Possible mechanisms responsible for absence of a retrotransposon family on a plant Y chromosome

0455516 - ÚEB 2016 RIV GB eng J - Journal Article
Kubát, Z. - Žlůvová, J. - Vogel, I. - Kováčová, V. - Čermák, T. - Čegan, R. - Hobza, Roman - Vyskot, B. - Kejnovský, E.
Possible mechanisms responsible for absence of a retrotransposon family on a plant Y chromosome.
New Phytologist. Roč. 202, č. 2 (2014), s. 662-678. ISSN 0028-646X. E-ISSN 1469-8137
R&D Projects: GA ČR GAP501/12/2220
Institutional support: RVO:61389030
Keywords : epigenetics * genome size * long terminal repeat
Subject RIV: EB - Genetics ; Molecular Biology
Impact factor: 7.672, year: 2014

Some transposable elements (TEs) show extraordinary variance in abundance along sex chromosomes but the mechanisms responsible for this variance are unknown. Here, we studied Ogre long terminal repeat (LTR) retrotransposons in Silene latifolia, a dioecious plant with evolutionarily young heteromorphic sex chromosomes. Ogre elements are ubiquitous in the S.latifolia genome but surprisingly absent on the Y chromosome. Bacterial artificial chromosome (BAC) library analysis and fluorescence in situ hybridization (FISH) were used to determine Ogre structure and chromosomal localization. Next generation sequencing (NGS) data were analysed to assess the transcription level and abundance of small RNAs. Methylation of Ogres was determined by bisulphite sequencing. Phylogenetic analysis was used to determine mobilization time and selection forces acting on Ogre elements. We characterized three Ogre families ubiquitous in the S.latifolia genome. One family is nearly absent on the Y chromosome despite all the families having similar structures and spreading mechanisms.
Permanent Link: http://hdl.handle.net/11104/0256090