ArticleThe Plant journal : for cell and molecular biology2013
Genome-wide analysis of short interspersed nuclear elements SINES revealed high sequence conservation, gene association and retrotranspositional activity in wheat.
Article in The Plant journal : for cell and molecular biology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed, 58 citations in OpenAlex.
- Evolutionary Study of Transposable Elements: Structural Characterization and Phylogenomic Profiling in Plant Genomes.Journal of molecular evolution · 2026Review
- Dissection of Structural Reorganization of Wheat 5B Chromosome Associated With Interspecies Recombination Suppression.Frontiers in plant science · 2022Article
- Comparative phylogenetics of repetitive elements in a diverse order of flowering plants (Brassicales).G3 (Bethesda, Md.) · 2021Article
- Article
- Diversity of short interspersed nuclear elements (SINEs) in lepidopteran insects and evidence of horizontal SINE transfer between baculovirus and lepidopteran hosts.BMC genomics · 2021Article
- Gene and Transposable Element Expression Evolution Following Recent and Past Polyploidy Events inFrontiers in genetics · 2021Article
- Genome-wide analysis of short interspersed nuclear elements provides insight into gene and genome evolution in citrus.DNA research : an international journal for rapid publication of reports on genes and genomes · 2020Article
- Identification and characterization of large-scale genomic rearrangements during wheat evolution.PloS one · 2020Article
- Characterization and Dynamics of Repeatomes in Closely Related Species ofFrontiers in plant science · 2020Article
- Copy Number Variation of Transposable Elements inPlants (Basel, Switzerland) · 2019Article
- Genome-wide analysis of a recently active retrotransposon, Au SINE, in wheat: content, distribution within subgenomes and chromosomes, and gene associations.Plant cell reports · 2018Article
- Impact of transposable elements on polyploid plant genomes.Annals of botany · 2017Review
- Identification and characterisation of Short Interspersed Nuclear Elements in the olive tree (Olea europaea L.) genome.Molecular genetics and genomics : MGG · 2017Article
- Review
- Structure and extent of DNA methylation-based epigenetic variation in wild emmer wheat (T. turgidum ssp. dicoccoides) populations.BMC plant biology · 2015Article
- Polyploidy and novelty: Gottlieb's legacy.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2014Review
- BrassicaTED - a public database for utilization of miniature transposable elements in Brassica species.BMC research notes · 2014Article
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Short interspersed nuclear elements (SINEs) are non-autonomous non-LTR retroelements that are present in most eukaryotic species. While SINEs have been intensively investigated in humans and other animal systems, they are poorly studied in plants, especially in wheat (Triticum aestivum). We used quantitative PCR of various wheat species to determine the copy number of a wheat SINE family, termed Au SINE, combined with computer-assisted analyses of the publicly available 454 pyrosequencing database of T. aestivum. In addition, we utilized site-specific PCR on 57 Au SINE insertions, transposon methylation display and transposon display on newly formed wheat polyploids to assess retrotranspositional activity, epigenetic status and genetic rearrangements in Au SINE, respectively. We retrieved 3706 different insertions of Au SINE from the 454 pyrosequencing database of T. aestivum, and found that most of the elements are inserted in A/T-rich regions, while approximately 38% of the insertions are associated with transcribed regions, including known wheat genes. We observed typical retrotransposition of Au SINE in the second generation of a newly formed wheat allohexaploid, and massive hypermethylation in CCGG sites surrounding Au SINE in the third generation. Finally, we observed huge differences in the copy numbers in diploid Triticum and Aegilops species, and a significant increase in the copy numbers in natural wheat polyploids, but no significant increase in the copy number of Au SINE in the first four generations for two of three newly formed allopolyploid species used in this study. Our data indicate that SINEs may play a prominent role in the genomic evolution of wheat through stress-induced activation.
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