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Coelacanth genomes reveal signatures for evolutionary transition from water to land

Coelacanths are known as “living fossils,” as they show remarkable morphological resemblance to the fossil record and belong to the most primitive lineage of living Sarcopterygii (lobe-finned fishes and tetrapods). Coelacanths may be key to elucidating the tempo and mode of evolution from fish to te...

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Autores principales: Nikaido, Masato, Noguchi, Hideki, Nishihara, Hidenori, Toyoda, Atsushi, Suzuki, Yutaka, Kajitani, Rei, Suzuki, Hikoyu, Okuno, Miki, Aibara, Mitsuto, Ngatunga, Benjamin P., Mzighani, Semvua I., Kalombo, Hassan W.J., Masengi, Kawilarang W.A., Tuda, Josef, Nogami, Sadao, Maeda, Ryuichiro, Iwata, Masamitsu, Abe, Yoshitaka, Fujimura, Koji, Okabe, Masataka, Amano, Takanori, Maeno, Akiteru, Shiroishi, Toshihiko, Itoh, Takehiko, Sugano, Sumio, Kohara, Yuji, Fujiyama, Asao, Okada, Norihiro
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Cold Spring Harbor Laboratory Press 2013
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3787270/
https://www.ncbi.nlm.nih.gov/pubmed/23878157
http://dx.doi.org/10.1101/gr.158105.113
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author Nikaido, Masato
Noguchi, Hideki
Nishihara, Hidenori
Toyoda, Atsushi
Suzuki, Yutaka
Kajitani, Rei
Suzuki, Hikoyu
Okuno, Miki
Aibara, Mitsuto
Ngatunga, Benjamin P.
Mzighani, Semvua I.
Kalombo, Hassan W.J.
Masengi, Kawilarang W.A.
Tuda, Josef
Nogami, Sadao
Maeda, Ryuichiro
Iwata, Masamitsu
Abe, Yoshitaka
Fujimura, Koji
Okabe, Masataka
Amano, Takanori
Maeno, Akiteru
Shiroishi, Toshihiko
Itoh, Takehiko
Sugano, Sumio
Kohara, Yuji
Fujiyama, Asao
Okada, Norihiro
author_facet Nikaido, Masato
Noguchi, Hideki
Nishihara, Hidenori
Toyoda, Atsushi
Suzuki, Yutaka
Kajitani, Rei
Suzuki, Hikoyu
Okuno, Miki
Aibara, Mitsuto
Ngatunga, Benjamin P.
Mzighani, Semvua I.
Kalombo, Hassan W.J.
Masengi, Kawilarang W.A.
Tuda, Josef
Nogami, Sadao
Maeda, Ryuichiro
Iwata, Masamitsu
Abe, Yoshitaka
Fujimura, Koji
Okabe, Masataka
Amano, Takanori
Maeno, Akiteru
Shiroishi, Toshihiko
Itoh, Takehiko
Sugano, Sumio
Kohara, Yuji
Fujiyama, Asao
Okada, Norihiro
author_sort Nikaido, Masato
collection PubMed
description Coelacanths are known as “living fossils,” as they show remarkable morphological resemblance to the fossil record and belong to the most primitive lineage of living Sarcopterygii (lobe-finned fishes and tetrapods). Coelacanths may be key to elucidating the tempo and mode of evolution from fish to tetrapods. Here, we report the genome sequences of five coelacanths, including four Latimeria chalumnae individuals (three specimens from Tanzania and one from Comoros) and one L. menadoensis individual from Indonesia. These sequences cover two African breeding populations and two known extant coelacanth species. The genome is ∼2.74 Gbp and contains a high proportion (∼60%) of repetitive elements. The genetic diversity among the individuals was extremely low, suggesting a small population size and/or a slow rate of evolution. We found a substantial number of genes that encode olfactory and pheromone receptors with features characteristic of tetrapod receptors for the detection of airborne ligands. We also found that limb enhancers of bmp7 and gli3, both of which are essential for limb formation, are conserved between coelacanth and tetrapods, but not ray-finned fishes. We expect that some tetrapod-like genes may have existed early in the evolution of primitive Sarcopterygii and were later co-opted to adapt to terrestrial environments. These coelacanth genomes will provide a cornerstone for studies to elucidate how ancestral aquatic vertebrates evolved into terrestrial animals.
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spelling pubmed-37872702013-10-21 Coelacanth genomes reveal signatures for evolutionary transition from water to land Nikaido, Masato Noguchi, Hideki Nishihara, Hidenori Toyoda, Atsushi Suzuki, Yutaka Kajitani, Rei Suzuki, Hikoyu Okuno, Miki Aibara, Mitsuto Ngatunga, Benjamin P. Mzighani, Semvua I. Kalombo, Hassan W.J. Masengi, Kawilarang W.A. Tuda, Josef Nogami, Sadao Maeda, Ryuichiro Iwata, Masamitsu Abe, Yoshitaka Fujimura, Koji Okabe, Masataka Amano, Takanori Maeno, Akiteru Shiroishi, Toshihiko Itoh, Takehiko Sugano, Sumio Kohara, Yuji Fujiyama, Asao Okada, Norihiro Genome Res Resource Coelacanths are known as “living fossils,” as they show remarkable morphological resemblance to the fossil record and belong to the most primitive lineage of living Sarcopterygii (lobe-finned fishes and tetrapods). Coelacanths may be key to elucidating the tempo and mode of evolution from fish to tetrapods. Here, we report the genome sequences of five coelacanths, including four Latimeria chalumnae individuals (three specimens from Tanzania and one from Comoros) and one L. menadoensis individual from Indonesia. These sequences cover two African breeding populations and two known extant coelacanth species. The genome is ∼2.74 Gbp and contains a high proportion (∼60%) of repetitive elements. The genetic diversity among the individuals was extremely low, suggesting a small population size and/or a slow rate of evolution. We found a substantial number of genes that encode olfactory and pheromone receptors with features characteristic of tetrapod receptors for the detection of airborne ligands. We also found that limb enhancers of bmp7 and gli3, both of which are essential for limb formation, are conserved between coelacanth and tetrapods, but not ray-finned fishes. We expect that some tetrapod-like genes may have existed early in the evolution of primitive Sarcopterygii and were later co-opted to adapt to terrestrial environments. These coelacanth genomes will provide a cornerstone for studies to elucidate how ancestral aquatic vertebrates evolved into terrestrial animals. Cold Spring Harbor Laboratory Press 2013-10 /pmc/articles/PMC3787270/ /pubmed/23878157 http://dx.doi.org/10.1101/gr.158105.113 Text en © 2013, Published by Cold Spring Harbor Laboratory Press http://creativecommons.org/licenses/by-nc/3.0/ This article, published in Genome Research, is available under a Creative Commons License (Attribution-NonCommercial 3.0 Unported), as described at http://creativecommons.org/licenses/by-nc/3.0/.
spellingShingle Resource
Nikaido, Masato
Noguchi, Hideki
Nishihara, Hidenori
Toyoda, Atsushi
Suzuki, Yutaka
Kajitani, Rei
Suzuki, Hikoyu
Okuno, Miki
Aibara, Mitsuto
Ngatunga, Benjamin P.
Mzighani, Semvua I.
Kalombo, Hassan W.J.
Masengi, Kawilarang W.A.
Tuda, Josef
Nogami, Sadao
Maeda, Ryuichiro
Iwata, Masamitsu
Abe, Yoshitaka
Fujimura, Koji
Okabe, Masataka
Amano, Takanori
Maeno, Akiteru
Shiroishi, Toshihiko
Itoh, Takehiko
Sugano, Sumio
Kohara, Yuji
Fujiyama, Asao
Okada, Norihiro
Coelacanth genomes reveal signatures for evolutionary transition from water to land
title Coelacanth genomes reveal signatures for evolutionary transition from water to land
title_full Coelacanth genomes reveal signatures for evolutionary transition from water to land
title_fullStr Coelacanth genomes reveal signatures for evolutionary transition from water to land
title_full_unstemmed Coelacanth genomes reveal signatures for evolutionary transition from water to land
title_short Coelacanth genomes reveal signatures for evolutionary transition from water to land
title_sort coelacanth genomes reveal signatures for evolutionary transition from water to land
topic Resource
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3787270/
https://www.ncbi.nlm.nih.gov/pubmed/23878157
http://dx.doi.org/10.1101/gr.158105.113
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