Regulatory principles of echinoderm metamorphosis

棘皮动物变态的调控原理

• 批准号: BB/V01109X/1
• 负责人: Ferdinand Marlétaz
• 金额: $ 62.81万
• 依托单位: University College London
• 依托单位国家: 英国
• 项目类别: Research Grant
• 财政年份: 2021
• 资助国家: 英国
• 起止时间: 2021 至 无数据
• 项目状态: 未结题
• 来源: https://gtr.ukri.org/projects?ref=BB%2FV01109X%2F1
• 关键词: Regulatory; principles; echinoderm; metamorphosis

While some animals develop directly from embryos into their adult forms, others present an intermediate larval stage. The metamorphosis of the larva into the adult form can be more or less dramatic, and, in the case of echinoderms, involve a drastic change in body symmetry from a bilateral larva into a pentaradial adult (five-way symmetry). The adult first grows as a set of cells, the 'rudiment' that grows within the larva and finally everts from it. While this process relies on the same development genes as embryonic development, these genes are mobilised by an alternative developmental program encoded in the genome. I want to understand how these two regulatory programs that control development from egg to larva and from larva to pentaradial adult can coexist in the same genome. Genes are controlled by regulatory elements, segments of DNA that are bound by specialised proteins called transcription factors. I want to determine what are the regulatory elements in the genome that control the metamorphosis of the larval into an adult with an alternative body symmetry and which transcription factors play the most important role in mobilising these elements. We will use sequencing-based technologies, such as single-cell transcriptomics and computational analyses to find this out. We will then use transgenic sea urchin larvae carrying a gene encoding for a fluorescent protein under the control of such promoters to monitor where these regulatory elements are active. Echinoderm genomes are quite plastic, which means gene order can change and some have postulated that this could have played a key role in rewiring gene regulation. To test this idea, we will evaluate the genomic changes that took place in different echinoderm lineages. Then, as regulatory elements are embedded in loops of DNA known as three-dimensional chromatin compartments, we will see if these are affected during metamorphosis, and finally build an integrative model of rudiment development. We expect to uncover the new regulatory route that has made possible the evolution of a new body plan in these mesmerising organisms.

虽然有些动物直接从胚胎发展为成人形式，而另一些动物则是中间幼虫阶段。幼虫向成年形式的变形可能或多或少是戏剧性的，在棘皮动物的情况下，涉及从双侧幼虫变成五角形成人（五路对称）的身体对称性的急剧变化。成年人首先生长为一组细胞，即在幼虫中生长的“基础”，最终从中生长出来。尽管此过程依赖于与胚胎发育相同的发育基因，但这些基因被基因组中编码的替代发展程序动员。我想了解这两个控制从鸡蛋到幼虫发展以及从幼虫到五特那成年成年人的监管计划如何在同一基因组中共存。基因受调节元素的控制，DNA的段，这些元素受称为转录因子的专用蛋白质绑定。我想确定基因组中的调节元素是什么，将幼虫的变态控制为具有替代体对称性的成年人，哪些转录因子在动员这些元素中起着最重要的作用。我们将使用基于测序的技术，例如单细胞转录组学和计算分析来找到这一点。然后，我们将使用在此类启动子控制下携带编码荧光蛋白的基因的转基因海胆幼虫来监测这些调节元件的活性。棘皮动物基因组非常塑性，这意味着基因顺序可以改变，有些人认为这可能在重新布线基因调节中起关键作用。为了测试这个想法，我们将评估在不同的棘皮动物谱系中发生的基因组变化。然后，由于调节元件被嵌入被称为三维染色质室的DNA环中，我们将看到它们在变质过程中是否受到影响，并最终建立了一个构象发展的综合模型。我们希望揭开新的监管途径，这使得在这些令人着迷的生物体中新的身体计划的演变成为可能。

项目成果

DrosoPhyla: Resources for Drosophilid Phylogeny and Systematics.

• DOI: 10.1093/gbe/evab179
• 发表时间: 2021-08-03
• 期刊: Genome biology and evolution
• 影响因子: 3.3
• 作者: Finet C;Kassner VA;Carvalho AB;Chung H;Day JP;Day S;Delaney EK;De Ré FC;Dufour HD;Dupim E;Izumitani HF;Gautério TB;Justen J;Katoh T;Kopp A;Koshikawa S;Longdon B;Loreto EL;Nunes MDS;Raja KKB;Rebeiz M;Ritchie MG;Saakyan G;Sneddon T;Teramoto M;Tyukmaeva V;Vanderlinde T;Wey EE;Werner T;Williams TM;Robe LJ;Toda MJ;Marlétaz F
• 通讯作者: Marlétaz F

Annelid functional genomics reveal the origins of bilaterian life cycles.

• DOI: 10.1038/s41586-022-05636-7
• 发表时间: 2023-03
• 期刊: NATURE
• 影响因子: 64.8
• 作者: Martin-Zamora, Francisco M.;Liang, Yan;Guynes, Kero;Carrillo-Baltodano, Allan M.;Davies, Billie E.;Donnellan, Rory D.;Tan, Yongkai;Moggioli, Giacomo;Seudre, Oceane;Tran, Martin;Mortimer, Kate;Luscombe, Nicholas M.;Hejnol, Andreas;Marletaz, Ferdinand;Martin-Duran, Jose M.
• 通讯作者: Martin-Duran, Jose M.

Analysis of the P. lividus sea urchin genome highlights contrasting trends of genomic and regulatory evolution in deuterostomes.

• DOI: 10.1016/j.xgen.2023.100295
• 发表时间: 2023-04
• 期刊: Cell genomics
• 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

Publisher Correction: Conservative route to genome compaction in a miniature annelid.

• DOI: 10.1038/s41559-020-01366-z
• 发表时间: 2021-03
• 期刊: Nature ecology & evolution
• 影响因子: 16.8
• 作者: Martín-Durán JM;Vellutini BC;Marlétaz F;Cetrangolo V;Cvetesic N;Thiel D;Henriet S;Grau-Bové X;Carrillo-Baltodano AM;Gu W;Kerbl A;Marquez Y;Bekkouche N;Chourrout D;Gómez-Skarmeta JL;Irimia M;Lenhard B;Worsaae K;Hejnol A
• 通讯作者: Hejnol A

Conservative route to genome compaction in a miniature annelid.

• DOI: 10.1038/s41559-020-01327-6
• 发表时间: 2021-03
• 期刊: Nature ecology & evolution
• 影响因子: 16.8
• 作者: Martín-Durán JM;Vellutini BC;Marlétaz F;Cetrangolo V;Cvetesic N;Thiel D;Henriet S;Grau-Bové X;Carrillo-Baltodano AM;Gu W;Kerbl A;Marquez Y;Bekkouche N;Chourrout D;Gómez-Skarmeta JL;Irimia M;Lenhard B;Worsaae K;Hejnol A
• 通讯作者: Hejnol A