Promoter architecture of mouse olfactory receptor genes

Charles Plessy, Giovanni Pascarella, Nicolas Bertin, Altuna Akalin, Claudia Carrieri, Anne Vassalli, Dejan Lazarevic, Jessica Severin, Christina Vlachouli, Roberto Simone, Geoffrey J. Faulkner, Jun Kawai, Carsten O. Daub, Silvia Zucchelli, Yoshihide Hayashizaki, Peter Mombaerts, Boris Lenhard, Stefano Gustincich, Piero Carninci

Research output: Contribution to journalArticle

37 Citations (Scopus)

Abstract

Odorous chemicals are detected by the mouse main olfactory epithelium (MOE) by about 1100 types of olfactory receptors (OR) expressed by olfactory sensory neurons (OSNs). Each mature OSN is thought to express only one allele of a single OR gene. Major impediments to understand the transcriptional control of OR gene expression are the lack of a proper characterization of OR transcription start sites (TSSs) and promoters, and of regulatory transcripts at OR loci. We have applied the nanoCAGE technology to profile the transcriptome and the active promoters in the MOE. nanoCAGE analysis revealed the map and architecture of promoters for 87.5% of the mouse OR genes, as well as the expression of many novel noncoding RNAs including antisense transcripts. We identified candidate transcription factors for OR gene expression and among them confirmed by chromatin immunoprecipitation the binding of TBP, EBF1 (OLF1), and MEF2A to OR promoters. Finally, we showed that a short genomic fragment flanking the major TSS of the OR gene Olfr160 (M72) can drive OSN-specific expression in transgenic mice.

Original languageEnglish
Pages (from-to)486-497
Number of pages12
JournalGenome Research
Volume22
Issue number3
DOIs
Publication statusPublished - Mar 2012

Fingerprint

Odorant Receptors
Olfactory Receptor Neurons
Genes
Olfactory Mucosa
Transcription Initiation Site
Gene Expression
Untranslated RNA
Chromatin Immunoprecipitation
Transcriptome
Transgenic Mice
Transcription Factors
Alleles
Technology

ASJC Scopus subject areas

  • Genetics
  • Genetics(clinical)

Cite this

Plessy, C., Pascarella, G., Bertin, N., Akalin, A., Carrieri, C., Vassalli, A., ... Carninci, P. (2012). Promoter architecture of mouse olfactory receptor genes. Genome Research, 22(3), 486-497. https://doi.org/10.1101/gr.126201.111

Promoter architecture of mouse olfactory receptor genes. / Plessy, Charles; Pascarella, Giovanni; Bertin, Nicolas; Akalin, Altuna; Carrieri, Claudia; Vassalli, Anne; Lazarevic, Dejan; Severin, Jessica; Vlachouli, Christina; Simone, Roberto; Faulkner, Geoffrey J.; Kawai, Jun; Daub, Carsten O.; Zucchelli, Silvia; Hayashizaki, Yoshihide; Mombaerts, Peter; Lenhard, Boris; Gustincich, Stefano; Carninci, Piero.

In: Genome Research, Vol. 22, No. 3, 03.2012, p. 486-497.

Research output: Contribution to journalArticle

Plessy, C, Pascarella, G, Bertin, N, Akalin, A, Carrieri, C, Vassalli, A, Lazarevic, D, Severin, J, Vlachouli, C, Simone, R, Faulkner, GJ, Kawai, J, Daub, CO, Zucchelli, S, Hayashizaki, Y, Mombaerts, P, Lenhard, B, Gustincich, S & Carninci, P 2012, 'Promoter architecture of mouse olfactory receptor genes', Genome Research, vol. 22, no. 3, pp. 486-497. https://doi.org/10.1101/gr.126201.111
Plessy C, Pascarella G, Bertin N, Akalin A, Carrieri C, Vassalli A et al. Promoter architecture of mouse olfactory receptor genes. Genome Research. 2012 Mar;22(3):486-497. https://doi.org/10.1101/gr.126201.111
Plessy, Charles ; Pascarella, Giovanni ; Bertin, Nicolas ; Akalin, Altuna ; Carrieri, Claudia ; Vassalli, Anne ; Lazarevic, Dejan ; Severin, Jessica ; Vlachouli, Christina ; Simone, Roberto ; Faulkner, Geoffrey J. ; Kawai, Jun ; Daub, Carsten O. ; Zucchelli, Silvia ; Hayashizaki, Yoshihide ; Mombaerts, Peter ; Lenhard, Boris ; Gustincich, Stefano ; Carninci, Piero. / Promoter architecture of mouse olfactory receptor genes. In: Genome Research. 2012 ; Vol. 22, No. 3. pp. 486-497.
@article{c956805c07f04f6898dd27d9362f5ef6,
title = "Promoter architecture of mouse olfactory receptor genes",
abstract = "Odorous chemicals are detected by the mouse main olfactory epithelium (MOE) by about 1100 types of olfactory receptors (OR) expressed by olfactory sensory neurons (OSNs). Each mature OSN is thought to express only one allele of a single OR gene. Major impediments to understand the transcriptional control of OR gene expression are the lack of a proper characterization of OR transcription start sites (TSSs) and promoters, and of regulatory transcripts at OR loci. We have applied the nanoCAGE technology to profile the transcriptome and the active promoters in the MOE. nanoCAGE analysis revealed the map and architecture of promoters for 87.5{\%} of the mouse OR genes, as well as the expression of many novel noncoding RNAs including antisense transcripts. We identified candidate transcription factors for OR gene expression and among them confirmed by chromatin immunoprecipitation the binding of TBP, EBF1 (OLF1), and MEF2A to OR promoters. Finally, we showed that a short genomic fragment flanking the major TSS of the OR gene Olfr160 (M72) can drive OSN-specific expression in transgenic mice.",
author = "Charles Plessy and Giovanni Pascarella and Nicolas Bertin and Altuna Akalin and Claudia Carrieri and Anne Vassalli and Dejan Lazarevic and Jessica Severin and Christina Vlachouli and Roberto Simone and Faulkner, {Geoffrey J.} and Jun Kawai and Daub, {Carsten O.} and Silvia Zucchelli and Yoshihide Hayashizaki and Peter Mombaerts and Boris Lenhard and Stefano Gustincich and Piero Carninci",
year = "2012",
month = "3",
doi = "10.1101/gr.126201.111",
language = "English",
volume = "22",
pages = "486--497",
journal = "Genome Research",
issn = "1088-9051",
publisher = "Cold Spring Harbor Laboratory Press",
number = "3",

}

TY - JOUR

T1 - Promoter architecture of mouse olfactory receptor genes

AU - Plessy, Charles

AU - Pascarella, Giovanni

AU - Bertin, Nicolas

AU - Akalin, Altuna

AU - Carrieri, Claudia

AU - Vassalli, Anne

AU - Lazarevic, Dejan

AU - Severin, Jessica

AU - Vlachouli, Christina

AU - Simone, Roberto

AU - Faulkner, Geoffrey J.

AU - Kawai, Jun

AU - Daub, Carsten O.

AU - Zucchelli, Silvia

AU - Hayashizaki, Yoshihide

AU - Mombaerts, Peter

AU - Lenhard, Boris

AU - Gustincich, Stefano

AU - Carninci, Piero

PY - 2012/3

Y1 - 2012/3

N2 - Odorous chemicals are detected by the mouse main olfactory epithelium (MOE) by about 1100 types of olfactory receptors (OR) expressed by olfactory sensory neurons (OSNs). Each mature OSN is thought to express only one allele of a single OR gene. Major impediments to understand the transcriptional control of OR gene expression are the lack of a proper characterization of OR transcription start sites (TSSs) and promoters, and of regulatory transcripts at OR loci. We have applied the nanoCAGE technology to profile the transcriptome and the active promoters in the MOE. nanoCAGE analysis revealed the map and architecture of promoters for 87.5% of the mouse OR genes, as well as the expression of many novel noncoding RNAs including antisense transcripts. We identified candidate transcription factors for OR gene expression and among them confirmed by chromatin immunoprecipitation the binding of TBP, EBF1 (OLF1), and MEF2A to OR promoters. Finally, we showed that a short genomic fragment flanking the major TSS of the OR gene Olfr160 (M72) can drive OSN-specific expression in transgenic mice.

AB - Odorous chemicals are detected by the mouse main olfactory epithelium (MOE) by about 1100 types of olfactory receptors (OR) expressed by olfactory sensory neurons (OSNs). Each mature OSN is thought to express only one allele of a single OR gene. Major impediments to understand the transcriptional control of OR gene expression are the lack of a proper characterization of OR transcription start sites (TSSs) and promoters, and of regulatory transcripts at OR loci. We have applied the nanoCAGE technology to profile the transcriptome and the active promoters in the MOE. nanoCAGE analysis revealed the map and architecture of promoters for 87.5% of the mouse OR genes, as well as the expression of many novel noncoding RNAs including antisense transcripts. We identified candidate transcription factors for OR gene expression and among them confirmed by chromatin immunoprecipitation the binding of TBP, EBF1 (OLF1), and MEF2A to OR promoters. Finally, we showed that a short genomic fragment flanking the major TSS of the OR gene Olfr160 (M72) can drive OSN-specific expression in transgenic mice.

UR - http://www.scopus.com/inward/record.url?scp=84857857538&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84857857538&partnerID=8YFLogxK

U2 - 10.1101/gr.126201.111

DO - 10.1101/gr.126201.111

M3 - Article

C2 - 22194471

AN - SCOPUS:84857857538

VL - 22

SP - 486

EP - 497

JO - Genome Research

JF - Genome Research

SN - 1088-9051

IS - 3

ER -