A novel gene ZNF862 causes hereditary gingival fibromatosis

  1. Juan Wu
  2. Dongna Chen
  3. Hui Huang
  4. Ning Luo
  5. Huishuang Chen
  6. Junjie Zhao
  7. Yanyan Wang
  8. Tian Zhao
  9. Siyuan Huang
  10. Yang Ren
  11. Teng Zhai
  12. Weibin Sun
  13. Houxuan Li  Is a corresponding author
  14. Wei Li  Is a corresponding author
  1. Medical School of Nanjing University, China
  2. BGI Genomics, China
  3. Peking University, China

Abstract

Hereditary gingival fibromatosis (HGF) is the most common genetic form of gingival fibromatosis which is featured as a localized or generalized overgrowth of gingivae. Currently two genes (SOS1 and REST), as well as four loci (2p22.1, 2p23.3-p22.3, 5q13-q22, and 11p15), have been identified as associated with HGF in a dominant inheritance pattern. Here we report thirteen individuals with autosomal-dominant HGF from a four-generation Chinese family. Whole-exome sequencing followed by further genetic co-segregation analysis was performed for the family members across three generations. A novel heterozygous missense mutation (c.2812G>A) in zinc finger protein 862 gene (ZNF862) was identified, and it is absent among the population as per the Genome Aggregation Database. The functional study supports a biological role of ZNF862 for increasing the profibrotic factors particularly COL1A1 synthesis and hence resulting in HGF. Here for the first time we identify the physiological role of ZNF862 for the association with the HGF.

Data availability

The sequencing data supporting this study have been deposited in the China Genebank Nucleotide Sequence Archive (https://db.cngb.org/cnsa, accession number CNP0000995).

Article and author information

Author details

  1. Juan Wu

    Department of Periodontology, Medical School of Nanjing University, Nanjing, China
    Competing interests
    No competing interests declared.
  2. Dongna Chen

    Clinical research, BGI Genomics, Shenzhen, China
    Competing interests
    Dongna Chen, is employee of BGI Genomics..
  3. Hui Huang

    Clinical research, BGI Genomics, Shenzhen, China
    Competing interests
    Hui Huang, is employee of BGI Genomics..
  4. Ning Luo

    Department of Periodontology, Medical School of Nanjing University, Nanjing, China
    Competing interests
    No competing interests declared.
  5. Huishuang Chen

    Clinical research, BGI Genomics, Shenzhen, China
    Competing interests
    Huishuang Chen, is employee of BGI Genomics..
  6. Junjie Zhao

    Department of Periodontology, Medical School of Nanjing University, Nanjing, China
    Competing interests
    No competing interests declared.
  7. Yanyan Wang

    Clinical research, BGI Genomics, Shenzhen, China
    Competing interests
    Yanyan Wang, is employee of BGI Genomics..
  8. Tian Zhao

    Department of Periodontology, Medical School of Nanjing University, shenzhen, China
    Competing interests
    No competing interests declared.
  9. Siyuan Huang

    Academy for Advanced Interdisciplinary Studies, Peking University, Beijing, China
    Competing interests
    No competing interests declared.
  10. Yang Ren

    Department of Periodontology, Medical School of Nanjing University, Nanjing, China
    Competing interests
    No competing interests declared.
  11. Teng Zhai

    Clinical research, BGI Genomics, shenzhen, China
    Competing interests
    Teng Zhai, is employee of BGI Genomics..
  12. Weibin Sun

    Department of Periodontology, Medical School of Nanjing University, Nanjing, China
    Competing interests
    No competing interests declared.
  13. Houxuan Li

    Department of Periodontology, Medical School of Nanjing University, Nanjing, China
    For correspondence
    lihouxuan3435_0@163.com
    Competing interests
    No competing interests declared.
  14. Wei Li

    Clinical Research, BGI Genomics, Shen zhen, China
    For correspondence
    liwei10@genomics.cn
    Competing interests
    Wei Li, is employee of BGI Genomics..
    ORCID icon "This ORCID iD identifies the author of this article:" 0000-0003-4475-531X

Funding

National Natural Science Foundation of China (51772144)

  • Houxuan Li

The funders had no role in study design, data collection and interpretation, or the decision to submit the work for publication.

Ethics

Human subjects: The usage and handling of human samples in this study was approved by the Institutional Review Board on Bioethics and Biosafety of BGI (IRB No. 19059) and the written informed consent obtained from each participant. Clinical investigation was performed in accordance with the Declaration of Helsinki.

Copyright

© 2022, Wu et al.

This article is distributed under the terms of the Creative Commons Attribution License permitting unrestricted use and redistribution provided that the original author and source are credited.

Metrics

  • 838
    views
  • 171
    downloads
  • 7
    citations

Views, downloads and citations are aggregated across all versions of this paper published by eLife.

Download links

A two-part list of links to download the article, or parts of the article, in various formats.

Downloads (link to download the article as PDF)

Open citations (links to open the citations from this article in various online reference manager services)

Cite this article (links to download the citations from this article in formats compatible with various reference manager tools)

  1. Juan Wu
  2. Dongna Chen
  3. Hui Huang
  4. Ning Luo
  5. Huishuang Chen
  6. Junjie Zhao
  7. Yanyan Wang
  8. Tian Zhao
  9. Siyuan Huang
  10. Yang Ren
  11. Teng Zhai
  12. Weibin Sun
  13. Houxuan Li
  14. Wei Li
(2022)
A novel gene ZNF862 causes hereditary gingival fibromatosis
eLife 11:e66646.
https://doi.org/10.7554/eLife.66646

Share this article

https://doi.org/10.7554/eLife.66646

Further reading

    1. Genetics and Genomics
    Thomas E Forman, Marcin P Sajek ... Katherine A Fantauzzo
    Research Article

    Signaling through the platelet-derived growth factor receptor alpha (PDGFRα) plays a critical role in craniofacial development. Phosphatidylinositol 3-kinase (PI3K)/Akt is the primary effector of PDGFRα signaling during mouse skeletal development. We previously demonstrated that Akt phosphorylates the RNA-binding protein serine/arginine-rich splicing factor 3 (Srsf3) downstream of PI3K-mediated PDGFRα signaling in mouse embryonic palatal mesenchyme (MEPM) cells, leading to its nuclear translocation. We further showed that ablation of Srsf3 in the murine neural crest lineage results in severe midline facial clefting and widespread alternative RNA splicing (AS) changes. Here, we demonstrated via enhanced UV-crosslinking and immunoprecipitation of MEPM cells that PDGF-AA stimulation leads to preferential binding of Srsf3 to exons and loss of binding to canonical Srsf3 CA-rich motifs. Through the analysis of complementary RNA-seq data, we showed that Srsf3 activity results in the preferential inclusion of exons with increased GC content and lower intron to exon length ratio. We found that Srsf3 activity downstream of PDGFRα signaling leads to retention of the receptor in early endosomes and increases in downstream PI3K-mediated Akt signaling. Taken together, our findings reveal that growth factor-mediated phosphorylation of an RNA-binding protein underlies gene expression regulation necessary for mammalian craniofacial development.

    1. Genetics and Genomics
    Nasa Sinnott-Armstrong, Stanley Fields ... Christine Queitsch
    Review Article

    Over the last three decades, human genetics has gone from dissecting high-penetrance Mendelian diseases to discovering the vast and complex genetic etiology of common human diseases. In tackling this complexity, scientists have discovered the importance of numerous genetic processes – most notably functional regulatory elements – in the development and progression of these diseases. Simultaneously, scientists have increasingly used multiplex assays of variant effect to systematically phenotype the cellular consequences of millions of genetic variants. In this article, we argue that the context of genetic variants – at all scales, from other genetic variants and gene regulation to cell biology to organismal environment – are critical components of how we can employ genomics to interpret these variants, and ultimately treat these diseases. We describe approaches to extend existing experimental assays and computational approaches to examine and quantify the importance of this context, including through causal analytic approaches. Having a unified understanding of the molecular, physiological, and environmental processes governing the interpretation of genetic variants is sorely needed for the field, and this perspective argues for feasible approaches by which the combined interpretation of cellular, animal, and epidemiological data can yield that knowledge.