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Liehr, T.

Publications and source records attributed to Liehr, T..

4 recordsLinked to original sources

Cytological and preliminary genomic analysis of two Leptodactylus frog species (Anura, Leptodactylidae) with recently evolved large meiotic rings of multiple X and Y sex chromosomes

A few species have evolved multiple sex chromosome systems with more than two Xs or Ys. These involve sex chromosome-autosome translocations (sometimes called fusions as very small heterochromatic arms may be deleted), creating neo-sex chromosome systems. Among vertebrates, frogs (Anura) have the highest known number of such translocation systems. This study within the genus Leptodactylus, investigated the two species L. pentadactylus (LPE) and L. paraensis (LPA), in which large ring multivalents are seen in male meiosis, indicating translocations involving the sex chromosomes. Four other species studied do not have such rings, but they share characteristics making rearrangements less likely to be eliminated. To start understanding the formation of multivalents, we used genomic and cytogenetic methods to investigate repetitive DNA sequences, including satellite DNAs, rDNAs, and telomeric sequences, and conducted comparative genomic hybridization (CGH). The LPE genome includes a large number of satDNA families, and in situ mapping of several satDNAs individually identified eight of the ten chromosomes in its multivalent. In LPA, morphological similarities indicate that several chromosomes are shared by the multivalents of both species, and a candidate ancestral sex chromosome pair could be identified. In situ mapping in LPE suggests recent satDNA accumulation in the subtelomeric regions, which differ from those in the outgroup species, contrary to the expectation that the translocations create sex-linkage in the pericentromeric regions.

evolutionary biology↗

Sex chromosome turnover in African annual killifishes of the genus Nothobranchius

Sex chromosomes of teleost fishes often have low levels of differentiation and undergo frequent turnovers. Annual Nothobranchius killifishes comprise representatives with male-heterogametic XY or X1X2Y sex chromosome systems, scattered across their phylogeny, nested within species lacking cytologically detectable sex chromosomes. They thus provide a suitable system to study sex chromosome evolution and turnover. Here, we combined molecular cytogenetics and genomic analyses to examine several multiple sex chromosome systems in Nothobranchius spp. and their outgroup Fundulosoma thierryi. We used fluorescence in situ hybridization with three sex chromosome-specific painting probes and bacterial artificial chromosomes (BAC) bearing eight orthologues of genes found to be repeatedly co-opted as master sex determining (MSD) genes in fishes. Our results suggest at least four independent origins of sex chromosomes in the genus Nothobranchius. The synteny block carrying amhr2 gene was shared by X1X2Y systems of N. brieni, N. guentheri and N. lourensi, but the autosomal additions and the overall neo-Y chromosome structure differed among these species. On the other hand, gdf6 gene was localized to neo-Y of F. thierryi. None of the mapped MSD gene candidates seems to determine sex in N. ditte. We further sequenced genomes of F. thierryi female and N. guentheri male by long-read platforms and performed analyses of male and female Pool-seq data and coverage to delimit their non-recombining regions, determine degree of their differentiation, and thus complement the cytogenetic data in assessing potential MSD genes. We found low level of sex chromosomes differentiation in F. thierryi. In N. guentheri, however, we identified two distinct evolutionary strata on neo-Y. The amhr2 gene resides in the younger stratum and has low allelic variation, which questions its role in sex determination.

evolutionary biology↗

Evolution of ancient satellite DNAs in extant alligators and caimans (Crocodylia, Reptilia)

Crocodilians are one of the oldest extant vertebrate lineages, which exhibits a combination of evolutionary success and morphological resilience that have persisted throughout the history of life on Earth. Such an ability to endure over such a long geological time span is of great evolutionary importance. Here, we performed a comprehensive analysis of the satellite DNA diversity of the extant alligators and caimans, making significant progress in our understanding of the evolution of repetitive regions present in ancient genomes. The alligators and caimans displayed a small number of satDNA families (varying between 3 and 13 satDNAs, in A. sinensis and C. latirostris, respectively) as well as little variation both within and between species, highlighting an exceptional long-term conservation of satDNA elements throughout evolution. We also tracked the origin of the ancestral forms of all satDNAs belonging to the common ancestor of Caimaninae and Alligatoridae. Fluorescence in situ experiments showed distinct hybridization patterns for the identical ortholog satDNAs, indicating their inner dynamic evolution. Why, in addition to their previously known low genetic, karyotype, and morphological diversity, have crocodilians altered so little over such a long period of time with such a highly variable genome fraction? We argued that such an "evolutionary package" was likely the outcome of severe demographic declines or founder events and that it represents evolutionary responses to a long-lasting bottleneck history.

evolutionary biology↗

3D genome topologies distinguish pluripotent epiblast and primitive endoderm cells in the mouse blastocyst

The development of embryonic cell lineages is tightly controlled by transcription factors that regulate gene expression and chromatin organisation. To investigate the specialisation of 3D genome structure in pluripotent or extra-embryonic endoderm lineages, we applied Genome Architecture Mapping (GAM) in embryonic stem (ES) cells, extra-embryonic endoderm (XEN) stem cells, and in their in vivo counterparts, the epiblast (Epi) and primitive endoderm (PrE) cells, respectively. We discover extensive differences in 3D genome topology including the formation domain boundaries that differ between Epi and PrE lineages, both in vivo and in vitro, at lineage commitment genes. In ES cells, Sox2 contacts other active regions enriched for NANOG and SOX2 binding sites. PrE-specific genes, such as Lama1 and Gata6, form repressive chromatin hubs in ES cells. Lama1 activation in XEN or PrE cells coincides with its extensive decondensation. Putative binding sites for OCT4 and SNAIL, or GATA4/6, distinguish chromatin contacts unique to embryonic or extra-embryonic lineages, respectively. Overall, 3D genome folding is highly specialised in early development, especially at genes encoding factors driving lineage identity. HighlightsO_LIES and XEN cells have specialised 3D genome structures C_LIO_LIGAM applied in the blastocyst distinguishes Epi and PrE genome structures C_LIO_LILineage specific genes establish cell-type specific chromatin contacts C_LIO_LISpecific chromatin contacts feature putative bindings sites for GATA4/6 in XEN cells and SNAIL in ES cells C_LI

developmental biology↗