Dispersion of transposable elements and multigene families: Microstructural variation in Characidium (Characiformes: Crenuchidae) genomes

Pucci, Marcela Baer; Nogaroto, Viviane; Moreira‐Filho, Orlando; Vicari, Marcelo Ricardo

doi:10.1590/1678-4685-gmb-2017-0121

Cited by 21 publications

(11 citation statements)

References 46 publications

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“…Some studies have suggested that the H3 sequences may be dispersed throughout genomes by ectopic recombination, invasion of transposable elements (TE), and/or circular DNA [ 30 , 31 ]. In fishes, Pucci et al [ 64 ] demonstrated that parts of TE may be found in the intergenic regions of histone sequences, and suggested that such elements could help disperse copies of histone genes throughout a genome. Thus, it is likely that the dispersion of histone H3 in the studied species may be associated with TE insertions and/or genetic hitchhiking.…”

Section: Discussionmentioning

confidence: 99%

Physical mapping of repetitive DNA suggests 2n reduction in Amazon turtles Podocnemis (Testudines: Podocnemididae)

Cavalcante¹,

Bastos²,

Nagamachi³

et al. 2018

PLoS ONE

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Cytogenetic studies show that there is great karyotypic diversity in order Testudines (2n = 26–68), and that this may be mainly attributed to the presence/absence of microchromosomes. Members of the Podocnemididae family have the smallest diploid numbers of this order (2n = 26–28), which may be a derived condition of the group. Diverse studies suggest that repetitive-DNA-rich sites generally act as hotspots for double-strand breaks and chromosomal reorganization. In this context, we used fluorescent in situ hybridization (FISH) to map telomeric sequences (TTAGGG)n, 45S rDNA, and the genes encoding histones H1 and H3 in two species of genus Podocnemis. We also observed conservation of the 45S rDNA and H1 histone sequences (probable case of conserved synteny), but multiple conserved and non-conserved clusters of H3 genes, which colocalized with the interstitial telomeric sequences in the Podocnemis genome. Our results suggest that fusions have occurred between macro and microchromosomes or between microchromosomes, leading to the observed reduction in diploid number in the family Podocnemididae.

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Section: Discussionmentioning

confidence: 99%

Physical mapping of repetitive DNA suggests 2n reduction in Amazon turtles Podocnemis (Testudines: Podocnemididae)

Cavalcante¹,

Bastos²,

Nagamachi³

et al. 2018

PLoS ONE

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“…Eukaryotic genomes contain a high diversity of repetitive DNA sequences [1,2]. The amplification/ deletion of these sequences contributed significantly to the extraordinary variation in genome size found between taxa [3][4][5][6][7]).…”

Section: Introductionmentioning

confidence: 99%

Conversion of DNA Sequences: From a Transposable Element to a Tandem Repeat or to a Gene

Paço

Freitas

Vieira-da-Silva

2019

Genes

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Eukaryotic genomes are rich in repetitive DNA sequences grouped in two classes regarding their genomic organization: tandem repeats and dispersed repeats. In tandem repeats, copies of a short DNA sequence are positioned one after another within the genome, while in dispersed repeats, these copies are randomly distributed. In this review we provide evidence that both tandem and dispersed repeats can have a similar organization, which leads us to suggest an update to their classification based on the sequence features, concretely regarding the presence or absence of retrotransposons/transposon specific domains. In addition, we analyze several studies that show that a repetitive element can be remodeled into repetitive non-coding or coding sequences, suggesting (1) an evolutionary relationship among DNA sequences, and (2) that the evolution of the genomes involved frequent repetitive sequence reshuffling, a process that we have designated as a “DNA remodeling mechanism”. The alternative classification of the repetitive DNA sequences here proposed will provide a novel theoretical framework that recognizes the importance of DNA remodeling for the evolution and plasticity of eukaryotic genomes.

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“…However, the effect of these mechanisms, when we compare different genomes, would be the differentiation of repetitive DNA copies, as verified for these species. Chromosome differentiation caused by the movement of repetitive sequences seems to be very important for speciation 58,[68][69][70] . Symonová et al 58 provided indirect evidence in which rDNA uses the spreading mechanism of retrotransposons, subsequently affecting recombination rates in genomes, leading to rapid genome divergence in close relationship species.…”

Section: Discussionmentioning

confidence: 99%

Comparative Cytogenetics Among Three Sympatric Hypostomus Species (Siluriformes: Loricariidae): An Evolutionary Analysis in a High Endemic Region

Lorscheider

Oliveira

Dulz

et al. 2018

Braz. arch. biol. technol.

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The karyotypes of three armored catfish species (Loricariidae) from the Iguaçu river, southern of the Brazil, were compared using different techniques: C-banding, Ag-NOR and fluorescence in situ hybridization (FISH), which used 5S and 18S rDNAs and total Cot-1 fraction as probes. Hypostomus commersoni and Hypostomus derbyi presented 2n = 68 chromosomes, with karyotype formulae 12m+12sm+14st+30a and 12m+12sm+10st+34a, respectively; whereas Hypostomus myersi presented 2n = 74 chromosomes and 12m+16sm+12st+34a. The chromosomal localization of the Ag-NORs, 5S and 18S rDNAs differed in number of sites and chromosomal localization among the studied species. The total Cot-1 probe permitted the visualization of the repetitive DNA fraction in karyotypes of each species. Crosshybridizations using total Cot-1 probe revealed that these species have repetitive DNAs in common. However, this does not occur in H. commersoni in relation to the other species. The apparent karyotype similarity suggests a close relationship between the sympatric H. commersoni and H. derbyi species, but the small differences detected in the examined chromosomal markers indicate evolutionary divergence due to gene flow restriction among them. Hence, the present findings indicate different composition of repetitive sequences among studied species, which permit to infer its role in chromosomal differentiation of Hypostomus.

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Dispersion of transposable elements and multigene families: Microstructural variation in Characidium (Characiformes: Crenuchidae) genomes

Cited by 21 publications

References 46 publications

Physical mapping of repetitive DNA suggests 2n reduction in Amazon turtles Podocnemis (Testudines: Podocnemididae)

Physical mapping of repetitive DNA suggests 2n reduction in Amazon turtles Podocnemis (Testudines: Podocnemididae)

Conversion of DNA Sequences: From a Transposable Element to a Tandem Repeat or to a Gene

Comparative Cytogenetics Among Three Sympatric Hypostomus Species (Siluriformes: Loricariidae): An Evolutionary Analysis in a High Endemic Region

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