Genome invasion by a hypomethylated satellite repeat in
Australian crucifer Ballantinia antipoda

J 2019

Genome invasion by a hypomethylated satellite repeat in Australian crucifer Ballantinia antipoda

FINKE, A.; Terezie MANDÁKOVÁ; K. NAWAZ; G.T.H. VU; P. NOVÁK et al.

Základní údaje

Originální název

Genome invasion by a hypomethylated satellite repeat in Australian crucifer Ballantinia antipoda

Autoři

FINKE, A.; Terezie MANDÁKOVÁ; K. NAWAZ; G.T.H. VU; P. NOVÁK; Jiří MACAS; Martin LYSÁK a A. PECINKA

Vydání

Plant Journal, Oxford, Blackwell Publishing Ltd, 2019, 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: 6.141

Označené pro přenos do RIV

Ano

Kód RIV

RIV/00216224:14740/19:00108135

Organizační jednotka

Středoevropský technologický institut

Klíčová slova anglicky

satellite repeats; heterochromatin; DNA methylation; comparative genomics; Brassicaceae

Štítky

rivok

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 31. 3. 2020 21:35, Mgr. Pavla Foltynová, Ph.D.

Anotace

V originále

Repetitive sequences are ubiquitous components of all eukaryotic genomes. They contribute to genome evolution and the regulation of gene transcription. However, the uncontrolled activity of repetitive sequences can negatively affect genome functions and stability. Therefore, repetitive DNAs are embedded in a highly repressive heterochromatic environment in plant cell nuclei. Here, we analyzed the sequence, composition and the epigenetic makeup of peculiar non-pericentromeric heterochromatic segments in the genome of the Australian crucifer Ballantinia antipoda. By the combination of high throughput sequencing, graph-based clustering and cytogenetics, we found that the heterochromatic segments consist of a mixture of unique sequences and an A-T-rich 174 bp satellite repeat (BaSAT1). BaSAT1 occupies about 10% of the B. antipoda nuclear genome in >250 000 copies. Unlike many other highly repetitive sequences, BaSAT1 repeats are hypomethylated; this contrasts with the normal patterns of DNA methylation in the B. antipoda genome. Detailed analysis of several copies revealed that these non-methylated BaSAT1 repeats were also devoid of heterochromatic histone H3K9me2 methylation. However, the factors decisive for the methylation status of BaSAT1 repeats remain currently unknown. In summary, we show that even highly repetitive sequences can exist as hypomethylated in the plant nuclear genome.

Návaznosti

GA17-13029S, projekt VaV

Název: Chybějící souvislosti: evoluce genomu v tribu Camelineae (brukvovité)

Investor: Grantová agentura ČR, Chybějící souvislosti: evoluce genomu v tribu Camelineae (brukvovité)

GBP501/12/G090, projekt VaV

Název: Evoluce a funkce komplexních genomů rostlin

LQ1601, projekt VaV

Název: CEITEC 2020 (Akronym: CEITEC2020)

Investor: Ministerstvo školství, mládeže a tělovýchovy ČR, CEITEC 2020

Citovat

FINKE, A.; Terezie MANDÁKOVÁ; K. NAWAZ; G.T.H. VU; P. NOVÁK; Jiří MACAS; Martin LYSÁK a A. PECINKA. Genome invasion by a hypomethylated satellite repeat in Australian crucifer Ballantinia antipoda. Plant Journal. Oxford: Blackwell Publishing Ltd, 2019, roč. 99, č. 6, s. 1066-1079. ISSN 0960-7412. Dostupné z: https://doi.org/10.1111/tpj.14380.

@article{1614693,
   author = {Finke, A. and Mandáková, Terezie and Nawaz, K. and Vu, G.T.H. and Novák, P. and Macas, Jiří and Lysák, Martin and Pecinka, A.},
   article_location = {Oxford},
   article_number = {6},
   doi = {https://doi.org/10.1111/tpj.14380},
   keywords = {satellite repeats; heterochromatin; DNA methylation; comparative genomics; Brassicaceae},
   language = {eng},
   issn = {0960-7412},
   journal = {Plant Journal},
   title = {Genome invasion by a hypomethylated satellite repeat in Australian crucifer Ballantinia antipoda},
   url = {https://onlinelibrary.wiley.com/doi/full/10.1111/tpj.14380},
   volume = {99},
   year = {2019}
}

TY  - JOUR
ID  - 1614693
AU  - Finke, A. - Mandáková, Terezie - Nawaz, K. - Vu, G.T.H. - Novák, P. - Macas, Jiří - Lysák, Martin - Pecinka, A.
PY  - 2019
TI  - Genome invasion by a hypomethylated satellite repeat in Australian crucifer Ballantinia antipoda
JF  - Plant Journal
VL  - 99
IS  - 6
SP  - 1066-1079
EP  - 1066-1079
PB  - Blackwell Publishing Ltd
SN  - 09607412
KW  - satellite repeats
KW  - heterochromatin
KW  - DNA methylation
KW  - comparative genomics
KW  - Brassicaceae
UR  - https://onlinelibrary.wiley.com/doi/full/10.1111/tpj.14380
L2  - https://onlinelibrary.wiley.com/doi/full/10.1111/tpj.14380
N2  - Repetitive sequences are ubiquitous components of all eukaryotic genomes. They contribute to genome evolution and the regulation of gene transcription. However, the uncontrolled activity of repetitive sequences can negatively affect genome functions and stability. Therefore, repetitive DNAs are embedded in a highly repressive heterochromatic environment in plant cell nuclei. Here, we analyzed the sequence, composition and the epigenetic makeup of peculiar non-pericentromeric heterochromatic segments in the genome of the Australian crucifer Ballantinia antipoda. By the combination of high throughput sequencing, graph-based clustering and cytogenetics, we found that the heterochromatic segments consist of a mixture of unique sequences and an A-T-rich 174 bp satellite repeat (BaSAT1). BaSAT1 occupies about 10% of the B. antipoda nuclear genome in >250 000 copies. Unlike many other highly repetitive sequences, BaSAT1 repeats are hypomethylated; this contrasts with the normal patterns of DNA methylation in the B. antipoda genome. Detailed analysis of several copies revealed that these non-methylated BaSAT1 repeats were also devoid of heterochromatic histone H3K9me2 methylation. However, the factors decisive for the methylation status of BaSAT1 repeats remain currently unknown. In summary, we show that even highly repetitive sequences can exist as hypomethylated in the plant nuclear genome.
ER  -

FINKE, A.; Terezie MANDÁKOVÁ; K. NAWAZ; G.T.H. VU; P. NOVÁK; Jiří MACAS; Martin LYSÁK a A. PECINKA. Genome invasion by a hypomethylated satellite repeat in Australian crucifer Ballantinia antipoda. \textit{Plant Journal}. Oxford: Blackwell Publishing Ltd, 2019, roč.~99, č.~6, s.~1066-1079. ISSN~0960-7412. Dostupné z: https://doi.org/10.1111/tpj.14380.

Přehled o publikaci