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Ku蛋白限制RNA诱导的天然免疫,以允许灵长类动物中的Alu元件扩张。

Ku limits RNA-induced innate immunity to allow Alu expansion in primates.

作者信息

Zhu Yimeng, Li Angelina, Maji Suvrajit, Lee Brian J, Korn Sophie M, Gertie Jake A, Dorrity Tyler J, Wang Jianhua, Wang Kyle J, Pelletier Amandine, Moakley Daniel F, Kelly Rachel D, Holmes Antony B, Rabadan Raul, Edgell David R, Schild-Poulter Caroline, Modesti Mauro, Steckelberg Anna-Lena, Hendrickson Eric A, Chung Hachung, Zhang Chaolin, Zha Shan

机构信息

Institute for Cancer Genetics, Vagelos College of Physicians and Surgeons, Columbia University, New York, NY, USA.

Herbert Irving Comprehensive Cancer Center, Vagelos College of Physicians and Surgeons, Columbia University, New York, NY, USA.

出版信息

Nature. 2025 Jul;643(8071):562-571. doi: 10.1038/s41586-025-09104-w. Epub 2025 May 15.


DOI:10.1038/s41586-025-09104-w
PMID:40373806
Abstract

Ku70 and Ku80 form the Ku heterodimer, a ring-shaped complex that initiates the non-homologous end-joining (NHEJ) DNA repair pathway. Ku binds to double-stranded DNA ends and recruits other NHEJ factors, including LIG4 and DNA-PKcs. Although Ku can bind to double-stranded RNA (dsRNA) and trap mutated DNA-PKcs on ribosomal RNA, the physiological role of the Ku-RNA interaction in otherwise wild-type cells remains unclear. Notably, Ku is dispensable for mouse development but is essential in human cells. Despite their similar genome sizes, human cells express about 100-fold more Ku than mouse cells, suggesting that Ku has functions beyond NHEJ, possibly through a dose-sensitive interaction with dsRNA, which binds Ku 10 to 100 times more weakly than double-stranded DNA. Here, Ku depletion induces profound interferon and NF-κB signalling via the dsRNA sensor MDA5-RIG-I and MAVS. Prolonged Ku degradation further activates other dsRNA sensors, especially PKR (also known as EIF2AK2) (suppressing translation) and OAS-RNaseL (cleaving ribosomal RNA), leading to growth arrest and cell death. Knockout of MAVS, RIG-I or MDA5 suppressed interferon signalling and, similarly to PKR knockout, partially rescued Ku-depleted human cells. Ku crosslinking and immunoprecipitation analyses revealed binding of Ku to diverse dsRNA molecules, predominantly stem-loops in primate-specific antisense Alu elements in introns and 3' untranslated regions. Ku expression is higher in primates than in non-primate mammals and is tightly correlated with Alu expansion. Thus, Ku has a vital role in accommodating Alu expansion in primates, limiting dsRNA-induced innate immunity, which explains its high expression and essential function in human cells.

摘要

Ku70和Ku80形成Ku异源二聚体,这是一种环状复合物,可启动非同源末端连接(NHEJ)DNA修复途径。Ku与双链DNA末端结合,并募集其他NHEJ因子,包括LIG4和DNA-PKcs。尽管Ku可以与双链RNA(dsRNA)结合,并将突变的DNA-PKcs捕获在核糖体RNA上,但在其他方面为野生型的细胞中,Ku-RNA相互作用的生理作用仍不清楚。值得注意的是,Ku对小鼠发育并非必需,但对人类细胞却是必不可少的。尽管它们的基因组大小相似,但人类细胞中Ku的表达量比小鼠细胞高约100倍,这表明Ku具有NHEJ以外的功能,可能是通过与dsRNA的剂量敏感相互作用实现的,dsRNA与Ku的结合比双链DNA弱10至100倍。在这里,Ku的缺失通过dsRNA传感器MDA5-RIG-I和MAVS诱导强烈的干扰素和NF-κB信号传导。长期的Ku降解进一步激活其他dsRNA传感器,特别是PKR(也称为EIF2AK2)(抑制翻译)和OAS-RNaseL(切割核糖体RNA),导致生长停滞和细胞死亡。敲除MAVS、RIG-I或MDA5可抑制干扰素信号传导,并且与敲除PKR类似,部分挽救了Ku缺失的人类细胞。Ku交联和免疫沉淀分析揭示了Ku与多种dsRNA分子的结合,主要是内含子和3'非翻译区中灵长类特异性反义Alu元件中的茎环。Ku在灵长类动物中的表达高于非灵长类哺乳动物,并且与Alu扩增密切相关。因此,Ku在适应灵长类动物中的Alu扩增、限制dsRNA诱导的先天免疫方面起着至关重要的作用,这解释了其在人类细胞中的高表达和重要功能。

相似文献

[1]
Ku limits RNA-induced innate immunity to allow Alu expansion in primates.

Nature. 2025-7

[2]
Ku suppresses RNA-mediated innate immune responses in human cells to accommodate primate-specific Alu expansion.

bioRxiv. 2025-2-1

[3]
The Human Papillomavirus E6 Oncoprotein Targets USP15 and TRIM25 To Suppress RIG-I-Mediated Innate Immune Signaling.

J Virol. 2018-2-26

[4]
PAXX/Ku interaction is rate-limiting for repair of double-strand DNA breaks requiring end processing.

J Biol Chem. 2025-7-12

[5]
Innate IFN-lambda responses to dsRNA in the human infant airway epithelium and clinical regulatory factors during viral respiratory infections in early life.

Clin Exp Allergy. 2020-9

[6]
Compared to other NHEJ factors, DNA-PK protein and RNA levels are markedly increased in all higher primates, but not in prosimians or other mammals.

DNA Repair (Amst). 2024-10

[7]
Equine lentivirus Gag protein degrades mitochondrial antiviral signaling protein via the E3 ubiquitin ligase Smurf1.

J Virol. 2025-1-31

[8]
IFN alpha inducible protein 27 (IFI27) acts as a positive regulator of PACT-dependent PKR activation after RNA virus infections.

PLoS Pathog. 2025-6-16

[9]
Monkey business: Primate Ku moonlights for the innate immune response.

Mol Cell. 2025-7-17

[10]
Dynamic assemblies and coordinated reactions of non-homologous end joining.

Nature. 2025-6-11

本文引用的文献

[1]
Ultrafast one-pass FASTQ data preprocessing, quality control, and deduplication using fastp.

Imeta. 2023-5-8

[2]
On the genetic basis of tail-loss evolution in humans and apes.

Nature. 2024-2

[3]
Long 3'UTRs predispose neurons to inflammation by promoting immunostimulatory double-stranded RNA formation.

Sci Immunol. 2023-10-27

[4]
ADAR1p150 prevents MDA5 and PKR activation via distinct mechanisms to avert fatal autoinflammation.

Mol Cell. 2023-11-2

[5]
Noncanonical functions of Ku may underlie essentiality in human cells.

Sci Rep. 2023-7-27

[6]
ATR kinase supports normal proliferation in the early S phase by preventing replication resource exhaustion.

Nat Commun. 2023-6-19

[7]
Phosphorylation of DNA-PKcs at the S2056 cluster ensures efficient and productive lymphocyte development in XLF-deficient mice.

Proc Natl Acad Sci U S A. 2023-6-20

[8]
Analysing high-throughput sequencing data in Python with HTSeq 2.0.

Bioinformatics. 2022-5-13

[9]
Cellular origins of dsRNA, their recognition and consequences.

Nat Rev Mol Cell Biol. 2022-4

[10]
clusterProfiler 4.0: A universal enrichment tool for interpreting omics data.

Innovation (Camb). 2021-7-1

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