Long Terminal Repeat Retrotransposon Content in Eight Diploid Sunflower Species Inferred from Next-Generation Sequence Data

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dc.contributor.author Tetreault, Hannah M.
dc.contributor.author Ungerer, Mark C.
dc.date.accessioned 2017-02-14T23:08:40Z
dc.date.available 2017-02-14T23:08:40Z
dc.identifier.uri http://hdl.handle.net/2097/35141
dc.description Citation: Tetreault, H. M., & Ungerer, M. C. (2016). Long Terminal Repeat Retrotransposon Content in Eight Diploid Sunflower Species Inferred from Next-Generation Sequence Data. G3-Genes Genomes Genetics, 6(8), 2299-2308. doi:10.1534/g3.116.029082/-/DC1
dc.description.abstract The most abundant transposable elements (TEs) in plant genomes are Class I long terminal repeat (LTR) retrotransposons represented by superfamilies gypsy and copia. Amplification of these superfamilies directly impacts genome structure and contributes to differential patterns of genome size evolution among plant lineages. Utilizing short-read Illumina data and sequence information from a panel of Helianthus annuus (sunflower) full-length gypsy and copia elements, we explore the contribution of these sequences to genome size variation among eight diploid Helianthus species and an outgroup taxon, Phoebanthus tenuifolius. We also explore transcriptional dynamics of these elements in both leaf and bud tissue via RT-PCR. We demonstrate that most LTR retrotransposon sublineages (i.e., families) display patterns of similar genomic abundance across species. A small number of LTR retrotransposon sublineages exhibit lineage-specific amplification, particularly in the genomes of species with larger estimated nuclear DNA content. RT-PCR assays reveal that some LTR retrotransposon sublineages are transcriptionally active across all species and tissue types, whereas others display species-specific and tissue-specific expression. The species with the largest estimated genome size, H. agrestis, has experienced amplification of LTR retrotransposon sublineages, some of which have proliferated independently in other lineages in the Helianthus phylogeny.
dc.relation.uri https://doi.org/10.1534/g3.116.029082
dc.rights Attribution 4.0 International (CC BY 4.0)
dc.rights.uri https://creativecommons.org/licenses/by/4.0/
dc.subject Genome Size Evolution
dc.subject Helianthus
dc.subject Ltr Retrotransposons
dc.subject Helianthus
dc.subject Agrestis
dc.subject Transposable Elements
dc.title Long Terminal Repeat Retrotransposon Content in Eight Diploid Sunflower Species Inferred from Next-Generation Sequence Data
dc.type Article
dc.date.published 2016
dc.citation.doi 10.1534/g3.116.029082
dc.citation.epage 2308
dc.citation.issn 2160-1836
dc.citation.issue 8
dc.citation.jtitle G3-Genes Genomes Genetics
dc.citation.spage 2299
dc.citation.volume 6
dc.contributor.authoreid mcungere
dc.contributor.kstate Ungerer, Mark C.


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