| Title: |
The little skate genome and the evolutionary emergence of wing-like fins |
| Authors: |
Marlétaz, Ferdinand; de la Calle-Mustienes, Elisa; Acemel, Rafael D; Paliou, Christina; Naranjo, Silvia; Martínez-García, Pedro Manuel; Cases, Ildefonso; Sleight, Victoria A; Hirschberger, Christine; Marcet-Houben, Marina; Navon, Dina; Andrescavage, Ali; Skvortsova, Ksenia; Duckett, Paul Edward; González-Rajal, Álvaro; Bogdanovic, Ozren; Gibcus, Johan H; Yang, Liyan; Gallardo-Fuentes, Lourdes; Sospedra, Ismael; Lopez-Rios, Javier; Darbellay, Fabrice; Visel, Axel; Dekker, Job; Shubin, Neil; Gabaldón, Toni; Nakamura, Tetsuya; Tena, Juan J; Lupiáñez, Darío G; Rokhsar, Daniel S; Gómez-Skarmeta, José Luis |
| Contributors: |
Systems Biology |
| Source: |
Nature ; 616 ; 7957 ; 495 ; 503 ; England |
| Publication Year: |
2025 |
| Collection: |
University of Massachusetts, Medical School: eScholarship@UMMS |
| Subject Terms: |
Embryogenesis; Evolutionary developmental biology; Evolutionary genetics; Genome evolution |
| Description: |
Skates are cartilaginous fish whose body plan features enlarged wing-like pectoral fins, enabling them to thrive in benthic environments. 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. ; No embargo |
| Document Type: |
article in journal/newspaper |
| File Description: |
application/pdf |
| Language: |
English |
| Relation: |
Nature; https://doi.org/10.1038/s41586-023-05868-1; https://hdl.handle.net/20.500.14038/54048 |
| DOI: |
10.1038/s41586-023-05868-1 |
| Availability: |
https://doi.org/10.1038/s41586-023-05868-1; https://hdl.handle.net/20.500.14038/54048 |
| Rights: |
Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. © The Author(s) 2023 ; Attribution 4.0 International ; http://creativecommons.org/licenses/by/4.0/ |
| Accession Number: |
edsbas.BBF0936E |
| Database: |
BASE |