ArticleProceedings of the National Academy of Sciences of the United States of America2004
Genome-wide comparative analysis of the transposable elements in the related species Arabidopsis thaliana and Brassica oleracea.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 70 papers.
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70 citing papers in PubMed, 153 citations in OpenAlex.
- De novo whole transcriptome sequencing reveals differentially expressed messenger RNA and MicroRNA in hepatopancreas ofAnimal cells and systems · 2026Article
- Distinct patterns of genome size evolution in each bryophyte lineage are not correlated with whole genome duplication.Annals of botany · 2025Article
- Bioinformatic Annotation of Transposon DNA Processing Genes on the Long-Read Genome Assembly ofBioinformatics and biology insights · 2024Article
- Chromosome-level genome assembly of Murraya paniculata sheds light on biosynthesis of floral volatiles.BMC biology · 2023Article
- 2D morphometric analysis of Arabidopsis thaliana nuclei reveals characteristic profiles of different cell types and accessions.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2022Article
- Cantaloupe melon genome reveals 3D chromatin features and structural relationship with the ancestral cucurbitaceae karyotype.iScience · 2022Article
- The Dynamism of Transposon Methylation for Plant Development and Stress Adaptation.International journal of molecular sciences · 2021Review
- Detecting Genetic Mobility Using a Transposon-Based Marker System in Gamma-Ray Irradiated Soybean Mutants.Plants (Basel, Switzerland) · 2021Article
- Natural variation and evolutionary dynamics of transposable elements inHorticulture research · 2020Article
- Massive Loss of DNA Methylation in Nitrogen-, but Not in Phosphorus-DeficientFrontiers in plant science · 2018Article
- Elucidating the major hidden genomic components of the A, C, and AC genomes and their influence on Brassica evolution.Scientific reports · 2017Article
- Transcriptional activity of PIF and Pong-like Class II transposable elements in Triticeae.BMC evolutionary biology · 2017Article
- Satellite DNA and Transposable Elements in Seabuckthorn (Hippophae rhamnoides), a Dioecious Plant with Small Y and Large X Chromosomes.Genome biology and evolution · 2017Article
- LINE-1-like retrotransposons contribute to RNA-based gene duplication in dicots.Scientific reports · 2016Article
- Mobile small RNAs regulate genome-wide DNA methylation.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
- Widespread and evolutionary analysis of a MITE family Monkey King in Brassicaceae.BMC plant biology · 2015Article
- Article
- Genome-wide gene expression perturbation induced by loss of C2 chromosome in allotetraploid Brassica napus L.Frontiers in plant science · 2015Article
- The diversification and activity of hAT transposons in Musa genomes.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2014Article
- Genomic localization of AtRE1 and AtRE2, copia-type retrotransposons, in natural variants of Arabidopsis thaliana.Molecular genetics and genomics : MGG · 2014Article
10 more citing papers are in PubMed but not listed here.
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2 authors at 1 institution in 1 country.
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No grant is acknowledged in the PubMed record.
Abstract
Transposable elements (TEs) are the major component of plant genomes where they contribute significantly to the >1,000-fold genome size variation. To understand the dynamics of TE-mediated genome expansion, we have undertaken a comparative analysis of the TEs in two related organisms: the weed Arabidopsis thaliana (125 megabases) and Brassica oleracea ( approximately 600 megabases), a species with many crop plants. Comparison of the whole genome sequence of A. thaliana with a partial draft of B. oleracea has permitted an estimation of the patterns of TE amplification, diversification, and loss that has occurred in related species since their divergence from a common ancestor. Although we find that nearly all TE lineages are shared, the number of elements in each lineage is almost always greater in B. oleracea. Class 1 (retro) elements are the most abundant TE class in both species with LTR and non-LTR elements comprising the largest fraction of each genome. However, several families of class 2 (DNA) elements have amplified to very high copy number in B. oleracea where they have contributed significantly to genome expansion. Taken together, the results of this analysis indicate that amplification of both class 1 and class 2 TEs is responsible, in part, for B. oleracea genome expansion since divergence from a common ancestor with A. thaliana. In addition, the observation that B. oleracea and A. thaliana share virtually all TE lineages makes it unlikely that wholesale removal of TEs is responsible for the compact genome of A. thaliana.
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