Go to The Journal of Clinical Investigation
  • About
  • Editors
  • Consulting Editors
  • For authors
  • Publication ethics
  • Publication alerts by email
  • Transfers
  • Advertising
  • Job board
  • Contact
  • Physician-Scientist Development
  • Current issue
  • Past issues
  • By specialty
    • COVID-19
    • Cardiology
    • Immunology
    • Metabolism
    • Nephrology
    • Oncology
    • Pulmonology
    • All ...
  • Videos
  • Collections
    • In-Press Preview
    • Resource and Technical Advances
    • Clinical Research and Public Health
    • Research Letters
    • Editorials
    • Perspectives
    • Physician-Scientist Development
    • Reviews
    • Top read articles

  • Current issue
  • Past issues
  • Specialties
  • In-Press Preview
  • Resource and Technical Advances
  • Clinical Research and Public Health
  • Research Letters
  • Editorials
  • Perspectives
  • Physician-Scientist Development
  • Reviews
  • Top read articles
  • About
  • Editors
  • Consulting Editors
  • For authors
  • Publication ethics
  • Publication alerts by email
  • Transfers
  • Advertising
  • Job board
  • Contact
Chromatin profiling identifies chondrocyte-specific Sox9 enhancers important for skeletal development
Sachi Ichiyama-Kobayashi, Kenji Hata, Kanta Wakamori, Yoshifumi Takahata, Tomohiko Murakami, Hitomi Yamanaka, Hiroshi Takano, Ryoji Yao, Narikazu Uzawa, Riko Nishimura
Sachi Ichiyama-Kobayashi, Kenji Hata, Kanta Wakamori, Yoshifumi Takahata, Tomohiko Murakami, Hitomi Yamanaka, Hiroshi Takano, Ryoji Yao, Narikazu Uzawa, Riko Nishimura
View: Text | PDF
Research Article Bone biology

Chromatin profiling identifies chondrocyte-specific Sox9 enhancers important for skeletal development

  • Text
  • PDF
Abstract

The transcription factor SRY-related HMG box 9 (Sox9) is essential for chondrogenesis. Mutations in and around SOX9 cause campomelic dysplasia (CD) characterized by skeletal malformations. Although the function of Sox9 in this context is well studied, the mechanisms that regulate Sox9 expression in chondrocytes remain to be elucidated. Here, we have used genome-wide profiling to identify 2 Sox9 enhancers located in a proximal breakpoint cluster responsible for CD. Enhancer activity of E308 (located 308 kb 5′ upstream) and E160 (located 160 kb 5′ upstream) correlated with Sox9 expression levels, and both enhancers showed a synergistic effect in vitro. While single deletions in mice had no apparent effect, simultaneous deletion of both E308 and E160 caused a dwarf phenotype, concomitant with a reduction of Sox9 expression in chondrocytes. Moreover, bone morphogenetic protein 2–dependent chondrocyte differentiation of limb bud mesenchymal cells was severely attenuated in E308/E160 deletion mice. Finally, we found that an open chromatin region upstream of the Sox9 gene was reorganized in the E308/E160 deletion mice to partially compensate for the loss of E308 and E160. In conclusion, our findings reveal a mechanism of Sox9 gene regulation in chondrocytes that might aid in our understanding of the pathophysiology of skeletal disorders.

Authors

Sachi Ichiyama-Kobayashi, Kenji Hata, Kanta Wakamori, Yoshifumi Takahata, Tomohiko Murakami, Hitomi Yamanaka, Hiroshi Takano, Ryoji Yao, Narikazu Uzawa, Riko Nishimura

×

Figure 1

Genome-wide profiling of open chromatin regions and active enhancer in primary chondrocytes.

Options: View larger image (or click on image) Download as PowerPoint
Genome-wide profiling of open chromatin regions and active enhancer in p...
(A) Strategy for the genome-wide analysis of primary rib chondrocytes isolated from newborn mice. Primary dermal fibroblasts are used as negative control in the ChIP-Seq analysis. H3K27ac, H3K27 acetylation; H3K4me2, H3K4 dimethylation. (B) Total RNA was isolated from primary chondrocytes and dermal fibroblasts and analyzed by RT-qPCR for Sox9, Col2a1, Acan, and Col1a1. Data are shown as the mean ± SD (n = 3, biologically independent samples). **P < 0.01 (vs. Cho); unpaired Student’s t test. Cho, chondrocytes; DF, dermal fibroblasts. (C) ATAC-Seq and ChIP-Seq profiles for H3K27ac and H3K4me2 in primary chondrocytes and dermal fibroblasts for Col2a1, Acan, Sox9, Col1a1, and Actb. (D) Venn diagrams showing the numbers and overlap of ATAC-Seq and ChIP-Seq peaks in primary chondrocytes and primary dermal fibroblasts.

Copyright © 2026 American Society for Clinical Investigation
ISSN 2379-3708

Sign up for email alerts