ArticleProceedings of the National Academy of Sciences of the United States of America2002
Remarkable compartmentalization of transposable elements and pseudogenes in the heterochromatin of the Tetraodon nigroviridis genome.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2002. 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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28 citing papers in PubMed, 75 citations in OpenAlex.
- Review
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- Nucleotide composition of transposable elements likely contributes to AT/GC compositional homogeneity of teleost fish genomes.Mobile DNA · 2019Article
- Rex Retroelements and Teleost Genomes: An Overview.International journal of molecular sciences · 2018Review
- Chromosome mapping of a Tc1-like transposon in species of the catfishComparative cytogenetics · 2017Article
- Local hopping mobile DNA implicated in pseudogene formation and reductive evolution in an obligate cyanobacteria-plant symbiosis.BMC genomics · 2015Article
- Comparative analysis of transposable elements highlights mobilome diversity and evolution in vertebrates.Genome biology and evolution · 2015Article
- First insights on the retroelement Rex1 in the cytogenetics of frogs.Molecular cytogenetics · 2015Article
- Transposable elements as stress adaptive capacitors induce genomic instability in fungal pathogen Magnaporthe oryzae.PloS one · 2014Article
- Chromosome mapping of retrotransposable elementsMobile genetic elements · 2013Article
- Chromosomal location of retrotransposable REX 1 in the genomes in fiveMobile genetic elements · 2013Article
- Genome differentiation in a species pair of coregonine fishes: an extremely rapid speciation driven by stress-activated retrotransposons mediating extensive ribosomal DNA multiplications.BMC evolutionary biology · 2013Article
- Something silent this way forms: the functional organization of the repressive nuclear compartment.Annual review of cell and developmental biology · 2013Review
- Repetitive sequences associated with differentiation of W chromosome in Semaprochilodus taeniurus.Genetica · 2012Article
- Transposable elements as a potential source for understanding the fish genome.Mobile genetic elements · 2011Article
- A new dispersed element in the genome of the catfish Hisonotus leucofrenatus (Teleostei: Siluriformes: Hypoptopomatinae).Mobile genetic elements · 2011Article
- Chromosomal study of a lamprey (Lampetra zanandreai Vladykov, 1955) (Petromyzonida: Petromyzontiformes): conventional and FISH analysis.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2011Article
- Chromosome spreading of associated transposable elements and ribosomal DNA in the fish Erythrinus erythrinus. Implications for genome change and karyoevolution in fish.BMC evolutionary biology · 2010Article
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Authors and funding
7 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Tetraodon nigroviridis is among the smallest known vertebrate genomes and as such represents an interesting model for studying genome architecture and evolution. Previous studies have shown that Tetraodon contains several types of tandem and dispersed repeats, but that their overall contribution is >10% of the genome. Using genomic library hybridization, fluorescent in situ hybridization, and whole genome shotgun and directed sequencing, we have investigated the global and local organization of repeat sequences in Tetraodon. We show that both tandem and dispersed repeat elements are compartmentalized in specific regions that correspond to the short arms of small subtelocentric chromosomes. The concentration of repeats in these heterochromatic regions is in sharp contrast to their paucity in euchromatin. In addition, we have identified a number of pseudogenes that have arisen through either duplication of genes or the retro-transcription of mRNAs. These pseudogenes are amplified to high numbers, some with more than 200 copies, and remain almost exclusively located in the same heterochromatic regions as transposable elements. The sequencing of one such heterochromatic region reveals a complex pattern of duplications and inversions, reminiscent of active and frequent rearrangements that can result in the truncation and hence inactivation of transposable elements. This tight compartmentalization of repeats and pseudogenes is absent in large vertebrate genomes such as mammals and is reminiscent of genomes that remain compact during evolution such as Drosophila and Arabidopsis.
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