Busca avançada
Ano de início
Entree
(Referência obtida automaticamente do Web of Science, por meio da informação sobre o financiamento pela FAPESP e o número do processo correspondente, incluída na publicação pelos autores.)

Virus-like attachment sites as structural landmarks of plants retrotransposons

Texto completo
Autor(es):
Ochoa Cruz, Edgar Andres ; Queiroga Cruz, Guilherme Marcello ; Vieira, Andreia Prata ; Van Sluys, Marie-Anne
Número total de Autores: 4
Tipo de documento: Artigo Científico
Fonte: MOBILE DNA; v. 7, JUL 28 2016.
Citações Web of Science: 0
Resumo

Background: The genomic data available nowadays has enabled the study of repetitive sequences and their relationship to viruses. Among them, long terminal repeat retrotransposons (LTR-RTs) are the largest component of most plant genomes, the Gypsy and Copia superfamilies being the most common. Recently it has been found that Del lineage, an LTR-RT of Gypsy superfamily, has putative virus-like attachment (vl-att) sites. This signature, originally described for retroviruses, is recognized by retroviral integrase conferring specificity to the integration process. Results: Here we retrieved 26,092 putative complete LTR-RTs from 10 lineages found in 10 fully sequenced angiosperm genomes and found putative vl-att sites that are a conserved structural landmark across these genomes. Furthermore, we reveal that each plant genome has a distinguishable LTR-RT lineage amplification pattern that could be related to the vl-att sites diversity. We used these patterns to generate a specific quick-response (QR) code for each genome that could be used as a barcode of identification of plants in the future. Conclusions: The universal distribution of vl-att sites represents a new structural feature common to plant LTR-RTs and retroviruses. This is an important finding that expands the information about the structural similarity between LTR-RT and retroviruses. We speculate that the sequence diversity of vl-att sites could be important for the life cycle of retrotransposons, as it was shown for retroviruses. All the structural vl-att site signatures are strong candidates for further functional studies. Moreover, this is the first identification of specific LTR-RT content and their amplification patterns in a large dataset of LTR-RT lineages and angiosperm genomes. These distribution patterns could be used in the future with biotechnological identification purposes. (AU)

Processo FAPESP: 12/21064-4 - Construindo uma plataforma de biologia sintética para a triagem funcional de sequências promotoras em plantas
Beneficiário:Edgar Andrés Ochoa Cruz
Linha de fomento: Bolsas no Brasil - Pós-Doutorado
Processo FAPESP: 08/58243-8 - Retrotransposons das famílias scMaximus, scAle e scDel: desvendando as interações com o genoma da cana-de-açúcar
Beneficiário:Guilherme Marcello Queiroga Cruz
Linha de fomento: Bolsas no Brasil - Doutorado Direto
Processo FAPESP: 12/02671-7 - Homólogos a At-thi1 em cana-de-açúcar: estudo molecular e funcional
Beneficiário:Andréia Prata Vieira
Linha de fomento: Bolsas no Brasil - Doutorado Direto
Processo FAPESP: 08/52074-0 - Sugarcane genome sequence: plant transposable elements are active contributors to gene structure variation, regulation and function
Beneficiário:Marie-Anne van Sluys
Linha de fomento: Auxílio à Pesquisa - Programa BIOEN - Temático