ArticlePlant molecular biology2003
Retroelements, transposons and methylation status in the genome of oil palm (Elaeis guineensis) and the relationship to somaclonal variation.
Article in Plant molecular biology, 2003. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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Who cites it
28 citing papers in PubMed, 95 citations in OpenAlex.
- Chromosome-scale Elaeis guineensis and E. oleifera assemblies: comparative genomics of oil palm and other Arecaceae.G3 (Bethesda, Md.) · 2024Article
- Chromosome identification in oil palm (Elaeis guineensis) using in situ hybridization with massive pools of single copy oligonucleotides and transferability across Arecaceae species.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2021Article
- Nucleo-cytoplasmic interactions affect the 5' terminal transcription of mitochondrial genes between the isonuclear CMS line UG93A and its maintainer line UG93B of kenaf (Hibiscus cannabinus).Development genes and evolution · 2021Article
- Article
- Assessment of Epigenetic and Phenotypic Variation inFrontiers in plant science · 2021Article
- Dynamic Changes of DNA Methylation During Wild Strawberry (Frontiers in plant science · 2021Article
- PePIF1, a P-lineage of PIF-like transposable element identified in protocorm-like bodies of Phalaenopsis orchids.BMC genomics · 2019Article
- The DNA Methylome and Association of Differentially Methylated Regions with Differential Gene Expression during Heat Stress inInternational journal of molecular sciences · 2018Article
- Analysis of somaclonal variation in transgenic and regenerated plants of Arabidopsis thaliana using methylation related metAFLP and TMD markers.Plant cell reports · 2018Article
- DNA methylation changes and TE activity induced in tissue cultures of barley (Hordeum vulgare L.).Journal of biological research (Thessalonike, Greece) · 2016Article
- Genome-wide analysis of LTR-retrotransposons in oil palm.BMC genomics · 2015Article
- Loss of Karma transposon methylation underlies the mantled somaclonal variant of oil palm.Nature · 2015Article
- Diversity and relationships of Crocus sativus and its relatives analysed by inter-retroelement amplified polymorphism (IRAP).Annals of botany · 2015Article
- Methylome reorganization during in vitro dedifferentiation and regeneration of Populus trichocarpa.BMC plant biology · 2013Article
- Variations in genomic DNA methylation during the long-term in vitro proliferation of oil palm embryogenic suspension cultures.Plant cell reports · 2013Article
- Ethylene signaling in salt stress- and salicylic acid-induced programmed cell death in tomato suspension cells.Protoplasma · 2013Article
- Recent progress in the understanding of tissue culture-induced genome level changes in plants and potential applications.Plant cell reports · 2012Review
- Epigenetic imbalance and the floral developmental abnormality of the in vitro-regenerated oil palm Elaeis guineensis.Annals of botany · 2011Review
- Genetic and molecular analysis of a purple sheath somaclonal mutant in japonica rice.Plant cell reports · 2011Article
- Review
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Authors and funding
4 authors at 3 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We isolated and characterized different classes of transposable DNA elements in oil palm (Elaeis guineensis) plants grown from seed, and plants regenerated from tissue culture that show mantling, an abnormality leading to flower abortion. Using PCR assays, reverse transcriptase fragments belonging to LINE-like and gypsy-like retroelements and transposase fragments of En/Spm transposons were cloned. Sequence analysis revealed the presence of a major family of LINEs in oil palm, with other diverged copies. Gypsy-like retrotransposons form a single homologous group, whereas En/Spm transposons are present in several diverged families. Southern analysis revealed their presence in low (LINEs) to medium (gypsy and En/Spm) copy numbers in oil palm, and in situ hybridization showed a limited number of distinct loci for each class of transposable element. No differences in the genomic organization of the different classes of transposable DNA elements between ortet palm (parent) and regenerated palm trees with mantled phenotype were detected, but different levels of sequence methylation were observed. During tissue culture, McrBC digestion revealed the genome-wide reduction in DNA methylation, which was restored to near-normal levels in regenerated trees. HPLC analysis showed that methylation levels were slightly lower in the regenerated trees compared to the ortet parent. The genomic organization of the transposable DNA elements in different oil palm species, accessions and individual regenerated trees was investigated revealing only minor differences. The results suggest that the mantled phenotype is not caused by major rearrangements of transposable elements but may relate to changes in the methylation pattern of other genomic components.
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