Evidence map›Paper›PMID 27881681›Full record

ArticleThe Journal of biological chemistry2017

A Novel Regulatory Mechanism of Type II Collagen Expression via a SOX9-dependent Enhancer in Intron 6.

Hideyo Yasuda, Chun-do Oh, Di Chen, Benoit de Crombrugghe, Jin-Hoi Kim

Open access · hybridAbstract read
In one paragraph

Article in The Journal of biological chemistry, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.

0numbers the graph read from it
0cells of the map it votes in
23citing papers in PubMed
1.6field-weighted citation impact, top 16% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

23 citing papers in PubMed, 43 citations in OpenAlex.

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  15. Histone ChIP-Seq identifies differential enhancer usage during chondrogenesis as critical for defining cell-type specificity.FASEB journal : official publication of the Federation of American Societies for Experimental Biology · 2020
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  16. Article
  17. TheJournal of clinical medicine · 2019
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

5 authors at 3 institutions in 2 countries.

Hideyo YasudaFrom the Department of Stem Cell and Regenerative Biology, Konkuk University, Neungdong-Ro, Gwangjin-gu, Seoul 05029, Republic of Korea, h-yasuda@yk9.so-net.ne.jp.
Chun-do Ohthe Department of Genetics, University of Texas MD Anderson Cancer Center, Houston, Texas 77030, and.
Di Chenthe Department of Biochemistry, Rush University Medical Center, Chicago, Illinois 60612-3823.
Benoit de Crombrugghethe Department of Genetics, University of Texas MD Anderson Cancer Center, Houston, Texas 77030, and.
Jin-Hoi KimFrom the Department of Stem Cell and Regenerative Biology, Konkuk University, Neungdong-Ro, Gwangjin-gu, Seoul 05029, Republic of Korea, jhkim541@konkuk.ac.kr.
Konkuk University · KRThe University of Texas MD Anderson Cancer Center · USRush University Medical Center · US

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Type II collagen α1 is specific for cartilaginous tissues, and mutations in its gene are associated with skeletal diseases. Its expression has been shown to be dependent on SOX9, a master transcription factor required for chondrogenesis that binds to an enhancer region in intron 1. However, ChIP sequencing revealed that SOX9 does not strongly bind to intron 1, but rather it binds to intron 6 and a site 30 kb upstream of the transcription start site. Here, we aimed to determine the role of the novel SOX9-binding site in intron 6. We prepared reporter constructs that contain a Col2a1 promoter, intron 1 with or without intron 6, and the luciferase gene. Although the reporter constructs were not activated by SOX9 alone, the construct that contained both introns 1 and 6 was activated 5-10-fold by the SOX9/SOX5 or the SOX9/SOX6 combination in transient-transfection assays in 293T cells. This enhancement was also observed in rat chondrosarcoma cells that stably expressed the construct. CRISPR/Cas9-induced deletion of intron 6 in RCS cells revealed that a 10-bp region of intron 6 is necessary both for Col2a1 expression and SOX9 binding. Furthermore, SOX9, but not SOX5, binds to this region as demonstrated in an electrophoretic mobility shift assay, although both SOX9 and SOX5 bind to a larger 325-bp fragment of intron 6 containing this small sequence. These findings suggest a novel mechanism of action of SOX5/6; namely, the SOX9/5/6 combination enhances Col2a1 transcription through a novel enhancer in intron 6 together with the enhancer in intron 1.

Indexed as

AnimalsCell Line, TumorCollagen Type IIEnhancer Elements, GeneticGene Expression RegulationHumansIntronsMiceRatsSOX9 Transcription FactorSOXD Transcription FactorsTranscription, GeneticCOL2A1 protein, humanCol2a1 protein, mouseCOL2A1 protein, ratCollagen Type IISOX5 protein, humanSox5 protein, mouseSOX6 protein, humanSox6 protein, mouseSOX9 protein, humanSox9 protein, mouseSOX9 Transcription FactorSOXD Transcription FactorsChIP-sequencing (ChIP-seq)chondrogenesisextracellular matrix proteingene knockoutSOX5/SOX6SOX9transcription enhancertype II collagen

Identifiers

PMID27881681
PMCPMC5241729
OpenAlexW2552757440

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.