Natural history of a satellite DNA family : From the ancestral genome component to species-specific sequences, concerted and non-concerted evolution

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Belyayev , A , Josefiová , J , Jandová , M , Kalendar , R , Krak , K & Mandák , B 2019 , ' Natural history of a satellite DNA family : From the ancestral genome component to species-specific sequences, concerted and non-concerted evolution ' , International Journal of Molecular Sciences , vol. 20 , no. 5 , 1201 . https://doi.org/10.3390/ijms20051201

Title: Natural history of a satellite DNA family : From the ancestral genome component to species-specific sequences, concerted and non-concerted evolution
Author: Belyayev, Alexander; Josefiová, Jiřina; Jandová, Michaela; Kalendar, Ruslan; Krak, Karol; Mandák, Bohumil
Contributor organization: Crop Science Research Group
Department of Agricultural Sciences
Date: 2019-03-01
Language: eng
Number of pages: 16
Belongs to series: International Journal of Molecular Sciences
ISSN: 1422-0067
DOI: https://doi.org/10.3390/ijms20051201
URI: http://hdl.handle.net/10138/300837
Abstract: Satellite DNA (satDNA) is the most variable fraction of the eukaryotic genome. Related species share a common ancestral satDNA library, and changing of any library component in a particular lineage results in interspecific differences. Although the general developmental trend is clear, our knowledge of the origin and dynamics of satDNAs is still fragmentary. Here, we explore whole genome shotgun Illumina reads using the RepeatExplorer (RE) pipeline to infer satDNA family life stories in the genomes of Chenopodium species. The studied seven diploids represent separate lineages and provide an example of a species complex typical for angiosperms. Application of the RE pipeline allowed to determine by similarity searches the satDNA family with a basic monomer of ~40 bp and to trace its transformation from the reconstructed ancestral to the species-specific sequences. As a result, three types of satDNA family evolutionary development were distinguished: (i) concerted evolution with mutation and recombination events; (ii) concerted evolution with a trend toward increased complexity and length of the satellite monomer; and (iii) non-concerted evolution, with low levels of homogenization and multidirectional trends. The third type is an example of entire repeatome transformation, thus producing a novel set of satDNA families, and genomes showing non-concerted evolution are proposed as a significant source for genomic diversity.
Subject: 1184 Genetics, developmental biology, physiology
SATELLITE DNA
genome evolution
plants
next generation sequencing
high order repeats
REPETITIVE DNA
CHROMOSOMAL LOCALIZATION
TRANSPOSABLE ELEMENTS
TANDEM REPEATS
HETEROCHROMATIN
ORGANIZATION
dynamics
program
Peer reviewed: Yes
Rights: cc_by
Usage restriction: openAccess
Self-archived version: publishedVersion


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