The continuous replacement of neurons in the olfactory epithelium provides an advantageous model for investigating neuronal differentiation and maturation. By calculating the relative enrichment of every mRNA detected in samples of mature mouse olfactory sensory neurons (OSNs), immature OSNs, and the residual population of neighboring cell types, and then comparing these ratios against the known expression patterns of >300 genes, enrichment criteria that accurately predicted the OSN expression patterns of nearly all genes were determined. We identified 847 immature OSN-specific and 691 mature OSN-specific genes. The control of gene expression by chromatin modification and transcription factors, and neurite growth, protein transport, RNA processing, cholesterol biosynthesis, and apoptosis via death domain receptors, were overrepresented biological processes in immature OSNs. Ion transport (ion channels), presynaptic functions, and cilia-specific processes were overrepresented in mature OSNs. Processes overrepresented among the genes expressed by all OSNs were protein and ion transport, ER overload response, protein catabolism, and the electron transport chain. To more accurately represent gradations in mRNA abundance and identify all genes expressed in each cell type, classification methods were used to produce probabilities of expression in each cell type for every gene. These probabilities, which identified 9,300 genes expressed in OSNs, were 96% accurate at identifying genes expressed in OSNs and 86% accurate at discriminating genes specific to mature and immature OSNs. This OSN gene database not only predicts the genes responsible for the major biological processes active in OSNs, but also identifies thousands of never before studied genes that support OSN phenotypes.
Digital Object Identifier (DOI)
Grant sponsor: National Institutes of Health; Grant number: DC002736 (to T.Mc.).
This database was compiled from this article and two other articles.
Nickell, Melissa D.; Breheny, Patrick; Stromberg, Arnold J.; and McClintock, Timothy S., "Genomics of Mature and Immature Olfactory Sensory Neurons" (2012). Physiology Faculty Publications. 66.
OSN Gene Database2
NIHMS545532-supplement-Supp_Fig_S1A.pdf (2437 kB)
ISH 352 genes A.pdf
NIHMS545532-supplement-Supp_Fig_S1B.pdf (4428 kB)
ISH 352 genes B.pdf
NIHMS545532-supplement-Supp_Fig_S1C.pdf (2315 kB)
ISH 352 genes C.pdf
NIHMS545532-supplement-Supp_Fig_S1D.pdf (2220 kB)
ISH 352 genes D.pdf
NIHMS545532-supplement-Supp_Fig_S1E.pdf (1943 kB)
ISH 352 genes E.pdf
NIHMS545532-supplement-Supp_Fig_S2.pdf (122 kB)
Heatmap of average differences in estimated P(in) probabilities between genes annotated with the specified Gene Ontology (GO) biological process term and genes lacking the term. Probability differences are separated by cell type category. Only terms with significant (q < 0:05) differences are listed.
NIHMS545532-supplement-Supp_Fig_S3.pdf (91 kB)
Heatmap of average differences in estimated P(in) probabilities between genes annotated with the specified Gene Ontology (GO) cellular compartment term and genes lacking the term. Probability differences are separated by cell type category. Only terms with significant (q < 0:05) differences are listed.
NIHMS545532-supplement-Supp_Fig_S4.pdf (73 kB)
Heatmap of average differences in estimated P(in) probabilities between genes annotated with the specified Gene Ontology (GO) molecular function term and genes lacking the term. Probability differences are separated by cell type category. Only terms with significant (q < 0:05) differences are listed.
NIHMS545532-supplement-Supp_Table_S1.doc (400 kB)
In situ hybridization probe regions.
NIHMS545532-supplement-Supp_Table_S2.doc (38 kB)
Cell type-specific mRNAs used to profile cell body layer depth in the olfactory epithelium.
NIHMS545532-supplement-Supp_Table_S3.doc (726 kB)
Immature OSN-specific genes, ordered by High/Weak ratio.
NIHMS545532-supplement-Supp_Table_S4.doc (585 kB)
Mature OSN-specific genes, ordered by Omp+/- ratio.
NIHMS545532-supplement-Supp_Table_S5.doc (5630 kB)
Gene expressed in both mature and immature OSNs.
NIHMS545532-supplement-Supp_Table_S6.doc (49 kB)
Immature OSN-Specific mRNAs linked to Chromatin Assembly and Remodeling, grouped by function.
NIHMS545532-supplement-Supp_Table_S7.doc (103 kB)
Immature OSN-specific transcription factors.
NIHMS545532-supplement-Supp_Table_S8.doc (42 kB)
Immature OSN-Specific Neuronal Differentiation mRNAs, grouped by function.
NIHMS545532-supplement-Supp_Table_S9.doc (37 kB)
Immature OSN-Specific Sterol Biosynthesis Genes, grouped by function.
NIHMS545532-supplement-Supp_Table_S10.doc (59 kB)
Immature OSN-specific genes linked to RNA processing, grouped by function.
NIHMS545532-supplement-Supp_Table_S11.doc (66 kB)
Mature OSN-Specific Ion Transport mRNAs, grouped by function.
NIHMS545532-supplement-Supp_Table_S12.doc (40 kB)
Mature OSN-Specific Cell-Cell Signaling mRNAs, grouped by function.
NIHMS545532-supplement-Supp_Table_S13.doc (45 kB)
Mature OSN-Specific Cell Projection Organization mRNAs, grouped by function.