The arms race of ray-finned fish against the derepression of LTR retroelements

Scientific Reports, Год журнала: 2024, Номер 14(1)

Опубликована: Ноя. 27, 2024

Abstract Transposable elements (TEs) are dynamic components of eukaryotic genomes that important in speciation. Evolutionary pressure has led to the evolution silencing mechanisms, such as involvement Krüppel box-associated zinc finger proteins (KRAB-ZFPs) regulate TE transcription via TRIM28-mediated NuRD complex recruitment sarcopterygians. The transcriptional activity genes encode was also detected actinopterygians, even though encoding crucial TRIM28 and KRAB-ZNF missing this evolutionary lineage. This study hypothesized TRIM33 could serve a replacement for lineage suggested an relationship between sarcopterygian KRAB-ZFPs, actinopterygian KRAB-like ZNFs fish N-terminal zinc-associated domain (FiNZ) specific cyprinids. Through coimmunoprecipitation analyses conducted basal teleost Anguilla marmorata cyprinid Danio rerio , we evaluated interaction with FiNZ ZFPs. Moreover, explored expression profiles TEs potentially involved their during zebrafish development. Our results may provide new evidence more thoroughly understanding mechanisms underlying adaptation ray-finned fish.

Язык: Английский

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Maintaining Telomeres without Telomerase inDrosophila: Novel Mechanisms and Rapid Evolution to Save a Genus

Cold Spring Harbor Perspectives in Biology, Год журнала: 2024, Номер 17(3), С. a041708 - a041708

Опубликована: Дек. 18, 2024

Telomere maintenance is crucial for preventing the linear eukaryotic chromosome ends from being mistaken DNA double-strand breaks, thereby avoiding fusions and loss of genetic material. Unlike most eukaryotes that use telomerase telomere maintenance, Drosophila relies on retrotransposable elements-specifically HeT-A, TAHRE, TART (collectively referred to as HTT)-which are regulated precisely targeted ends. protection mediated by a set fast-evolving proteins, termed terminin, which bind termini without sequence specificity, balancing damage response factors avoid erroneous repair mechanisms. This unique capping mechanism highlights an alternative evolutionary strategy compensate loss. The modulation recombination transcription at telomeres offers insights into diverse mechanisms maintenance. Recent studies population level have begun reveal architecture arrays, diversity among HTT subfamilies, their relative frequencies, aiming understand whether how these elements evolved reach equilibrium with host resolve conflicts. Further may shed light complex relationships between transcription, recombination, underscoring adaptive plasticity telomeric complexes across eukaryotes.

Язык: Английский

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Translation elongation inhibitors stabilize select short-lived transcripts

RNA, Год журнала: 2024, Номер 30(12), С. 1572 - 1585

Опубликована: Сен. 18, 2024

Translation elongation inhibitors are commonly used to study different cellular processes. Yet, their specific impact on transcription and mRNA decay has not been thoroughly assessed. Here, we use TimeLapse sequencing investigate how translational stress impacts dynamics in human cells. Our results reveal that a distinct group of transcripts is stabilized response the translation inhibitor emetine. These mRNAs short-lived at steady state, many them encode C2H2 zinc finger proteins. The codon usage these suboptimal compared other expressed transcripts, including after emetine treatment. Finally, show stabilization independent ribosome quality control factors signaling pathways activated by collisions. data describe whose degradation particularly sensitive inhibition elongation.

Язык: Английский

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Syntenic lncRNA locus exhibits DNA regulatory functions with sequence evolution

Gene, Год журнала: 2024, Номер 933, С. 148988 - 148988

Опубликована: Окт. 6, 2024

Язык: Английский

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Universal signatures of transposable element compartmentalization across eukaryotic genes

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2023, Номер unknown

Опубликована: Окт. 20, 2023

The evolutionary mechanisms that drive the emergence of genome architecture remain poorly understood but can now be assessed with unprecedented power due to massive accumulation assemblies spanning phylogenetic diversity. Transposable elements (TEs) are a rich source large-effect mutations since they directly and indirectly genomic structural variation changes in gene expression. Here, we demonstrate universal patterns TE compartmentalization across eukaryotic genomes ~1.7 billion years evolution, which TEs colocalize families under strong predicted selective pressure for dynamic evolution involved specific functions. For non-pathogenic species these genes represent defense, sensory perception environmental interaction, whereas pathogenic species, TE-compartmentalized highly enriched Many display signatures positive selection at molecular level. Furthermore, exhibit an excess high-frequency alleles polymorphic insertions fruit fly populations. We postulate reflect adaptive as well TE-associated variants. This process may shared diverse lineages.

Язык: Английский

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