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Emergence of novel genomic regulatory regions associated with light-organ development in the bobtail squid
Light organs (LO) with symbiotic bioluminescent bacteria are hallmarks of many bobtail squid species. These organs possess structural and functional features to modulate light, analogous to those found in coleoid eyes. Previous studies identified four transcription factors and modulators (SIX, EYA,...
Autores principales: | , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Elsevier
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10329180/ https://www.ncbi.nlm.nih.gov/pubmed/37426346 http://dx.doi.org/10.1016/j.isci.2023.107091 |
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author | Rouressol, Lisa Briseno, John Vijayan, Nidhi Chen, Grischa Y. Ritschard, Elena A. Sanchez, Gustavo Nyholm, Spencer V. McFall-Ngai, Margaret J. Simakov, Oleg |
author_facet | Rouressol, Lisa Briseno, John Vijayan, Nidhi Chen, Grischa Y. Ritschard, Elena A. Sanchez, Gustavo Nyholm, Spencer V. McFall-Ngai, Margaret J. Simakov, Oleg |
author_sort | Rouressol, Lisa |
collection | PubMed |
description | Light organs (LO) with symbiotic bioluminescent bacteria are hallmarks of many bobtail squid species. These organs possess structural and functional features to modulate light, analogous to those found in coleoid eyes. Previous studies identified four transcription factors and modulators (SIX, EYA, PAX6, DAC) associated with both eyes and light organ development, suggesting co-option of a highly conserved gene regulatory network. Using available topological, open chromatin, and transcriptomic data, we explore the regulatory landscape around the four transcription factors as well as genes associated with LO and shared LO/eye expression. This analysis revealed several closely associated and putatively co-regulated genes. Comparative genomic analyses identified distinct evolutionary origins of these putative regulatory associations, with the DAC locus showing a unique topological and evolutionarily recent organization. We discuss different scenarios of modifications to genome topology and how these changes may have contributed to the evolutionary emergence of the light organ. |
format | Online Article Text |
id | pubmed-10329180 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Elsevier |
record_format | MEDLINE/PubMed |
spelling | pubmed-103291802023-07-09 Emergence of novel genomic regulatory regions associated with light-organ development in the bobtail squid Rouressol, Lisa Briseno, John Vijayan, Nidhi Chen, Grischa Y. Ritschard, Elena A. Sanchez, Gustavo Nyholm, Spencer V. McFall-Ngai, Margaret J. Simakov, Oleg iScience Article Light organs (LO) with symbiotic bioluminescent bacteria are hallmarks of many bobtail squid species. These organs possess structural and functional features to modulate light, analogous to those found in coleoid eyes. Previous studies identified four transcription factors and modulators (SIX, EYA, PAX6, DAC) associated with both eyes and light organ development, suggesting co-option of a highly conserved gene regulatory network. Using available topological, open chromatin, and transcriptomic data, we explore the regulatory landscape around the four transcription factors as well as genes associated with LO and shared LO/eye expression. This analysis revealed several closely associated and putatively co-regulated genes. Comparative genomic analyses identified distinct evolutionary origins of these putative regulatory associations, with the DAC locus showing a unique topological and evolutionarily recent organization. We discuss different scenarios of modifications to genome topology and how these changes may have contributed to the evolutionary emergence of the light organ. Elsevier 2023-06-09 /pmc/articles/PMC10329180/ /pubmed/37426346 http://dx.doi.org/10.1016/j.isci.2023.107091 Text en © 2023 The Author(s) https://creativecommons.org/licenses/by-nc-nd/4.0/This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/). |
spellingShingle | Article Rouressol, Lisa Briseno, John Vijayan, Nidhi Chen, Grischa Y. Ritschard, Elena A. Sanchez, Gustavo Nyholm, Spencer V. McFall-Ngai, Margaret J. Simakov, Oleg Emergence of novel genomic regulatory regions associated with light-organ development in the bobtail squid |
title | Emergence of novel genomic regulatory regions associated with light-organ development in the bobtail squid |
title_full | Emergence of novel genomic regulatory regions associated with light-organ development in the bobtail squid |
title_fullStr | Emergence of novel genomic regulatory regions associated with light-organ development in the bobtail squid |
title_full_unstemmed | Emergence of novel genomic regulatory regions associated with light-organ development in the bobtail squid |
title_short | Emergence of novel genomic regulatory regions associated with light-organ development in the bobtail squid |
title_sort | emergence of novel genomic regulatory regions associated with light-organ development in the bobtail squid |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10329180/ https://www.ncbi.nlm.nih.gov/pubmed/37426346 http://dx.doi.org/10.1016/j.isci.2023.107091 |
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