Analysis of the P. lividus sea urchin genome highlights contrasting trends of genomic and regulatory evolution in deuterostomes.
Analysis of the P. lividus sea urchin genome highlights contrasting trends of genomic and regulatory evolution in deuterostomes.
复制标题
DOI：
10.1016/j.xgen.2023.100295
复制
发表时间：
2023-04
期刊：
影响因子：
--
通讯作者：
Ferdinand Marlétaz;A. Couloux;J. Poulain;K. Labadie;C. da Silva;S. Mangenot;Benjamin Noel;A. Poustka;Philippe Dru;C. Pegueroles;M. Borra;E. Lowe;G. Lhomond;L. Besnardeau;S. Le Gras;Tao Ye;Daria Gavriouchkina;R. Russo;C. Costa;F. Zito;L. Anello;A. Nicosia;M. Ragusa;M. Pascual;M. D. Molina;Aline Chessel;M. Di Carlo;X. Turon;R. Copley;J. Exposito;P. Martinez;V. Cavalieri;Smadar Ben Tabou de Leon;Jenifer C. Croce;P. Oliveri;V. Matranga;M. Di Bernardo;J. Morales;P. Cormier;Anne Genevieve;J. Aury;V. Barbe;P. Wincker;M. Arnone;C. Gache;T. Lepage
中科院分区：
文献类型：
--
作者：
Ferdinand Marlétaz;A. Couloux;J. Poulain;K. Labadie;C. da Silva;S. Mangenot;Benjamin Noel;A. Poustka;Philippe Dru;C. Pegueroles;M. Borra;E. Lowe;G. Lhomond;L. Besnardeau;S. Le Gras;Tao Ye;Daria Gavriouchkina;R. Russo;C. Costa;F. Zito;L. Anello;A. Nicosia;M. Ragusa;M. Pascual;M. D. Molina;Aline Chessel;M. Di Carlo;X. Turon;R. Copley;J. Exposito;P. Martinez;V. Cavalieri;Smadar Ben Tabou de Leon;Jenifer C. Croce;P. Oliveri;V. Matranga;M. Di Bernardo;J. Morales;P. Cormier;Anne Genevieve;J. Aury;V. Barbe;P. Wincker;M. Arnone;C. Gache;T. Lepage
海胆是发育生物学中具有象征意义的模型，并表现出与其他后口动物不同的几个特征。为了揭示这些特异性背后的基因组线索，我们对海胆（paracentrotus lividus）进行了染色体尺度的基因组组装，并对其胚胎发育进行了广泛的基因表达和表观遗传分析。我们发现，与脊椎动物不同，海胆保留了祖先的染色体联系，但经历了非常快的染色体内基因顺序混合。我们在棘突谱系中发现了基因复制的爆发，并表明其中一些扩展的基因已经在新的结构中被招募（水血管系统，亚里士多德灯笼和骨骼形成的微粒谱系）。最后，我们确定了海胆和脊索动物之间保守的基因调控模块。我们的研究结果表明，控制发育的基因调控网络可以保守，尽管广泛的基因顺序重排。
Sea urchins are emblematic models in developmental biology and display several characteristics that set them apart from other deuterostomes. To uncover the genomic cues that may underlie these specificities, we generated a chromosome-scale genome assembly for the sea urchinParacentrotus lividusand an extensive gene expression and epigenetic profiles of its embryonic development. We found that, unlike vertebrates, sea urchins retained ancestral chromosomal linkages but underwent very fast intrachromosomal gene order mixing. We identified a burst of gene duplication in the echinoid lineage and showed that some of these expanded genes have been recruited in novel structures (water vascular system, Aristotle's lantern, and skeletogenic micromere lineage). Finally, we identified gene-regulatory modules conserved between sea urchins and chordates. Our results suggest that gene-regulatory networks controlling development can be conserved despite extensive gene order rearrangement.