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通过诱导型基因表达和CRISPR干扰扩展专性捕食细菌的基因工具库。

Expanding the genetic toolbox of the obligate predatory bacterium with inducible gene expression and CRISPR interference.

作者信息

de Pierpont Charles, Derneden Benoît, Remy Ophélie, Laloux Géraldine

机构信息

de Duve Institute, UCLouvain, Brussels, 1200, Belgium.

WEL Research Institute, Wavre, 1300, Belgium.

出版信息

Microlife. 2025 Sep 1;6:uqaf021. doi: 10.1093/femsml/uqaf021. eCollection 2025.

Abstract

is an obligate predatory bacterium that invades the periplasm of diderm prey bacteria, where it elongates and produces multiple daughter cells through nonbinary division. Investigating the molecular determinants of this lifecycle is challenging because deleting genes required for predation also impairs survival. Furthermore, the scarcity of robust conditional gene expression systems has restricted functional studies in this bacterium. Here, we address these limitations by expanding the genetic toolbox for . First, we analysed the relative strength of a series of promoters, providing new resources to fine-tune gene expression. We then established an isopropyl β-D-1-thiogalactopyranoside (IPTG)-inducible expression system that can be activated during both the attack and growth phases of the predator. Finally, we designed a CRISPR interference (CRISPRi) module for IPTG-inducible gene knockdown, enabling rapid and targeted depletion. As a proof of principle, CRISPRi-mediated silencing of the cell curvature gene reproduced the straight phenotype of the deletion mutant. Likewise, depletion of the tubulin homologue FtsZ-which we showed is essential for survival-blocked cell division within the first replicative cycle, yielding filamentous progeny still able of exiting the prey cell. This highlights the intriguing potential of uncoupling key cell cycle and predatory processes. Overall, these tools significantly broaden the scope of genetic manipulation in and open new avenues for in-depth investigation of its noncanonical biology.

摘要

是一种专性捕食性细菌,它侵入双膜猎物细菌的周质空间,在那里伸长并通过非二分裂产生多个子细胞。研究这种生命周期的分子决定因素具有挑战性,因为删除捕食所需的基因也会损害其生存。此外,强大的条件基因表达系统的缺乏限制了对这种细菌的功能研究。在这里,我们通过扩展用于……的遗传工具箱来解决这些限制。首先,我们分析了一系列启动子的相对强度,为微调基因表达提供了新的资源。然后,我们建立了一种异丙基β-D-1-硫代半乳糖吡喃糖苷(IPTG)诱导的表达系统,该系统可以在捕食者的攻击和生长阶段都被激活。最后,我们设计了一个用于IPTG诱导基因敲低的CRISPR干扰(CRISPRi)模块,实现快速且有针对性的基因敲减。作为原理验证,CRISPRi介导的细胞曲率基因沉默重现了缺失突变体的直线表型。同样,微管蛋白同源物FtsZ的敲减(我们证明它对……的生存至关重要)在第一个复制周期内阻断了细胞分裂,产生了仍能从猎物细胞中逸出的丝状后代。这凸显了解耦关键细胞周期和捕食过程的有趣潜力。总体而言,这些工具显著拓宽了……中基因操作的范围,并为深入研究其非规范生物学开辟了新途径。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0493/12448681/dc5d2a5f5d66/uqaf021fig1.jpg

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