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Research: Phylogenetic relatedness rather than aquatic habitat fosters horizontal transfer of transposable elements in animals
- Héloïse Muller,
- Rosina Savisaar,
- Jean Peccoud,
- Sylvain Charlat,
- and Clément Gilbert
Genome Res. September 2025 35: 2011-2022; Published in Advance August 8, 2025, doi:10.1101/gr.280432.125
..., the median number of HTT appeared strongly negatively correlated with divergence time (weighted Pearson's r = –0.72) (Fig. 4A). These results suggest that the tendency to transfer more among closely related species may be widespread among animals.View larger version: In this window In a new window Figure 4...
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Research: Lake Malawi cichlid pangenome graph reveals extensive structural variation driven by transposable elements
- Fu Xiang Quah,
- Miguel Vasconcelos Almeida,
- Moritz Blumer,
- Chengwei Ulrika Yuan,
- Bettina Fischer,
- Kirsten See,
- Ben Jackson,
- Richard Zatha,
- Bosco Rusuwa,
- George F. Turner,
- M. Emília Santos,
- Hannes Svardal,
- Martin Hemberg,
- Richard Durbin,
- and Eric Miska
Genome Res. May 2025 35: 1094-1107; Published in Advance April 10, 2025, doi:10.1101/gr.279674.124
...in cichlids, the widespread occurrence of TE insertions in the Lake Malawi cichlid s, accounting for as high as 74.65% of SV sequences, might provide the evolutionary substrate to produce diverse phenotypes and contribute to cichlid ecological versatility (Ngoepe et al. 2023) through the selection...
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Method: Double insertion of transposable elements provides a substrate for the evolution of satellite DNA
- Michael P. McGurk and
- Daniel A. Barbash
Genome Res. May 2018 28: 714-725; Published in Advance March 27, 2018, doi:10.1101/gr.231472.117
...). Most other non-LTR retrotransposons also can be detected as tail-to-internal tandems in at least one strain, suggesting that transposition is a widespread process generating tandems among non-LTR retrotransposons (Fig. 4A,B,E).View larger version: In this window In a new window Figure 4. Junction...
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Resource: Transposable element variants and their potential adaptive impact in urban populations of the malaria vector Anopheles coluzzii
- Carlos Vargas-Chavez,
- Neil Michel Longo Pendy,
- Sandrine E. Nsango,
- Laura Aguilera,
- Diego Ayala,
- and Josefa González
Genome Res. January 2022 32: 189-202; Published in Advance December 29, 2021, doi:10.1101/gr.275761.121
...threatening vector control programs. The adaptation of An. coluzzii to urban environments partly results from an increased tolerance to organic pollution and insecticides. Some of the molecular mechanisms for ecological adaptation are known, but the role of transposable elements (TEs) in the adaptive...
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Research: Molecular dissection of a natural transposable element invasion
- Robert Kofler,
- Kirsten-André Senti,
- Viola Nolte,
- Ray Tobler,
- and Christian Schlötterer
Genome Res. June 2018 28: 824-835; Published in Advance April 30, 2018, doi:10.1101/gr.228627.117
...in their host.Transposable elements (TEs) are DNA sequences that selfishly multiply within s. TEs also frequently invade naïve species via horizontal transfer (Loreto et al. 2008; El Baidouri et al. 2014; Peccoud et al. 2017). Hosts have evolved a variety of defense mechanisms such as zinc-finger proteins...
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Resource: High-quality assembly of the Chinese white truffle genome and recalibrated divergence time estimate provide insight into the evolutionary dynamics of Tuberaceae
- Jacopo Martelossi,
- Jacopo Vujovic,
- Yue Huang,
- Alessia Tatti,
- Kaiwei Xu,
- Federico Puliga,
- Yuanxue Chen,
- Omar Rota Stabelli,
- Fabrizio Ghiselli,
- Xiaoping Zhang,
- and Alessandra Zambonelli
Genome Res. November 2025 35: 2601-2616; Published in Advance August 21, 2025, doi:10.1101/gr.280368.124
....zambonelli@unibo.itAbstractThe genus Tuber (family: Tuberaceae) includes the most economically valuable ectomycorrhizal (ECM), truffle-forming fungi. Previous genomic analyses revealed that massive transposable element (TE) proliferation represents a convergent genomic feature of ECM fungi, including Tuberaceae. Repetitive sequences...
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Research: Long-read genome assembly of the insect model organism Tribolium castaneum reveals spread of satellite DNA in gene-rich regions by recurrent burst events
- Marin Volarić,
- Evelin Despot-Slade,
- Damira Veseljak,
- Brankica Mravinac,
- and Nevenka Meštrović
Genome Res. November 2024 34: 1878-1894; Published in Advance October 22, 2024, doi:10.1101/gr.279225.124
...of satDNAs into longer arrays. Analyses of arrays’ neighboring regions show a tendency of one satDNA to be associated with transposable-like elements. Using 2D electrophoresis followed by Southern blotting, we prove Cast satDNAs’ presence in the fraction of extrachromosomal circular DNA (eccDNA). We...
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LETTER: Abundance, Distribution, and Transcriptional Activity of Repetitive Elements in the Maize Genome
- Blake C. Meyers,
- Scott V. Tingey,
- and Michele Morgante
Genome Res. October 1, 2001 11: 1660-1676; Published in Advance September 20, 2001, doi:10.1101/gr.188201
...are retroelements, mobile DNA elements that transpose via RNA intermediates using reverse transcriptase ( Bennetzen 2000 ). Retrovirus-like retrotransposons containing long terminal repeats (LTRs) have been found in many plant species, often at a very high abundance ( Flavell et al. 1992 ; Voytas et al. 1992 ; San...
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Research: Contiguous and complete assemblies of Blastocystis gut microbiome–associated protists reveal evolutionary diversification to host ecology
- Abigail L. Lind,
- Nathan A. McDonald,
- Elias R. Gerrick,
- Ami S. Bhatt,
- and Katherine S. Pollard
Genome Res. June 2025 35: 1377-1390; Published in Advance April 22, 2025, doi:10.1101/gr.279080.124
...gut and is widespread throughout vertebrates. Here, we present contiguous and complete s of eight Blastocystis strains, five isolated from humans and three from herbivorous tortoises. Long-read sequencing coupled with metagenomic assembly techniques enabled us to assemble three of these s from xenic...
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LETTER: V-SINEs: A New Superfamily of Vertebrate SINEs That Are Widespread in Vertebrate Genomes and Retain a Strongly Conserved Segment within Each Repetitive Unit
- Ikuo Ogiwara,
- Masaki Miya,
- Kazuhiko Ohshima,
- and Norihiro Okada
Genome Res. February 1, 2002 12: 316-324; doi:10.1101/gr.212302
...superfamily of vertebrate short interspersed repetitive elements (SINEs), designated V-SINEs, that are widespread in fishes and frogs. Each V-SINE includes a central conserved domain preceded by a 5′-end tRNA-related region and followed by a potentially recombinogenic (TG)n tract, with a 3′ tail derived from...

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