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28 results for “olfactory receptor genes”
Data from: Does the number of functional olfactory receptor genes predict olfactory sensitivity and discrimination performance in mammals?
<p>The number of functional genes coding for olfactory receptors differs markedly between species and has repeatedly been suggested to be predictive of a species' olfactory capabilities. To test this assumption, we compiled a database of all published olfactory detection threshold values in mammals and used three sets of data on olfactory discrimination performance that employed the same structurally related monomolecular odor pairs with different mammal species. We extracted the number of functional olfactory receptor genes of the 20 mammal species for which we found data on olfactory sensitivity and/or olfactory discrimination performance from the Chordata Olfactory Receptor Database. We found that the overall olfactory detection thresholds significantly correlates with the number of functional olfactory receptor genes. Similarly, the overall proportion of successfully discriminated monomolecular odor pairs significantly correlates with the number of functional olfactory receptor genes. These results provide the first statistically robust evidence for the relation between olfactory capabilities and their genomics correlates. However, when analysed individually, of the 44 monomolecular odorants for which data on olfactory sensitivity from at least five mammal species are available, only five yielded a significant correlation between olfactory detection thresholds and the number of functional olfactory receptors genes. Also, for the olfactory discrimination performance, no significant correlation was found for any of the 74 relationships between the proportion of successfully discriminated monomolecular odor pairs and the number of functional olfactory receptor genes. While only a rather limited amount of data on olfactory detection thresholds and olfactory discrimination scores in a rather limited number of mammal species is available so far, we conclude that the number of functional olfactory receptor genes may be a predictor of olfactory sensitivity and discrimination performance in mammals.</p>
Data from: Olfaction written in bone: cribriform plate size parallels olfactory receptor gene repertoires in Mammalia
The evolution of mammalian olfaction is manifested in a remarkable diversity of gene repertoires, neuroanatomy, and skull morphology across living species. Olfactory receptor genes (ORG), which initiate the conversion of odorant molecules into odor perceptions and help an animal resolve the olfactory world, range in number from a mere handful to several thousand genes across species. Within the snout, each of these ORGs is exclusively expressed by a discrete population of olfactory sensory neurons (OSN), suggesting that newly evolved ORGs may be coupled with new OSN populations in the nasal epithelium. Because OSNs axon bundles leave high-fidelity perforations (foramina) in the bone as they traverse the cribriform plate (CP) to reach the brain, we predicted that taxa with larger ORG repertoires would have proportionately expanded footprints in the CP foramina. Previous work found a correlation between ORG number and absolute CP size that disappeared when body size effects were accounted for. Using updated, digital measurement data from high-resolution CT scans and reexamining the relationship between CP and body size, we report a striking linear correlation between relative CP area and number of functional ORGs across species from all mammalian superorders. This correlation suggests strong developmental links in the olfactory pathway between genes, neurons, and skull morphology. Furthermore, because ORG number is linked to olfactory discriminatory function, this correlation supports relative CP size as a viable metric for inferring olfactory capacity across modern and extinct species. By quantifying CP area from a fossil sabertooth cat (Smilodon fatalis) we predicted a likely ORG repertoire for this extinct felid.
Olfactory receptor alignments for: Ecological constraints on highly evolvable olfactory receptor genes and morphology in neotropical bats
<p>While evolvability of genes and traits may promote specialization during species diversification, how ecology subsequently restricts such variation remains unclear. Chemosensation requires animals to decipher a complex chemical background to locate fitness-related resources, and thus the underlying genomic architecture and morphology must cope with constant exposure to a changing odorant landscape; detecting adaptation amidst extensive chemosensory diversity is an open challenge. In phyllostomid bats, an ecologically diverse clade that evolved plant-visiting from an insectivorous ancestor, the evolution of novel food detection mechanisms is suggested to be a key innovation, as plant-visiting species rely strongly on olfaction, supplementarily using echolocation. If this is true, exceptional variation in underlying olfactory genes and phenotypes may have preceded dietary diversification. We compared olfactory receptor (OR) genes sequenced from olfactory epithelium transcriptomes and olfactory epithelium surface area of bats with differing diets. Surprisingly, although OR evolution rates were quite variable and generally high, they are largely independent of diet. Olfactory epithelial surface area, however, is relatively larger in plant-visiting bats and there is an inverse relationship between OR evolution rates and surface area. Relatively larger surface areas suggest greater reliance on olfactory detection and stronger constraint on maintaining an already diverse OR repertoire. Instead of the typical case in which specialization and elaboration are coupled with rapid diversification of associated genes, here the relevant genes are already evolving so quickly that increased reliance on smell has led to stabilizing selection, presumably to maintain the ability to consistently discriminate among specific odorants — a potential ecological constraint on sensory evolution.</p>
Data from: Olfaction written in bone: cribriform plate size parallels olfactory receptor gene repertoires in Mammalia
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Data from: Does the number of functional olfactory receptor genes predict olfactory sensitivity and discrimination performance in mammals?
Open the record for dataset details and reuse information.
Olfactory receptor alignments for: Ecological constraints on highly evolvable olfactory receptor genes and morphology in neotropical bats
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GMPipe: A gene mining pipeline for identifying olfactory receptor repertoires and other multicopy gene families from genomes
<p>This repository contains the code and tutorial for the GMPipe algorithm. GMPipe is a gene mining pipeline designed to maximize the identification of multicopy gene family homologs in genome assemblies (for intronless genes) or lists of protein sequences. GMPipe has been validated for mining olfactory receptor genes from vertebrate genomes. This algorithm uses custom ingroup and outgroup sequence lists to distinguish between members of a gene family of interest from close off-target relatives. Overall, GMPipe uses HMMER as an initial screening step, paired with phylogenetic clustering to test whether passing sequences are more closly related to "ingroup" than "outgroup" sequences. The result is a pipeline with a low false negative rate, with minimal impact on the false positive rate, especially when paired with additional family-specific filtering steps.</p>
Olfactory receptor genes expression in Tuta absoluta: A pathway to targeted control strategies
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Evolutionary Process Underlying Receptor Gene Expansion and Cellular Divergence of Olfactory Sensory Neurons in Honeybees. [scATAC-Seq]
GEO Series GSE248096. Apis mellifera. 3 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Lamin b receptor regulates nuclear architecture and gene expression in olfactory neurons
GEO Series GSE38488. Mus musculus. 1 samples. Type: Genome binding/occupancy profiling by genome tiling array.
Silencing of odorant receptor gene expression by G protein βγ signaling ensures the expression of one odorant receptor per olfactory sensory neuron
GEO Series GSE53334. Danio rerio. 6 samples. Type: Expression profiling by high throughput sequencing.
Simultaneous single-cell three-dimensional genome and gene expression profiling Uncovers Dynamic Enhancer Connectivity Underlying Olfactory Receptor Choice [cell line, single-cell RNA-Seq & Hi-C]
GEO Series GSE240114. Homo sapiens. 778 samples. Type: Expression profiling by high throughput sequencing; Other.
changes in olfactory receptor gene expression in Colorado potato beetles
GEO Series GSE235447. Leptinotarsa decemlineata. 6 samples. Type: Expression profiling by high throughput sequencing.
Simultaneous single-cell three-dimensional genome and gene expression profiling Uncovers Dynamic Enhancer Connectivity Underlying Olfactory Receptor Choice [scATAC-Seq, scRNA-seq]
GEO Series GSE239876. Mus musculus. 143 samples. Type: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing.
Upregulation of olfactory receptors and neuronal-associated genes highlights complex immune and neuronal dysregulation in Long COVID patients
GEO Series GSE270045. Homo sapiens. 36 samples. Type: Expression profiling by high throughput sequencing.
Simultaneous single-cell three-dimensional genome and gene expression profiling Uncovers Dynamic Enhancer Connectivity Underlying Olfactory Receptor Choice [olfactory, single-cell RNA & Hi-C]
GEO Series GSE239969. Mus musculus. 822 samples. Type: Expression profiling by high throughput sequencing; Other.
High-throughput mapping of he promoters of the mouse olfactory receptor genes reveals a new type of mammalian promoters
GEO Series GSE26373. Mus musculus. 3 samples. Type: Other.
Simultaneous single-cell three-dimensional genome and gene expression profiling uncovers dynamic enhancer connectivity underlying olfactory receptor choice
GEO Series GSE240128. Mus musculus; Homo sapiens. 1743 samples. Type: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing; Other.
Evolutionary Process Underlying Receptor Gene Expansion and Cellular Divergence of Olfactory Sensory Neurons in Honeybees
GEO Series GSE248097. Apis mellifera. 6 samples. Type: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing.
Assessment of olfactory receptor gene evolution in baleen whales
<p>Olfactory receptor genes were mined from whales and terrestrial outgroup species. Dataset includes Whale and outgroup OR nucleotide fasta files, as well as a table containing orthogroup trees in newick format, newick tree containing all baleen whale OR genes (which was used for orthogroup identification), OR family trees, code to reproduce the main findings, and orthogroup tree images.</p> <p> </p>
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.