一项公正的 lncRNA 缺失 CRISPR-Cas9 筛选揭示了 RP11-350G8.5 作为多发性骨髓瘤的新治疗靶点。
An unbiased lncRNAs dropout CRISPR-Cas9 screen reveals RP11-350G8.5 as a novel therapeutic target for Multiple Myeloma.
发表日期:2024 Aug 16
作者:
Katia Grillone, Serena Ascrizzi, Paolo Cremaschi, Jussara Amato, Nicoletta Polerà, Ottavio Croci, Roberta Rocca, Caterina Riillo, Francesco Conforti, Raffaele Graziano, Diego Brancaccio, Daniele Caracciolo, Stefano Alcaro, Bruno Pagano, Antonio Randazzo, Pierosandro Tagliaferri, Francesco Iorio, Pierfrancesco Tassone
来源:
BLOOD
摘要:
多发性骨髓瘤 (MM) 是一种无法治愈的恶性肿瘤,其特征是编码和非编码基因的表达改变,促进肿瘤生长和耐药性。尽管长链非编码 RNA (lncRNA) 在多发性骨髓瘤中的关键作用已经明确,但非编码 RNAome 的功能(可能允许设计新的治疗方法)却在很大程度上未知。我们对 MM 细胞中的 671 个 lncRNA 及其硼替佐米 (BZB) 抗性衍生物进行了无偏倚的 CRISPR-Cas9 功能丧失筛选。为了对功能和临床相关的候选者进行排名,我们设计并使用了生物信息学优先顺序管道,将细胞筛选的功能数据与 MM 患者的预后和转录数据相结合。通过这种方法,我们揭示了 8 个对 MM 细胞适应性至关重要的 onco-lncRNA,并对其进行了优先排序,它们与 MM 患者的高表达和不良预后相关。无论 BZB 耐药性如何,之前未定性的 RP11-350G8.5 都成为最有希望的靶标。我们i)在体外和体内证明了通过RP11-350G8.5抑制获得的抗肿瘤作用; ii) 通过 RNA 测序和分子研究,强调了 RP11-350G8.5 敲除引发的未折叠蛋白反应的调节和免疫原性细胞死亡的诱导; iii) 通过 RNA-FISH 表征其细胞质归巢; iv) 通过生物物理测定(包括硫磺素 T、1H-NMR 和圆二色性)预测其 2D 结构并鉴定了 2 个 G-四链体和 3 个发夹形成区域,为新型靶向治疗药物的开发铺平了道路。总体而言,我们提供了有关 MM 中未探索的 lncRNA 的创新见解,并将 RP11-350G8.5 确定为初治和 BZB 耐药 MM 患者的致癌靶点。版权所有 © 2024 美国血液学会。
Multiple Myeloma (MM) is an incurable malignancy characterised by altered expression of coding and non-coding genes promoting tumour growth and drug resistance. Although the crucial role of long non-coding RNAs (lncRNAs) in MM is clearly established, the function of the non-coding RNAome, which might allow the design of novel therapeutics, is largely unknown. We performed an unbiased CRISPR-Cas9 loss-of-function screen of 671 lncRNAs in MM cells and their Bortezomib (BZB)-resistant derivative. To rank functionally and clinically relevant candidates, we designed and used a bioinformatic prioritisation pipeline combining functional data from cellular screens with prognostic and transcriptional data from MM patients. With this approach, we unveiled and prioritised 8 onco-lncRNAs essential for MM cell fitness, associated with high expression and poor prognosis in MM patients. The previously uncharacterised RP11-350G8.5 emerged as the most promising target, irrespective of BZB resistance. We i) demonstrated the anti-tumoral effect obtained by RP11-350G8.5 inhibition in vitro and in vivo; ii) highlighted a modulation of the unfolded protein response and the induction of immunogenic cell death triggered by the RP11-350G8.5 knock-out, via RNA-sequencing and molecular studies; iii) characterised its cytoplasmic homing through RNA-FISH; iv) predicted its 2D structure and identified 2 G-quadruplex and 3 hairpin-forming regions by biophysical assays, including Thioflavin T, 1H-NMR and circular dichroism to pave the way to the development of novel targeted therapeutics. Overall we provided innovative insights about unexplored lncRNAs in MM and identified RP11-350G8.5 as an oncogenic target for treatment-naïve and BZB-resistant MM patients.Copyright © 2024 American Society of Hematology.