Revising the selfish DNA hypothesis: new evidence on accumulation of transposable elements in heterochromatin

Dimitri, Patrizio; Junakovic, Nikolaj

doi:10.1016/s0168-9525(99)01711-4

Cited by 122 publications

(91 citation statements)

References 24 publications

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“…The chromosomal distribution of the young copies in D. yakuba are found in both the euchromatin and the heterochromatin, while older copies, in both species, are found predominantly in the heterochromatin. Our results therefore exclude the possibility that the biased distribution of TEs in the DMG is due to targeted insertion of TEs into the pericentromeric heterochromatin, as was suggested by Dimitri and Junakovic (1999). Our result is consistent with the view that TEs persist in the genome due to a balance between natural selection against their deleterious effect on host fitness and their ability to replicate by transposition (Charlesworth and Langley 1989).…”

Section: Resultssupporting

confidence: 91%

“…However, the mechanism causing the observed TE distribution pattern is not yet known conclusively. Two alternative hypotheses can explain this pattern: (1) biased insertion of TEs into heterochromatic regions (Dimitri and Junakovic 1999) or (2) lack of recombination in the heterochromatic regions slowing down the process of eliminating deleterious TEs. Previous studies (Charlesworth et al 1994;Biemont et al 1997;Bartolome et al 2002;Lerat et al 2003) based on multiple families of TEs that have a relatively low copy number (10-100 copies/genome) have limited resolution in distinguishing these two hypotheses due to the fact that different TEs may have invaded into the host genome at different times and have experienced different evolutionary dynamics.…”

Section: Resultsmentioning

confidence: 99%

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Genomewide Comparative Analysis of the Highly Abundant Transposable Element DINE-1 Suggests a Recent Transpositional Burst in Drosophila yakuba

Yang¹,

Hung²,

You³

et al. 2006

Genetics

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DINE-1 (Drosophila interspersed element) is the most abundant repetitive sequence in the Drosophila genome derived from transposable elements. It comprises .1% of the Drosophila melanogaster genome (DMG) and is believed to be a relic from an ancient transpositional burst that occurred 5-10 MYA. We performed a genomewide comparison of the abundance, sequence variation, and chromosomal distribution of DINE-1 in D. melanogaster and D. yakuba. Unlike the highly diverged copies in the DMG (pairwise distance 15%), DINE-1's in the Drosophila yakuba genome (DYG) have diverged by only 3.4%. Moreover, the chromosomal distribution of DINE-1 in the two species is very different, with a significant number of euchromatic insertions found only in D. yakuba. We propose that these different patterns are caused by a second transpositional burst of DINE-1's in the D. yakuba genome 1.5 MYA. On the basis of the sequence of these recently transposed copies, we conclude that DINE-1 is likely to be a family of nonautomomous DNA transposons. Analysis of the chromosomal distribution of two age groups of DINE-1's in D. yakuba indicates that (1) there is a negative correlation between recombination rates and the density of DINE-1's and (2) younger copies are more evenly distributed in the chromosome arms, while older copies are mostly located near the centromere regions. Our results fit the predictions of a selection-transposition balance model. Our data on whole-genome comparison of a highly abundant TE among Drosophila sibling species demonstrate the unexpectedly dynamic nature of TE activity in different host genomes.

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Section: Resultssupporting

confidence: 91%

Section: Resultsmentioning

confidence: 99%

Genomewide Comparative Analysis of the Highly Abundant Transposable Element DINE-1 Suggests a Recent Transpositional Burst in Drosophila yakuba

Yang¹,

Hung²,

You³

et al. 2006

Genetics

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“…These authors describe this phenomenon as dosedependent and as a potentially critical factor for anomalies, which would be relevant in speciation processes. Heterochromatin may also harbor transposable elements (Dimitri & Junakovic, 1999) and meiotic mobility factors (Lyttle, 1993) that could potentially play a significant role in speciation, by reducing the meiotic ability in hybrids and acting as a fertility barrier (Shaw, 1994;Dimitri & Junakovic, 1999). Redi (2001) also suggests that heterochromatin would be involved in speciation.…”

Section: Discussionmentioning

confidence: 99%

Pleistocene karyotypic divergence in Hoplias malabaricus (Bloch, 1794) (Teleostei: Erythrinidae) populations in southeastern Brazil

2011

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The lacustrine system of the middle rio Doce basin is considered a paradigm of Pleistocene geomorphology. In these lakes, two Hoplias malabaricus karyomorphs (2n = 42A and 2n = 42B) live in sintopy in Carioca Lake. Cytogenetic analyses were performed on 65 specimens from 8 lakes (including Carioca Lake) to determine the distribution and relative frequency of these karyomorphs and the degree of cytogenetic divergence caused putatively by recent geographic isolation. All fish were 2n = 42B karyomorphs, except for 1 specimen from the Marola Lake, which was 2n = 42A. Among-population variation was especially high for C-banding patterns. Other characters such as X chromosome size and CMA 3 /DAPI also varied among populations. Our results suggested that the karyotype of H. malabaricus is able to respond rapidly to geographic isolation, and revealed that heterochromatic variation may represent the lowest hierarchical level of chromosomal evolution.O sistema lacustre da bacia do médio rio Doce é considerado um paradigma da geomorfologia do Pleistoceno. Nestes lagos, dois cariomorfos de Hoplias malabaricus (2n = 42A e 2n = 42B) vivem em sintopia na lagoa Carioca. Análises citogenéticas foram realizadas em 65 amostras de 8 lagos (incluindo lagoa Carioca) para determinar a distribuição e frequência relativa destes cariomorfos e o grau de divergência citogenética aparentemente causada pelo isolamento geográfico recente. Todos os peixes apresentaram o cariomorfo 2n = 42B, com exceção de 1 espécime da lagoa Marola, que foi 2n = 42A. Entre as populações, a variação foi especialmente elevada nos padrões de bandamento C. Outros caracteres como o tamanho do cromossomo X e os padrões de CMA 3 /DAPI também variaram entre as populações. Nossos resultados sugerem que o genoma de H. malabaricus é capaz de responder rapidamente ao isolamento geográfico, revelando que a variação de heterocromatina pode representar o nível hierárquico mais baixo de evolução cromossômica.

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“…In theory, this distribution can be partially explained by increased survival in heterochromatic, compared with euchromatic, genomic locations, as a direct consequence of the differing density of genes in the two types of chromatin. However, experiments in D. melanogaster have provided no support for the hypothesis that the primary reason for accumulation of TEs in heterochromatin is selection against TEs inserted into euchromatin, either directly at insertion sites or indirectly through ectopic recombination (Dimitri and Junakovic 1999). In contrast, there is evidence for specific targeting of some heterochromatic regions.…”

Section: Nonrandom Distributions and Genome Partitioningmentioning

confidence: 98%

Perspective: Transposable Elements, Parasitic Dna, and Genome Evolution

2001

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Abstract. The nature of the role played by mobile elements in host genome evolution is reassessed considering numerous recent developments in many areas of biology. It is argued that easy popular appellations such as ''selfish DNA'' and ''junk DNA'' may be either inaccurate or misleading and that a more enlightened view of the transposable element-host relationship encompasses a continuum from extreme parasitism to mutualism. Transposable elements are potent, broad spectrum, endogenous mutators that are subject to the influence of chance as well as selection at several levels of biological organization. Of particular interest are transposable element traits that early evolve neutrally at the host level but at a later stage of evolution are co-opted for new host functions.

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Revising the selfish DNA hypothesis: new evidence on accumulation of transposable elements in heterochromatin

Cited by 122 publications

References 24 publications

Genomewide Comparative Analysis of the Highly Abundant Transposable Element DINE-1 Suggests a Recent Transpositional Burst in Drosophila yakuba

Genomewide Comparative Analysis of the Highly Abundant Transposable Element DINE-1 Suggests a Recent Transpositional Burst in Drosophila yakuba

Pleistocene karyotypic divergence in Hoplias malabaricus (Bloch, 1794) (Teleostei: Erythrinidae) populations in southeastern Brazil

Perspective: Transposable Elements, Parasitic Dna, and Genome Evolution

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