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, Bárbaraca
• dc.contributor.author Simpson, Patca
• dc.date.accessioned 2015-04-01T07:06:33Z
• dc.date.available 2015-04-01T07:06:33Z
• dc.date.issued 2013ca
• 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.en
• dc.description.sponsorship This work was supported by the Wellcome Trust grant 29156en
• dc.format.mimetype application/pdfca
• 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 10.1186/1759-8753-4-13ca
• dc.identifier.doi http://dx.doi.org/10.1186/1759-8753-4-13
• dc.identifier.issn 1759-8753ca
• dc.identifier.uri http://hdl.handle.net/10230/23322
• dc.language.iso engca
• dc.publisher BioMed Centralca
• dc.relation.ispartof Mobille DNA. 2013; 4: 13
• dc.rights © 2013 Negre and Simpson; licensee BioMed Central Ltd.ca
• dc.rights.accessRights info:eu-repo/semantics/openAccessca
• dc.rights.uri http://creativecommons.org/licenses/by/2.0
• dc.subject.keyword Calliphora vicinaen
• dc.subject.keyword Dipteraen
• dc.subject.keyword Helitronsen
• dc.subject.keyword Horizontal transferen
• dc.subject.keyword Repeatsen
• dc.subject.keyword Retrotransposonsen
• dc.subject.keyword Transposable elementsen
• dc.subject.keyword Transposonsen
• dc.subject.other Genètica evolutivaca
• dc.title Diversity of transposable elements and repeats in a 600 kb region of the fly Calliphora vicinaen
• dc.type info:eu-repo/semantics/articleca
• dc.type.version info:eu-repo/semantics/publishedVersionca