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Title: | A Survey of Transposon Landscapes in the Putative Ancient Asexual Ostracod Darwinula stevensoni | Authors: | SCHON, Isa Rodriguez, Fernando Dunn, Matthew Shribak, Michael Arkhipova, Irina R. Martens, Koen |
Issue Date: | 2021 | Publisher: | MDPI | Source: | Genes, 12 (3) (Art N° 401) | Abstract: | How asexual reproduction shapes transposable element (TE) content and diversity in eukaryotic genomes remains debated. We performed an initial survey of TE load and diversity in the putative ancient asexual ostracod Darwinula stevensoni. We examined long contiguous stretches of DNA in clones from a genomic fosmid library, totaling about 2.5 Mb, and supplemented these data with results on TE abundance and diversity from an Illumina draft genome. In contrast to other TE studies in putatively ancient asexuals, which revealed relatively low TE content, we found that at least 19% of the fosmid dataset and 26% of the genome assembly corresponded to known transposons. We observed a high diversity of transposon families, including LINE, gypsy, PLE, mariner/Tc, hAT, CMC, Sola2, Ginger, Merlin, Harbinger, MITEs and helitrons, with the prevalence of DNA transposons. The predominantly low levels of sequence diversity indicate that many TEs are or have recently been active. In the fosmid data, no correlation was found between telomeric repeats and non-LTR retrotransposons, which are present near telomeres in other taxa. Most TEs in the fosmid data were located outside of introns and almost none were found in exons. We also report an N-terminal Myb/SANT-like DNA-binding domain in site-specific R4/Dong non-LTR retrotransposons. Although initial results on transposable loads need to be verified with high quality draft genomes, this study provides important first insights into TE dynamics in putative ancient asexual ostracods. | Notes: | Schon, I (corresponding author), Royal Belgian Inst Nat Sci, Freshwater Biol, OD Nat, Vautierstr 29, B-1000 Brussels, Belgium.; Schon, I (corresponding author), Univ Hasselt, Ctr Environm Sci CMK, B-3590 Diepenbeek, Belgium. ischoen@naturalsciences.be; frodriguez@mbl.edu; mjdunn@umass.edu; darwinula@gmail.com; mshribak@mbl.edu; iarkhipova@mbl.edu |
Other: | Schon, I (corresponding author), Royal Belgian Inst Nat Sci, Freshwater Biol, OD Nat, Vautierstr 29, B-1000 Brussels, Belgium ; Univ Hasselt, Ctr Environm Sci CMK, B-3590 Diepenbeek, Belgium. ischoen@naturalsciences.be; frodriguez@mbl.edu; mjdunn@umass.edu; darwinula@gmail.com; mshribak@mbl.edu; iarkhipova@mbl.edu | Keywords: | transposable elements;retrotransposons;DNA transposons;crustaceans;asexuality | Document URI: | http://hdl.handle.net/1942/34168 | e-ISSN: | 2073-4425 | DOI: | 10.3390/genes12030401 | ISI #: | WOS:000633660800001 | Rights: | 2021 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https:// creativecommons.org/licenses/by/ 4.0/). | Category: | A1 | Type: | Journal Contribution | Validations: | ecoom 2022 |
Appears in Collections: | Research publications |
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genes-12-00401-v2.pdf | Published version | 2.4 MB | Adobe PDF | View/Open |
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