Transposable elements and microevolutionary changes in natural populations

Bonchev, Georgi; Parisod, Christian

doi:10.1111/1755-0998.12133

Cited by 62 publications

(59 citation statements)

References 97 publications

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“…It is known that retrotransposons move in living organisms in the course of evolution [24]. However, the exact nature and role of these elements in human evolution are not clear.…”

Section: Resultsmentioning

confidence: 99%

Sukkularetrotransposon movements in the human genome

Cakmak

Marakli

Gözükırmızı

2017

Biotechnology & Biotechnological Equipment

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Retrotransposons, a subclass of mobile genetic elements, have been discovered in many organisms. In this study, we identified a plant-specific retrotransposon (Sukkula) in the human genome (24 different DNA samples) by using retrotransposon-based molecular marker technique: interretrotransposon amplified polymorphism. There were five different groups related to the ages of the subjects. The polymorphism ratios were 8%-100% among all samples, 10%-91% among females (12 subjects) and 13%-100% among males (12 subjects). Moreover, we also observed 8%-91% polymorphism ratios when comparing males to females. To the best of our knowledge, this is one of the first reports on plant-specific retrotransposons in the human genome. The obtained findings are expected to contribute to broadening the knowledge about plant retrotransposons in the human genome and their role in human genome evolution.

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“…It is known that retrotransposons move in living organisms in the course of evolution [24]. However, the exact nature and role of these elements in human evolution are not clear.…”

Section: Resultsmentioning

confidence: 99%

Sukkularetrotransposon movements in the human genome

Cakmak

Marakli

Gözükırmızı

2017

Biotechnology & Biotechnological Equipment

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“…Additional experiments in the five sunflower species designed to assay insertional activity of these sequences will be required to address this issue. For example, copy number variation could be assessed through genome resequencing efforts [100,101], which are currently underway for several species of sunflowers.…”

Section: (A) Expression Divergencementioning

confidence: 99%

Genomics of homoploid hybrid speciation: diversity and transcriptional activity of long terminal repeat retrotransposons in hybrid sunflowers

Renaut

Rowe

Ungerer

et al. 2014

Phil. Trans. R. Soc. B

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Hybridization is thought to play an important role in plant evolution by introducing novel genetic combinations and promoting genome restructuring. However, surprisingly little is known about the impact of hybridization on transposable element (TE) proliferation and the genomic response to TE activity. In this paper, we first review the mechanisms by which homoploid hybrid species may arise in nature. We then present hybrid sunflowers as a case study to examine transcriptional activity of long terminal repeat retrotransposons in the annual sunflowers Helianthus annuus , Helianthus petiolaris and their homoploid hybrid derivatives ( H. paradoxus , H. anomalus and H. deserticola ) using high-throughput transcriptome sequencing technologies (RNAseq). Sampling homoploid hybrid sunflower taxa revealed abundant variation in TE transcript accumulation. In addition, genetic diversity for several candidate genes hypothesized to regulate TE activity was characterized. Specifically, we highlight one candidate chromatin remodelling factor gene with a direct role in repressing TE activity in a hybrid species. This paper shows that TE amplification in hybrid lineages is more idiosyncratic than previously believed and provides a first step towards identifying the mechanisms responsible for regulating and repressing TE expansions.

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“…However, the functional and evolutionary roles of mobile transposable elements (TEs), which are abundant in eukaryotes genomes and considered as major drivers of their organization [3,4], is controversial (see [5,6]). In particular, to what extent TE-related dynamics of genomes supports species diversification remains poorly understood [7,8].…”

Section: Introductionmentioning

confidence: 99%

Genome reorganization in F ₁ hybrids uncovers the role of retrotransposons in reproductive isolation

2015

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Interspecific hybridization leads to new interactions among divergent genomes, revealing the nature of genetic incompatibilities having accumulated during and after the origin of species. Conflicts associated with misregulation of transposable elements (TEs) in hybrids expectedly result in their activation and genome-wide changes that may be key to species boundaries. Repetitive genomes of wild wheats have diverged under differential dynamics of specific long terminal repeat retrotransposons (LTR-RTs), offering unparalleled opportunities to address the underpinnings of plant genome reorganization by selfish sequences. Using reciprocal F 1 hybrids between three Aegilops species, restructuring and epigenetic repatterning was assessed at random and LTR-RT sequences with amplified fragment length polymorphism and sequencespecific amplified polymorphisms as well as their methylation-sensitive counterparts, respectively. Asymmetrical reorganization of LTR-RT families predicted to cause conflicting interactions matched differential survival of F 1 hybrids. Consistent with the genome shock model, increasing divergence of merged LTR-RTs yielded higher levels of changes in corresponding genome fractions and lead to repeated reorganization of LTR-RT sequences in F 1 hybrids. Such non-random reorganization of hybrid genomes is coherent with the necessary repression of incompatible TE loci in support of hybrid viability and indicates that TE-driven genomic conflicts may represent an overlooked factor supporting reproductive isolation.

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Transposable elements and microevolutionary changes in natural populations

Cited by 62 publications

References 97 publications

Sukkularetrotransposon movements in the human genome

Sukkularetrotransposon movements in the human genome

Genomics of homoploid hybrid speciation: diversity and transcriptional activity of long terminal repeat retrotransposons in hybrid sunflowers

Genome reorganization in F ₁ hybrids uncovers the role of retrotransposons in reproductive isolation

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Transposable elements and microevolutionary changes in natural populations

Cited by 62 publications

References 97 publications

Sukkularetrotransposon movements in the human genome

Sukkularetrotransposon movements in the human genome

Genomics of homoploid hybrid speciation: diversity and transcriptional activity of long terminal repeat retrotransposons in hybrid sunflowers

Genome reorganization in F 1 hybrids uncovers the role of retrotransposons in reproductive isolation

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Genome reorganization in F ₁ hybrids uncovers the role of retrotransposons in reproductive isolation