The Cosmic Time of Empire

Barrows, Adam

doi:10.1525/9780520948150

Cited by 8 publications

(2 citation statements)

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“…Boundary feature heat maps from Supplementary Fig. 5 were generated using profileplyr 101 (https://bioconductor.org/ packages/release/bioc/html/profileplyr.html) after binning the different signals in 5 kb windowed bigwig files. Chromatin loops were called using HICCUPS 95 with the default parameters in merged replicates of the anterior and posterior fin Hi-C experiments, and in a megamap merging anterior and posterior fin Hi-C maps.…”

Section: Hi-c Analysismentioning

confidence: 99%

The little skate genome and the evolutionary emergence of wing-like fins

Marlétaz

Calle‐Mustienes

Acemel

et al. 2023

Nature

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Skates are cartilaginous fish whose body plan features enlarged wing-like pectoral fins, enabling them to thrive in benthic environments1,2. However, the molecular underpinnings of this unique trait remain unclear. Here we investigate the origin of this phenotypic innovation by developing the little skate Leucoraja erinacea as a genomically enabled model. Analysis of a high-quality chromosome-scale genome sequence for the little skate shows that it preserves many ancestral jawed vertebrate features compared with other sequenced genomes, including numerous ancient microchromosomes. Combining genome comparisons with extensive regulatory datasets in developing fins—including gene expression, chromatin occupancy and three-dimensional conformation—we find skate-specific genomic rearrangements that alter the three-dimensional regulatory landscape of genes that are involved in the planar cell polarity pathway. Functional inhibition of planar cell polarity signalling resulted in a reduction in anterior fin size, confirming that this pathway is a major contributor to batoid fin morphology. We also identified a fin-specific enhancer that interacts with several hoxa genes, consistent with the redeployment of hox gene expression in anterior pectoral fins, and confirmed its potential to activate transcription in the anterior fin using zebrafish reporter assays. Our findings underscore the central role of genome reorganization and regulatory variation in the evolution of phenotypes, shedding light on the molecular origin of an enigmatic trait.

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Section: Hi-c Analysismentioning

confidence: 99%

The little skate genome and the evolutionary emergence of wing-like fins

Marlétaz

Calle‐Mustienes

Acemel

et al. 2023

Nature

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“…Both saw time as an affective experience in which duration varied. Such work, recent critics argue, must be understood historically in the context of the standardisation of time 9. Mary Ann Gillies, a leading writer on Bergson and modernism, argues that 'because of their radical challenge to traditional temporal concepts, evening discussions hosted by Hulme in 1912-3, which makes it probable that he was cognisant of Bergson's work and its importance 13.…”

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confidence: 99%

Literature and Modern Time

2020

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The Cosmic Time of Empire

Cited by 8 publications

References 0 publications

The little skate genome and the evolutionary emergence of wing-like fins

The little skate genome and the evolutionary emergence of wing-like fins

Literature and Modern Time

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