run_metadata: 35385
This data as json
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| 35385 | SRR32649448 | SRX27953870 | SRS24319775 | SRP569567 | PRJNA1234533 | Delta family protocadhins contribute to protoglomerular targeting of olfactory sensory neuron axons in the olfactory bulb | GSE291626 | Transcriptome Analysis | To understand how neural circuits are assembled it is essential to identify and characterize the axonal guidance cues and receptors that determine the axonal trajectories and connections between neurons. We performed single cell RNA sequencing of olfactory sensory neurons from zebrafish to identify candidate axonal guidance related genes that are differentially expressed according to sensory axon target location in the olfactory bulb. Among the candidates we identified were several members of the non clustered delta protocadherin family of adhesion molecules. We found that two members of the delta1 protocadherin family pcdh7b and pcdh11 are most highly expressed in sensory neurons that project to the DZ protoglomerulus. Knocking down either one impairs the ability of sensory axons to terminate within the DZ protoglomerulus but does not affect the ability of other sensory axons from terminating normally in the CZ protoglomerulus. In contrast two members of the delta2 protocadherin family pcdh10b and pcdh17 are most highly expressed in sensory neurons that project to the CZ protoglomerulus. Knocking down pcdh10b induces ectopic terminations of CZ projecting sensory axons. Knocking down pcdh17 induces substantial ectopic axonal trajectories and impairs CZ projecting sensory axons from finding and terminating in the CZ protoglomerulus. Knockdowns of either pcdh10b or pcdh17 do not affect DZ projecting sensory axons. These findings suggest that delta1 protocadherins help DZ projecting sensory axons enter and remain within the DZ protoglomerulus while delta2 protocadherins help CZ projecting sensory axons navigate to the CZ protoglomerulus. Overall design: Roughly 2000 zebrafish embryos we sacraficed at 36 48 hpf and 72 hpf. Olfactory tissue was dissociated in FACSmax dissosciation medium and then FACsorted to isolate OMP:RFP positive neurons. | OMP positive Olfactory Sensory Neurons from 48pf Zebrafish | GSM8838717 | source name:Olfactory Sensory Tissue|tissue:Olfactory Sensory Tissue|cell line:Olactory Sensory Neurons|cell type:Neurons|sample age:48 hpf|genotype:Tgomp:lyn RFP|geo loc name:missing|collection date:missing | OMP positive Olfactory Sensory Neurons from 48pf Zebrafish | Cell Ranger V3.0.1 Assembly: GRCz11 Supplementary files format and content: Demultiplexed 10x Genomics Files. | Olfactory Sensory Tissue | 10X Genomics V3.3 | tissue:Olfactory Sensory Tissue|cell line:Olactory Sensory Neurons|cell type:Neurons|sample age:48 hpf|genotype:Tgomp:lyn RFP | GSM8838717 | GSM8838717: OMP positive Olfactory Sensory Neurons from 48pf Zebrafish; Danio rerio; RNA Seq | GSM8838717 r1 | GSM8838717 | 1 | 10X Genomics V3.3 | RNA-Seq | TRANSCRIPTOMIC SINGLE CELL | cDNA | PAIRED | ILLUMINA | Illumina NovaSeq 6000 | SRP569567 | loader:fastq load.py | 97364_S5_L001_I1_001.fastq.gz 97364_S5_L001_R1_001.fastq.gz 97364_S5_L001_R2_001.fastq.gz | fastq fastq fastq | 7455743360.0 | 57351872.0 | GSM8838717 r1 | 0:8 1:28 2:94 | A:1588619193;C:1118423731;G:1232237797;T:1451670240;N:125007 | 8 | 28 | 94 | 1588619193 | 1118423731 | 1232237797 | 1451670240 | 125007 | SRX27953870 | SRS24319775 | SRA2091725 | Department of Neuroscience, University of Pennsylvania | Department of Neuroscience, University of Pennsylvania | B | usable mapping rate | illumina | novaseq_era | unknown | cdna_unspecified | unknown | sc | single_cell_droplet | 10x | United States | 2025-03-11 | Hatching | Embryo | Brain | Nervous System |