Contrasting Patterns of Transposable Element and Satellite
Distribution on Sex Chromosomes (XY1Y2) in the Dioecious Plant
Rumex acetosa

J 2013

Contrasting Patterns of Transposable Element and Satellite Distribution on Sex Chromosomes (XY1Y2) in the Dioecious Plant Rumex acetosa

ŠTEFLOVÁ, Pavlína, Viktor TOKAN, Ivan VOGEL, Matej LEXA, Jiří MACAS et. al.

Základní údaje

Originální název

Contrasting Patterns of Transposable Element and Satellite Distribution on Sex Chromosomes (XY1Y2) in the Dioecious Plant Rumex acetosa

Autoři

ŠTEFLOVÁ, Pavlína (203 Česká republika, domácí), Viktor TOKAN (203 Česká republika), Ivan VOGEL (703 Slovensko, domácí), Matej LEXA (703 Slovensko, domácí), Jiří MACAS (203 Česká republika), Petr NOVAK (203 Česká republika), Roman HOBZA (203 Česká republika), Boris VYSKOT (203 Česká republika) a Eduard KEJNOVSKÝ (203 Česká republika, garant, domácí)

Vydání

GENOME BIOLOGY AND EVOLUTION, Oxford, UK, Oxford Univ Press, 2013, 1759-6653

Další údaje

Jazyk

angličtina

Typ výsledku

Článek v odborném periodiku

Obor

10601 Cell biology

Stát vydavatele

Velká Británie a Severní Irsko

Utajení

není předmětem státního či obchodního tajemství

Odkazy

URL

Impakt faktor

Impact factor: 4.532

Kód RIV

RIV/00216224:14740/13:00068595

Organizační jednotka

Středoevropský technologický institut

DOI

http://dx.doi.org/10.1093/gbe/evt049

UT WoS

000318557200013

Klíčová slova anglicky

sex chromosomes; sorrel (Rumex acetosa); transposable elements; satellites

Štítky

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 13. 3. 2018 14:19, doc. Ing. Matej Lexa, Ph.D.

Anotace

V originále

Rumex acetosa is a dioecious plant with the XY1Y2 sex chromosome system. Both Y chromosomes are heterochromatic and are thought to be degenerated.We performed low-pass 454 sequencing and similarity-based clustering of male and female genomic 454 reads to identify and characterize major groups of R. acetosa repetitive DNA. We found that Copia and Gypsy retrotransposons dominated, followed by DNA transposons and nonlong terminal repeat retrotransposons. CRM and Tat/Ogre retrotransposons dominated the Gypsy superfamily, whereas Maximus/Sireviruses were most abundant among Copia retrotransposons. Only one Gypsy subfamily had accumulated on Y1 and Y2 chromosomes,whereas many retrotransposons were ubiquitous on autosomes and the X chromosome, but absent on Y1 and Y2 chromosomes, and otherswere depleted fromthe X chromosome. One group of CRM Gypsywas specifically localized to centromeres.Wealso found thatmajority of previously described satellites (RAYSI, RAYSII, RAYSIII, andRAE180) are accumulatedontheYchromosomeswherewe identifiedYchromosome-specific variant ofRAE180.Wediscovered two novel satellites-RA160 satellite dominating on the X chromosome and RA690 localized mostly on the Y1 chromosome. The expression pattern obtained from IlluminaRNAsequencing showedthat the expression of transposable elements is similar in leaves of both sexes and that satellites are also expressed. Contrasting patterns of transposable elements (TEs) and satellite localization on sex chromosomes in R. acetosa,where not only accumulation but also depletion of repetitiveDNAwas observed, suggest that a plethora of evolutionary processes can shape sex chromosomes.

Návaznosti

ED1.1.00/02.0068, projekt VaV

Název: CEITEC - central european institute of technology

EE2.3.20.0045, projekt VaV

Název: Podpora profesního růstu a mezinárodní integrace výzkumných týmů v oblasti molekulární medicíny

Přiložené soubory

Steflova_13_GBE.pdf

Požádat o autorskou verzi souboru

Citovat

ŠTEFLOVÁ, Pavlína, Viktor TOKAN, Ivan VOGEL, Matej LEXA, Jiří MACAS, Petr NOVAK, Roman HOBZA, Boris VYSKOT a Eduard KEJNOVSKÝ. Contrasting Patterns of Transposable Element and Satellite Distribution on Sex Chromosomes (XY1Y2) in the Dioecious Plant Rumex acetosa. GENOME BIOLOGY AND EVOLUTION. Oxford, UK: Oxford Univ Press, 2013, roč. 5, č. 4, s. 769-782. ISSN 1759-6653. Dostupné z: https://dx.doi.org/10.1093/gbe/evt049.

@article{1112012,
   author = {Šteflová, Pavlína and Tokan, Viktor and Vogel, Ivan and Lexa, Matej and Macas, Jiří and Novak, Petr and Hobza, Roman and Vyskot, Boris and Kejnovský, Eduard},
   article_location = {Oxford, UK},
   article_number = {4},
   doi = {http://dx.doi.org/10.1093/gbe/evt049},
   keywords = {sex chromosomes; sorrel (Rumex acetosa); transposable elements; satellites},
   language = {eng},
   issn = {1759-6653},
   journal = {GENOME BIOLOGY AND EVOLUTION},
   title = {Contrasting Patterns of Transposable Element and Satellite Distribution on Sex Chromosomes (XY1Y2) in the Dioecious Plant Rumex acetosa},
   url = {http://gbe.oxfordjournals.org/content/5/4/769.full.pdf+html},
   volume = {5},
   year = {2013}
}

TY  - JOUR
ID  - 1112012
AU  - Šteflová, Pavlína - Tokan, Viktor - Vogel, Ivan - Lexa, Matej - Macas, Jiří - Novak, Petr - Hobza, Roman - Vyskot, Boris - Kejnovský, Eduard
PY  - 2013
TI  - Contrasting Patterns of Transposable Element and Satellite Distribution on Sex Chromosomes (XY1Y2) in the Dioecious Plant Rumex acetosa
JF  - GENOME BIOLOGY AND EVOLUTION
VL  - 5
IS  - 4
SP  - 769-782
EP  - 769-782
PB  - Oxford Univ Press
SN  - 17596653
KW  - sex chromosomes
KW  - sorrel (Rumex acetosa)
KW  - transposable elements
KW  - satellites
UR  - http://gbe.oxfordjournals.org/content/5/4/769.full.pdf+html
L2  - http://gbe.oxfordjournals.org/content/5/4/769.full.pdf+html
N2  - Rumex acetosa is a dioecious plant with the XY1Y2 sex chromosome system. Both Y chromosomes are heterochromatic and are thought to be degenerated.We performed low-pass 454 sequencing and similarity-based clustering of male and female genomic 454 reads to identify and characterize major groups of R. acetosa repetitive DNA. We found that Copia and Gypsy retrotransposons dominated, followed by DNA transposons and nonlong terminal repeat retrotransposons. CRM and Tat/Ogre retrotransposons dominated the Gypsy superfamily, whereas Maximus/Sireviruses were most abundant among Copia retrotransposons. Only one Gypsy subfamily had accumulated on Y1 and Y2 chromosomes,whereas many retrotransposons were ubiquitous on autosomes and the X chromosome, but absent on Y1 and Y2 chromosomes, and otherswere depleted fromthe X chromosome. One group of CRM Gypsywas specifically localized to centromeres.Wealso found thatmajority of previously described satellites (RAYSI, RAYSII, RAYSIII, andRAE180) are accumulatedontheYchromosomeswherewe identifiedYchromosome-specific variant ofRAE180.Wediscovered two novel satellites-RA160 satellite dominating on the X chromosome and RA690 localized mostly on the Y1 chromosome. The expression pattern obtained from IlluminaRNAsequencing showedthat the expression of transposable elements is similar in leaves of both sexes and that satellites are also expressed. Contrasting patterns of transposable elements (TEs) and satellite localization on sex chromosomes in R. acetosa,where not only accumulation but also depletion of repetitiveDNAwas observed, suggest that a plethora of evolutionary processes can shape sex chromosomes.
ER  -

ŠTEFLOVÁ, Pavlína, Viktor TOKAN, Ivan VOGEL, Matej LEXA, Jiří MACAS, Petr NOVAK, Roman HOBZA, Boris VYSKOT a Eduard KEJNOVSKÝ. Contrasting Patterns of Transposable Element and Satellite Distribution on Sex Chromosomes (XY1Y2) in the Dioecious Plant Rumex acetosa. \textit{GENOME BIOLOGY AND EVOLUTION}. Oxford, UK: Oxford Univ Press, 2013, roč.~5, č.~4, s.~769-782. ISSN~1759-6653. Dostupné z: https://dx.doi.org/10.1093/gbe/evt049.

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