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(Reference retrieved automatically from Web of Science through information on FAPESP grant and its corresponding number as mentioned in the publication by the authors.)

Virus-Like Attachment Sites and Plastic CpG Islands: Landmarks of Diversity in Plant Del Retrotransposons

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Cruz, Guilherme M. Q. [1] ; Metcalfe, Cushla J. [1] ; de Setta, Nathalia [2] ; Cruz, Edgar A. O. [1] ; Vieira, Andreia Prata [1] ; Medina, Rosario [1] ; Van Sluys, Marie-Anne [1]
Total Authors: 7
[1] Univ Sao Paulo, IB, Dept Bot, BR-09500900 Sao Paulo - Brazil
[2] Univ Fed ABC UFABC, Sao Paulo - Brazil
Total Affiliations: 2
Document type: Journal article
Source: PLoS One; v. 9, n. 5 MAY 21 2014.
Web of Science Citations: 2

Full-length Del elements from ten angiosperm genomes, 5 monocot and 5 dicot, were retrieved and putative attachment (att) sites were identified. In the 2432 Del elements, two types of U5 att sites and a single conserved type of U3 att site were identified. Retroviral att sites confer specificity to the integration process, different att sites types therefore implies lineage specificity. While some features are common to all Del elements, CpG island patterns within the LTRs were particular to lineage specific clusters. All eudicot copies grouped into one single clade while the monocots harbour a more diverse collection of elements. Furthermore, full-length Del elements and truncated copies were unevenly distributed amongst chromosomes. Elements of Del lineage are organized in plants into three clusters and each cluster is composed of elements with distinct LTR features. Our results suggest that the Del lineage efficiently amplified in the monocots and that one branch is probably a newly emerging sub-lineage. Finally, sequences in all groups are under purifying selection. These results show the LTR region is dynamic and important in the evolution of LTR-retrotransposons, we speculate that it is a trigger for retrotransposon diversification. (AU)

FAPESP's process: 12/02671-7 - At-thi1 homologs in sugarcane: a molecular and functional study
Grantee:Andréia Prata Vieira
Support type: Scholarships in Brazil - Doctorate (Direct)
FAPESP's process: 08/52074-0 - Sugarcane genome sequence: plant transposable elements are active contributors to gene structure variation, regulation and function
Grantee:Marie-Anne van Sluys
Support type: Program for Research on Bioenergy (BIOEN) - Thematic Grants