HTT-DB: new features and updates

Dotto, Bruno Reis; Carvalho, Evelise Leis; Silva, Alexandre Freitas da; Dezordi, Filipe Zimmer; Pinto, Paulo Marcos; Campos, Túlio de Lima; Rezende, Antônio Mauro; Wallau, Gabriel Luz

doi:10.1093/database/bax102

Cited by 16 publications

(10 citation statements)

References 19 publications

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“…aegypti and even for those species there is no TE data accessible and/or standardized to allow more in-depth comparative analysis [ 30 ]. Therefore, there is little research regarding the inheritance mechanism of TEs among mosquitoes and only four well-documented horizontal transfer cases have been reported so far [ 31 ].…”

Section: Introductionmentioning

confidence: 99%

Mosquito genomes are frequently invaded by transposable elements through horizontal transfer

Melo

Wallau

2020

PLoS Genet

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Transposable elements (TEs) are mobile genetic elements that parasitize basically all eukaryotic species genomes. Due to their complexity, an in-depth TE characterization is only available for a handful of model organisms. In the present study, we performed a de novo and homology-based characterization of TEs in the genomes of 24 mosquito species and investigated their mode of inheritance. More than 40% of the genome of Aedes aegypti, Aedes albopictus, and Culex quinquefasciatus is composed of TEs, varying substantially among Anopheles species (0.13%–19.55%). Class I TEs are the most abundant among mosquitoes and at least 24 TE superfamilies were found. Interestingly, TEs have been extensively exchanged by horizontal transfer (172 TE families of 16 different superfamilies) among mosquitoes in the last 30 million years. Horizontally transferred TEs represents around 7% of the genome in Aedes species and a small fraction in Anopheles genomes. Most of these horizontally transferred TEs are from the three ubiquitous LTR superfamilies: Gypsy, Bel-Pao and Copia. Searching more than 32,000 genomes, we also uncovered transfers between mosquitoes and two different Phyla—Cnidaria and Nematoda—and two subphyla—Chelicerata and Crustacea, identifying a vector, the worm Wuchereria bancrofti, that enabled the horizontal spread of a Tc1-mariner element among various Anopheles species. These data also allowed us to reconstruct the horizontal transfer network of this TE involving more than 40 species. In summary, our results suggest that TEs are frequently exchanged by horizontal transfers among mosquitoes, influencing mosquito's genome size and variability.

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Section: Introductionmentioning

confidence: 99%

Mosquito genomes are frequently invaded by transposable elements through horizontal transfer

Melo

Wallau

2020

PLoS Genet

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“…This adds to the few cases of HTT documented for Hymenoptera (Dotto et al. 2015, 2018). Our study shows that profiling germline expression may be a potential approach for identifying active TEs.…”

Section: Discussionmentioning

confidence: 74%

Rapid Expansion of a Highly Germline-ExpressedMarinerElement Acquired by Horizontal Transfer in the Fire Ant Genome

Lee

Wang

2018

Genome Biology and Evolution

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Transposable elements (TEs) are present in almost all organisms and affect the host in various ways. TE activity can increase genomic variation and thereby affect host evolution. Currently active TEs are particularly interesting because they are likely generating new genomic diversity. These active TEs have been poorly studied outside of model organisms. In this study, we aimed to identify currently active TEs of a notorious invasive species, the red imported fire ant Solenopsis invicta. Using RNA profiling of male and female germline tissues, we found that the majority of TE-containing transcripts in the fire ant germline belong to the IS630-Tc1-Mariner superfamily. Subsequent genomic characterization of fire ant mariner content, molecular evolution analysis, and population comparisons revealed a highly expressed and highly polymorphic mariner element that is rapidly expanding in the fire ant genome. Additionally, using comparative genomics of multiple insect species we showed that this mariner has undergone several recent horizontal transfer events (<5.1 My). Our results document a rare case of a currently active TE originating from horizontal transfer.

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“…In the Horizontal Transposon Transfer DataBase (http://lpa.saogabriel.unipampa. edu.br:8080/httdatabase/), great attention is paid to horizontal transfer in eukaryotes (Dotto et al, 2018).…”

Section: Horizontal Transfer Of Transposable Elements In Evolutionmentioning

confidence: 99%

The role of transposable elements in the ecological morphogenesis under the influence of stress

Мустафин

Khusnutdinova

2019

Vestn. VOGiS

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In natural selection, insertional mutagenesis is an important source of genome variability. Transposons are sensors of environmental stress effects, which contribute to adaptation and speciation. These effects are due to changes in the mechanisms of morphogenesis, since transposons contain regulatory sequences that have cis and trans effects on specific protein-coding genes. In variability of genomes, the horizontal transfer of transposons plays an important role, because it contributes to changing the composition of transposons and the acquisition of new properties. Transposons are capable of site-specific transpositions, which lead to the activation of stress response genes. Transposons are sources of non-coding RNA, transcription factors binding sites and protein-coding genes due to domestication, exonization, and duplication. These genes contain nucleotide sequences that interact with non-coding RNAs processed from transposons transcripts, and therefore they are under the control of epigenetic regulatory networks involving transposons. Therefore, inherited features of the location and composition of transposons, along with a change in the phenotype, play an important role in the characteristics of responding to a variety of environmental stressors. This is the basis for the selection and survival of organisms with a specific composition and arrangement of transposons that contribute to adaptation under certain environmental conditions. In evolution, the capability to transpose into specific genome sites, regulate gene expression, and interact with transcription factors, along with the ability to respond to stressors, is the basis for rapid variability and speciation by altering the regulation of ontogenesis. The review presents evidence of tissue-specific and stage-specific features of transposon activation and their role in the regulation of cell differentiation to confirm their role in ecological morphogenesis.

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HTT-DB: new features and updates

Cited by 16 publications

References 19 publications

Mosquito genomes are frequently invaded by transposable elements through horizontal transfer

Mosquito genomes are frequently invaded by transposable elements through horizontal transfer

Rapid Expansion of a Highly Germline-ExpressedMarinerElement Acquired by Horizontal Transfer in the Fire Ant Genome

The role of transposable elements in the ecological morphogenesis under the influence of stress

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