msechBari, a new MITE-like element inDrosophila sechelliarelated to theBaritransposon

Dias, Elaine Silva; Carareto, Claudia M. A.

doi:10.1017/s0016672311000371

Cited by 8 publications

(16 citation statements)

References 49 publications

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“…Left vs Right terminal sequences similarity (column 7) refers to the DRs-containing sequences (roughly 250 bp). Symbols legend *: inferred from a reconstructed transposase gene §: a MITE nested insertion was removed #: element reconstructed from two different truncated elements £: sequence identified by BLASTn analysis $: sequence containing two DRs @: Described by Dias and Carareto [ 21 ]. ND (NA): none detected (not applicable).…”

Section: Resultsmentioning

confidence: 99%

“…Genome-scale comparison studies are an important tool for both understanding the forces that shaped modern forms of transposable elements, and highlight non-mendelian modes of transposons’ transmission [ 20 ]. Early investigations on Bari -like transposable elements at the genomic level [ 9 , 21 ] were essentially performed in 12 Drosophila sequenced genomes available at that time [ 22 , 23 ]. The availability of 11 additional Drosophila genome draft sequences [ 24 – 27 ] together with the availability of new assembly releases [ 28 ] and data from re-sequencing projects [ 29 ] prompted us to investigate the genomic distribution of the Bari transposon family in a wider pool of studied and unexplored genomes.…”

Section: Introductionmentioning

confidence: 99%

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Identification of Bari Transposons in 23 Sequenced Drosophila Genomes Reveals Novel Structural Variants, MITEs and Horizontal Transfer

et al. 2016

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Bari elements are members of the Tc1-mariner superfamily of DNA transposons, originally discovered in Drosophila melanogaster, and subsequently identified in silico in 11 sequenced Drosophila genomes and as experimentally isolated in four non-sequenced Drosophila species. Bari-like elements have been also studied for their mobility both in vivo and in vitro. We analyzed 23 Drosophila genomes and carried out a detailed characterization of the Bari elements identified, including those from the heterochromatic Bari1 cluster in D. melanogaster. We have annotated 401 copies of Bari elements classified either as putatively autonomous or inactive according to the structure of the terminal sequences and the presence of a complete transposase-coding region. Analyses of the integration sites revealed that Bari transposase prefers AT-rich sequences in which the TA target is cleaved and duplicated. Furthermore evaluation of transposon’s co-occurrence near the integration sites of Bari elements showed a non-random distribution of other transposable elements. We also unveil the existence of a putatively autonomous Bari1 variant characterized by two identical long Terminal Inverted Repeats, in D. rhopaloa. In addition, we detected MITEs related to Bari transposons in 9 species. Phylogenetic analyses based on transposase gene and the terminal sequences confirmed that Bari-like elements are distributed into three subfamilies. A few inconsistencies in Bari phylogenetic tree with respect to the Drosophila species tree could be explained by the occurrence of horizontal transfer events as also suggested by the results of dS analyses. This study further clarifies the Bari transposon’s evolutionary dynamics and increases our understanding on the Tc1-mariner elements’ biology.

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Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Identification of Bari Transposons in 23 Sequenced Drosophila Genomes Reveals Novel Structural Variants, MITEs and Horizontal Transfer

et al. 2016

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“…From there, some other TE families were described to have associated MITEs: hobo from hAT superfamily (Ortiz and Loreto 2008) Bari from Tc1-Mariner superfamily (Dias and Carareto 2011) and BuT5 from P superfamily (Rius et al 2013). Here we show BuT2 also has associated MITE sequences.…”

Section: Discussionmentioning

confidence: 99%

BuT2 Is a Member of the Third Major Group of hAT Transposons and Is Involved in Horizontal Transfer Events in the Genus Drosophila

Rossato

Ludwig

Deprá

et al. 2014

Genome Biology and Evolution

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The hAT superfamily comprises a large and diverse array of DNA transposons found in all supergroups of eukaryotes. Here we characterized the Drosophila buzzatii BuT2 element and found that it harbors a five-exon gene encoding a 643-aa putatively functional transposase. A phylogeny built with 85 hAT transposases yielded, in addition to the two major groups already described, Ac and Buster, a third one comprising 20 sequences that includes BuT2, Tip100, hAT-4_BM, and RP-hAT1. This third group is here named Tip. In addition, we studied the phylogenetic distribution and evolution of BuT2 by in silico searches and molecular approaches. Our data revealed BuT2 was, most often, vertically transmitted during the evolution of genus Drosophila being lost independently in several species. Nevertheless, we propose the occurrence of three horizontal transfer events to explain its distribution and conservation among species. Another aspect of BuT2 evolution and life cycle is the presence of short related sequences, which contain similar 5′ and 3′ regions, including the terminal inverted repeats. These sequences that can be considered as miniature inverted repeat transposable elements probably originated by internal deletion of complete copies and show evidences of recent mobilization.

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“…Recent studies have provided direct evidence to support this hypothesis by either in vitro biochemical approaches or in vivo (Dufresne et al ., ; Yang et al ., ). Nevertheless, only a few reports focusing on Diptera (such as mosquitoes and Drosophila ) have depicted these similar phenomena in insects (Tu, , ; Feschotte & Mouches, ; Quesneville et al ., ; Dias & Carareto, ; Deprá et al ., ).…”

Section: Introductionmentioning

confidence: 99%

A novel hAT element in Bombyx mori and Rhodnius prolixus: its relationship with miniature inverted repeat transposable elements (MITEs) and horizontal transfer

et al. 2013

Insect Molecular Biology

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Comparative analysis of transposable elements (TEs) from different species can make it possible to reconstruct their history over evolutionary time. In this study, we identified a novel hAT element in Bombyx mori and Rhodnius prolixus with characteristic GGGCGGCA repeats in its subterminal region. Meanwhile, phylogenetic analysis demonstrated that the elements in these two species might represent a separate cluster of the hAT superfamily. Strikingly, a previously identified miniature inverted repeat transposable element (MITE) shared high identity with this autonomous element across the entire length, supporting the hypothesis that MITEs are derived from the internal deletion of DNA transposons. Interestingly, identity of the consensus sequences of this novel hAT element between B. mori and R. prolixus, which diverged about 370 million years ago, was as high as 96.5% over their full length (about 3.6 kb) at the nucleotide level. The patchy distribution amongst species, coupled with overall lack of intense purifying selection acting on this element, suggest that this novel hAT element might have experienced horizontal transfer between the ancestors of B. mori and R. prolixus. Our results highlight that this novel hAT element could be used as a potential tool for germline transformation of R. prolixus to control the transmission of Trypanosoma cruzi, which causes Chagas disease.

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msechBari, a new MITE-like element inDrosophila sechelliarelated to theBaritransposon

Cited by 8 publications

References 49 publications

Identification of Bari Transposons in 23 Sequenced Drosophila Genomes Reveals Novel Structural Variants, MITEs and Horizontal Transfer

Identification of Bari Transposons in 23 Sequenced Drosophila Genomes Reveals Novel Structural Variants, MITEs and Horizontal Transfer

BuT2 Is a Member of the Third Major Group of hAT Transposons and Is Involved in Horizontal Transfer Events in the Genus Drosophila

A novel hAT element in Bombyx mori and Rhodnius prolixus: its relationship with miniature inverted repeat transposable elements (MITEs) and horizontal transfer

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