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Updated: Jan 28, 2026

Engineering Oncogenic Heterozygous Gain-of-Function Mutations in Human Hematopoietic Stem and Progenitor Cells
Published on: March 10, 2023
Gain-of-function mutation of microRNA-140 in human skeletal dysplasia
Giedre Grigelioniene1,2,3, Hiroshi I Suzuki4, Fulya Taylan2
1Endocrine Unit, Massachusetts General Hospital and Harvard Medical School, Boston, MA, USA.
Abstract:
MicroRNAs (miRNAs) are post-transcriptional regulators of gene expression. Heterozygous loss-of-function point mutations of miRNA genes are associated with several human congenital disorders1-5, but neomorphic (gain-of-new-function) mutations in miRNAs due to nucleotide substitutions have not been reported. Here we describe a neomorphic seed region mutation in the chondrocyte-specific, super-enhancer-associated MIR140 gene encoding microRNA-140 (miR-140) in a novel autosomal dominant human skeletal dysplasia. Mice with the corresponding single nucleotide substitution show skeletal abnormalities similar to those of the patients but distinct from those of miR-140-null mice6. This mutant miRNA gene yields abundant mutant miR-140-5p expression without miRNA-processing defects. In chondrocytes, the mutation causes widespread derepression of wild-type miR-140-5p targets and repression of mutant miR-140-5p targets, indicating that the mutation produces both loss-of-function and gain-of-function effects. Furthermore, the mutant miR-140-5p seed competes with the conserved RNA-binding protein Ybx1 for overlapping binding sites. This finding may explain the potent target repression and robust in vivo effect by this mutant miRNA even in the absence of evolutionary selection of miRNA-target RNA interactions, which contributes to the strong regulatory effects of conserved miRNAs7,8. Our study presents the first case of a pathogenic gain-of-function miRNA mutation and provides molecular insight into neomorphic actions of emerging and/or mutant miRNAs.
Insights
This study identifies the first pathogenic gain-of-function mutation in microRNA-140 (miR-140), causing skeletal dysplasia. The neomorphic mutation leads to both loss-of-function and gain-of-function effects in chondrocytes.
Area of Science:
- Genetics
- Molecular Biology
- Developmental Biology
Background:
- MicroRNAs (miRNAs) are crucial gene regulators, and loss-of-function mutations are linked to human disorders.
- Neomorphic (gain-of-new-function) mutations in miRNAs have not been previously reported.
- The MIR140 gene, encoding miR-140, is vital for chondrocytes and associated with super-enhancers.
Purpose of the Study:
- To report the first instance of a neomorphic, gain-of-function mutation in a microRNA gene.
- To investigate the molecular mechanisms underlying a novel autosomal dominant human skeletal dysplasia.
- To characterize the effects of a seed region mutation in miR-140.
Main Methods:
- Identification and characterization of a novel neomorphic seed region mutation in the MIR140 gene.
- Generation and analysis of a mouse model with the corresponding single nucleotide substitution.
- Assessment of miRNA expression, target derepression/repression, and RNA-binding protein competition in chondrocytes.
Main Results:
- A novel autosomal dominant skeletal dysplasia is associated with a neomorphic mutation in the MIR140 gene.
- The mutant mouse model exhibits skeletal abnormalities distinct from miR-140-null mice.
- The mutation leads to both loss-of-function and gain-of-function effects by altering target interactions and competing with Ybx1.
Conclusions:
- This study presents the first evidence of a pathogenic gain-of-function mutation in a microRNA.
- The neomorphic miR-140 mutation provides molecular insights into the potent regulatory actions of mutant and emerging miRNAs.
- Understanding these neomorphic mutations is critical for diagnosing and potentially treating related congenital disorders.
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