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Diversity of transposable elements and repeats in a 600 kb region of the fly Calliphora vicina

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dc.contributor.author Negre de Bofarull, Bárbara
dc.contributor.author Simpson, Pat
dc.date.accessioned 2015-04-01T07:06:33Z
dc.date.available 2015-04-01T07:06:33Z
dc.date.issued 2013
dc.identifier.citation Negre B, Simpson P. Diversity of transposable elements and repeats in a 600 kb region of the fly Calliphora vicina. Mobille DNA. 2013; 4: 13. DOI 10.1186/1759-8753-4-13
dc.identifier.issn 1759-8753
dc.identifier.uri http://hdl.handle.net/10230/23322
dc.description.abstract Background: Transposable elements (TEs) are a very dynamic component of eukaryotic genomes with important implications (e.g., in evolution) and applications (e.g., as transgenic tools). They also represent a major challenge for the assembly and annotation of genomic sequences. However, they are still largely unknown in non-model species. Results: Here, we have annotated the repeats and transposable elements present in a 600 kb genomic region of the blowfly Calliphora vicina (Diptera: Calliphoridae) which contains most of the achaete-scute gene complex of this species. This is the largest genomic region to be sequenced and analyzed in higher flies outside the Drosophila genus. We find that the repeat content spans at least 24% of the sequence. It includes 318 insertions classified as 3 LTR retrotransposons, 21 LINEs, 14 cut-and-paste DNA transposons, 4 helitrons and 33 unclassified repeats. Conclusions: This is the most detailed description of TEs and repeats in the Calliphoridae to date. This contribution not only adds to our knowledge about TE evolution but will also help in the annotation of repeats on Dipteran whole genome sequences.
dc.description.sponsorship This work was supported by the Wellcome Trust grant 29156
dc.format.mimetype application/pdf
dc.language.iso eng
dc.publisher BioMed Central
dc.relation.ispartof Mobille DNA. 2013; 4: 13
dc.rights © 2013 Negre and Simpson; licensee BioMed Central Ltd.
dc.rights.uri http://creativecommons.org/licenses/by/2.0
dc.subject.other Genètica evolutiva
dc.title Diversity of transposable elements and repeats in a 600 kb region of the fly Calliphora vicina
dc.type info:eu-repo/semantics/article
dc.identifier.doi http://dx.doi.org/10.1186/1759-8753-4-13
dc.subject.keyword Calliphora vicina
dc.subject.keyword Diptera
dc.subject.keyword Helitrons
dc.subject.keyword Horizontal transfer
dc.subject.keyword Repeats
dc.subject.keyword Retrotransposons
dc.subject.keyword Transposable elements
dc.subject.keyword Transposons
dc.rights.accessRights info:eu-repo/semantics/openAccess
dc.type.version info:eu-repo/semantics/publishedVersion

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