marked by H3.1 and H3.3 histones that also contain the repressive H3K9me2 histone mark. By using plant lines containing a low number of rDNA copies, we further found that the condensed foci relate to the folding of rDNA, which appears to be a common mechanism of rDNA regulation inside the nucleolus. The H3K9me2 histone mark found in condensed foci represents a typical modification of bulk inactive rDNA, as we show by genome-wide approaches, similar to the H2A.W histone variant. The euchromatin histone marks H3K27me3 and H3K4me3, in contrast, do not colocalize with nucleolar foci and their overall levels in the nucleolus are very low. We further demonstrate that the rDNA promoter is an important regulatory region of the rDNA, where the distribution of histone variants and histone modifications are modulated in response to rDNA activity.
ER  -

KUTASHEV, Konstantin, Michal FRANEK, Klev DIAMANTI, Jan KOMOROWSKI, Marie OLSINOVA a Martina DVOŘÁČKOVÁ. Nucleolar rDNA folds into condensed foci with a specific combination of epigenetic marks. \textit{Plant Journal}. Hoboken: Wiley, 2021, roč.~105, č.~6, s.~1534-1548. ISSN~0960-7412. Dostupné z: https://dx.doi.org/10.1111/tpj.15130.

Podrobný výpis o publikaci