Widespread HCD-tRNA derived SINEs in bivalves rely on multiple LINE partners and accumulate in genic regions DOI Creative Commons
Jacopo Martelossi, Mariangela Iannello, Fabrizio Ghiselli

et al.

Mobile DNA, Journal Year: 2024, Volume and Issue: 15(1)

Published: Oct. 16, 2024

Short interspersed nuclear elements (SINEs) are non-autonomous non-LTR retrotransposons widespread across eukaryotes. They exist both as lineage-specific, fast-evolving and ubiquitous superfamilies characterized by highly conserved domains (HCD). Several of these have been described in bivalves, however their overall distribution impact on host genome evolution still unknown due to the extreme scarcity transposon libraries for clade. In this study, we examined more than 40 bivalve genomes uncover HCD-tRNA-related SINEs, discover novel SINE-LINE partnerships, understand possible role shaping evolution.

Language: Английский

Subtelomeric repeat expansion in Hydractinia symbiolongicarpus chromosomes DOI Creative Commons
Tetsuo Kon, Koto Kon‐Nanjo, Oleg Simakov

et al.

Mobile DNA, Journal Year: 2025, Volume and Issue: 16(1)

Published: March 25, 2025

Despite the striking conservation of animal chromosomes, their repetitive element complements are vastly diverse. Only recently, high quality chromosome-level genome assemblies enabled identification repeat compositions along a broad range chromosomes. Here, utilizing assembly Hydractinia symbiolongicarpus, colonial hydrozoan cnidarian, we describe an accumulation single 372 bp unit in subtelomeric regions. Based on sequence divergence, its partial affinity with Helitron group can be detected. This is associated repeated minisatellite about 150 bp. Together, they account for 26.1% (126 Mb 483 Mb). could explain size increase observed H. symbiolongicarpus compared other cnidarians, yet distinguishes this expansion from large cnidarian genomes, such as Hydra vulgaris, where localized propagation absent. Additionally, identify derivative IS3EU-like DNA accumulated at putative centromeric Our analysis further reveals that Helitrons generally comprise proportion (11.8%). We investigated presence and distributions across several genomes. find Nematostella vectensis, anthozoan Helitron-like sequences were similarly All these findings suggest derivatives prone to forming chromosomal extensions cnidarians through local amplification regions, driving variable expansions within clade.

Language: Английский

Citations

0
Advances in Bioinformatic Approaches to Tardigrade Phylogeny DOI
Ahmet Arıhan Erözden, Nalan Tavşanlı, Mahmut Çalışkan

et al.

Computational Biology and Chemistry, Journal Year: 2024, Volume and Issue: 113, P. 108226 - 108226

Published: Sept. 26, 2024

Language: Английский

Citations

1
Widespread HCD-tRNA derived SINEs in bivalves rely on multiple LINE partners and accumulate in genic regions DOI Creative Commons
Jacopo Martelossi, Mariangela Iannello, Fabrizio Ghiselli

et al.

Mobile DNA, Journal Year: 2024, Volume and Issue: 15(1)

Published: Oct. 16, 2024

Short interspersed nuclear elements (SINEs) are non-autonomous non-LTR retrotransposons widespread across eukaryotes. They exist both as lineage-specific, fast-evolving and ubiquitous superfamilies characterized by highly conserved domains (HCD). Several of these have been described in bivalves, however their overall distribution impact on host genome evolution still unknown due to the extreme scarcity transposon libraries for clade. In this study, we examined more than 40 bivalve genomes uncover HCD-tRNA-related SINEs, discover novel SINE-LINE partnerships, understand possible role shaping evolution.

Language: Английский

Citations

0