NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE178899 Query DataSets for GSE178899
Status Public on Jun 26, 2021
Title Single-cell analysis identifies a key role for Hhip in murine coronal suture development
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Craniofacial development depends on formation and maintenance of sutures between bones of the skull. In sutures, growth occurs at osteogenic fronts along the edge of each bone and suture mesenchyme separates adjacent bones. We performed single-cell RNA-seq analysis of the embryonic, murine coronal suture. Seven populations at E16.5 and nine at E18.5 comprised the suture mesenchyme, osteogenic cells, and associated populations. Expression of Hhip, an inhibitor of hedgehog (HH) signaling, marked a mesenchymal population distinct from other neurocranial sutures. At E18.5, Hhip-/- coronal osteogenic fronts were closely apposed and HH signaling was increased throughout the depleted suture mesenchyme compared to WT, demonstrating that Hhip is required for normal coronal suture development. Tracing of the neonatal Hhip-expressing population showed that descendant cells persisted in the coronal suture and contributed to calvarial bone growth. Our transcriptomic approach provides a rich resource for insight into normal and abnormal development.
 
Overall design Laser capture microdissection (LCM) was performed on fresh frozen sections of the coronal (C), lambdoid (L), sagittal (S), and frontal (IF) sutures of C57BL/6J mice at embryonic stages E16.5 and E18.5. Five biological replicates of the suture mesenchyme (SM) and osteogenic front regions were obtained from each suture. RNA was isolated from each LCM sample, converted to RNA-Seq libraries, and sequenced on the Illumina HiSeq 2500 platform. For each suture and time point, pairwise comparisons were then performed for each osteogenic front region compared to suture mesenchyme to identify differentially expressed genes between front and mesenchymal regions.
 
Contributor(s) Holmes G, Gonzalez-Reiche AS, Saturne M, Motch Perrine SM, Zhou X, Borges AC, Shewale B, Richtsmeier JT, Zhang B, van Bakel H, Wang Jabs E
Citation(s) 34880220
Submission date Jun 25, 2021
Last update date Jan 10, 2022
Contact name Harm van Bakel
E-mail(s) harm.vanbakel@mssm.edu
Organization name Mount Sinai School of Medicine
Department Genetics and Genomic Sciences
Lab Bakel Lab
Street address One Gustave L. Levy Place, Box 1498
City New York
State/province New York
ZIP/Postal code 10029
Country USA
 
Platforms (2)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (138)
GSM5400477 W6IF1FR frontal osteogenic front of the frontal suture at E16.5, replicate 1
GSM5400478 W6IF1SM suture mesenchyme of the frontal suture at E16.5, replicate 1
GSM5400479 W6IF2FR frontal osteogenic front of the frontal suture at E16.5, replicate 2
Relations
BioProject PRJNA741479
SRA SRP325627

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE178899_RAW.tar 546.6 Mb (http)(custom) TAR (of MTX, TSV, TXT)
GSE178899_front-mesenchyme_log2R-ratios.txt.gz 8.6 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap