DNA transposon invasion and microsatellite accumulation guide W chromosome differentiation in a Neotropical fish genome

Schemberger, Michelle Orane; Nascimento, Viviane Demetrio; Coan, Rafael Luiz Buogo; Ramos, Ercy M. C.; Nogaroto, Viviane; Ziemniczak, Kaline; Valente, Guilherme Targino; Moreira‐Filho, Orlando; Martins, Cesar; Vicari, Marcelo Ricardo

doi:10.1007/s00412-019-00721-9

Cited by 51 publications

(29 citation statements)

References 60 publications

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“…Recently it was shown that accumulation and expansion of microsatellites and DNA transposons might involve heterochromatinization and initiate sex chromosome differentiation in various taxa 59,63,64 . Thus, chromosomes having similar morphology and G-banding pattern can accumulate different repeated sequences in heterochromatic regions, i.e.…”

Section: Discussionmentioning

confidence: 99%

Evolutionary rearrangements of X chromosomes in voles (Arvicolinae, Rodentia)

Romanenko

Fedorova

Serdyukova

et al. 2020

Sci Rep

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euchromatic segments of the X chromosomes of placental mammals are the most conservative elements of the karyotype, only rarely subjected to either inter-or intrachromosomal rearrangements. Here, using microdissection-derived set of region-specific probes of Terricola savii we detailed the evolutionary rearrangements found in X chromosomes in 20 vole species (Arvicolinae, Rodentia). We show that the evolution of X chromosomes in this taxon was accompanied by multiple para-and pericentric inversions and centromere shifts. the contribution of intrachromosomal rearrangements to the karyotype evolution of Arvicolinae species was approximately equivalent in both the separate autosomal conserved segments and the X chromosomes. intrachromosmal rearrangements and structural reorganization of the X chromosomes was likely accompanied by an accumulation, distribution, and evolution of repeated sequences.

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Section: Discussionmentioning

confidence: 99%

Evolutionary rearrangements of X chromosomes in voles (Arvicolinae, Rodentia)

Romanenko

Fedorova

Serdyukova

et al. 2020

Sci Rep

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“…In Coffea, Brachiaria, and Secale, for example, Gypsy probes were located in proximal heterochromatin-rich chromosome regions [17,57,58], but in Gossypium species, Gypsy probes were hybridized along chromosomes [59]. However, when the elements are considered according to their phylogenetic positions, i.e., lineages of Copia and Gypsy [5,7,60], it becomes evident that there are many differences in the TE distribution profiles, in both plants (see [10,61]) and animals [62,63]. Thus, it seems wiser to believe that each element has its characteristics, including chromosomal position, genome impact, epigenetic influence, diversification rate, and other features.…”

Section: Not All Ltr-rt Rich Regions In Capsicum Chromosomes Are Hetementioning

confidence: 99%

Genome relationships and LTR-retrotransposon diversity in three cultivated Capsicum L. (Solanaceae) species

et al. 2020

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Background: Plant genomes are rich in repetitive sequences, and transposable elements (TEs) are the most accumulated of them. This mobile fraction can be distinguished as Class I (retrotransposons) and Class II (transposons). Retrotransposons that are transposed using an intermediate RNA and that accumulate in a "copy-and-paste" manner were screened in three genomes of peppers (Solanaceae). The present study aimed to understand the genome relationships among Capsicum annuum, C. chinense, and C. baccatum, based on a comparative analysis of the function, diversity and chromosome distribution of TE lineages in the Capsicum karyotypes. Due to the great commercial importance of pepper in natura, as a spice or as an ornamental plant, these genomes have been widely sequenced, and all of the assemblies are available in the SolGenomics group. These sequences were used to compare all repetitive fractions from a cytogenomic point of view. Results: The qualification and quantification of LTR-retrotransposons (LTR-RT) families were contrasted with molecular cytogenetic data, and the results showed a strong genome similarity between C. annuum and C. chinense as compared to C. baccatum. The Gypsy superfamily is more abundant than Copia, especially for Tekay/Del lineage members, including a high representation in C. annuum and C. chinense. On the other hand, C. baccatum accumulates more Athila/Tat sequences. The FISH results showed retrotransposons differentially scattered along chromosomes, except for CRM lineage sequences, which mainly have a proximal accumulation associated with heterochromatin bands. Conclusions: The results confirm a close genomic relationship between C. annuum and C. chinense in comparison to C. baccatum. Centromeric GC-rich bands may be associated with the accumulation regions of CRM elements, whereas terminal and subterminal AT-and GC-rich bands do not correspond to the accumulation of the retrotransposons in the three Capsicum species tested.

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“…TEs contribute to genome expansion and alteration not only by transposition but also by generating tandem repeats [70]. Associations among transposable elements and microsatellite expansions can play an important role in chromosome differentiation [71]. In this sense, estimative of the microsatellites content and organization in the Macrobrachium chromosomes open perspectives for future investigations about the evolutionary interrelationships of these repetitive DNA classes.…”

Section: Discussionmentioning

confidence: 99%

Molecular Cytogenetic Analysis in Freshwater Prawns of the Genus Macrobrachium (Crustacea: Decapoda: Palaemonidae)

Molina

Costa

Cunha

et al. 2020

IJMS

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Freshwater prawns of the genus Macrobrachium are one of the important components of circumtropical marine, estuarine, and freshwater environments. They have been extensively exploited for human consumption for many years. More than 250 species reflect the evolutionary success of this highly diversified group, with a complex and challenging taxonomy due to morphological variations and vast geographical distribution. Although genetic approaches have been used to clarify phylogenetic and taxonomic aspects of Macrobrachium species, cytogenetic information is still very scarce and mostly focused on chromosome number and morphology. Here, we present chromosome data for three species from the Neotropical region, M. carcinus, M. acanthurus, and M. amazonicum, and one species from the Oriental region, M. rosenbergii. Using conventional cytogenetic approaches and chromosome mapping of repetitive DNAs by fluorescence in situ hybridization (FISH), we identified numerical diversification of the diploid set, within and between both zoogeographic regions. These included M. acanthurus and M. amazonicum sharing diploid chromosomes of 98, while M. carcinus has 94, and M. rosenbergii has 118 chromosomes. Argentophilic sites are also variable in number, but they occur in a much higher number than 18S rDNA, representing two to 10 sites within the study species. Microsatellites repeat motifs are also abundant in the chromosomes, with a co-localization and uniform distribution along the chromosome arms, but completely absent in the AT-rich centromeric regions. As a whole, our study suggests that the 2n divergence was followed by a considerable rDNA diversification. The abundance of the exceptional amount of microsatellite sequences in the chromosomes also suggests that they are essential components of the Macrobrachium genome and, therefore, maintained as a shared feature by the species, the reason for which is yet unknown.

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DNA transposon invasion and microsatellite accumulation guide W chromosome differentiation in a Neotropical fish genome

Cited by 51 publications

References 60 publications

Evolutionary rearrangements of X chromosomes in voles (Arvicolinae, Rodentia)

Evolutionary rearrangements of X chromosomes in voles (Arvicolinae, Rodentia)

Genome relationships and LTR-retrotransposon diversity in three cultivated Capsicum L. (Solanaceae) species

Molecular Cytogenetic Analysis in Freshwater Prawns of the Genus Macrobrachium (Crustacea: Decapoda: Palaemonidae)

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