Project - PRJNA390607 - Gene Expression Nebulas

A data portal of transcriptomic profiles analyzed by a unified pipeline across multiple species

A data portal of transcriptome profiles across multiple species

PRJNA390607: Classifying Drosophila Olfactory Projection Neuron Subtypes by Single-cell RNA Sequencing

Submission Date: Jun 15 2017

Release Date: Oct 21 2017

Update Date: May 15 2019

Summary: How a neuronal cell type is defined and how this relates to its transcriptome are still open questions. The Drosophila olfactory projection neurons (PNs) are among the bestcharacterized neuronal types: Different PN classes target dendrites to distinct olfactory glomeruli and PNs of the same class exhibit indistinguishable anatomical and physiological properties. Using single-cell RNA-sequencing, we comprehensively characterized the transcriptomes of 40 PN classes and unequivocally identified transcriptomes for 6 classes. We found a new lineage-specific transcription factor that instructs PN dendrite targeting. Transcriptomes of closely-related PN classes exhibit the largest difference during circuit assembly, but become indistinguishable in adults, suggesting that neuronal subtype diversity peaks during development. Genes encoding transcription factors and cell-surface molecules are the most differentially expressed, indicating their central roles in specifying neuronal identity. Finally, we show that PNs use highly redundant combinatorial molecular codes to distinguish subtypes, enabling robust specification of cell identity and circuit assembly.

Overall Design: Single-cell RNA-seq

GEN Datasets:

GEND000065

Strategy:	scRNA Smart-seq2
Species:	Drosophila melanogaster
Healthy Condition:	Normal
Cell Type:	Astrocyte Neuron Olfactory Projection Neuron Olfactory Projection Neuron Innervating DA1 VA1d or DC3 Glomerulus Olfactory Projection Neuron Innervating VM2 Glomerulus Olfactory Projection Neuron Innvervating DC2 Glomerulus

Protocol

Growth Protocol:	-
Treatment Protocol:	-
Extract Protocol:	Modified SMART-seq2 (Li et al. 2017)
Library Construction Protocol:	-

Sequencing

Molecule Type:	poly(A)+ RNA
Library Source:
Library Layout:	PAIRED
Library Strand:	-
Platform:	ILLUMINA
Instrument Model:	Illumina NextSeq 550
Strand-Specific:	-

Samples

Biological Condition:

Disease

Disease State

Development Stage

Mutation

Phenotype

Experimental Variables:

Case Detail

Control Detail

Protocol:

Growth Protocol

Treatment Protocol

Extract Protocol

Library Construction Protocol

Molecule Type

Library Layout

Strand-Specific

Library Strand

Spike-in

Sequencing:

Strategy

Platform

Instrument Model

Assessing Quality:

Cell Number

Reads Number

Gbases

AvgSpotLen1

AvgSpotLen2

Unique-Mapping Rate

Multi-Mapping Rate

Coverage Rate

Analysis:

Reference Genome

Genome Annotation

Data Processing

Data Resource	GEN Sample ID	GEN Dataset ID	Project ID	BioProject ID	Sample ID	Sample Name	BioSample ID	Sample Accession	Experiment Accession	Release Date	Submission Date	Update Date	Species	Race	Ethnicity	Age	Age Unit	Gender	Source Name	Tissue	Cell Type	Cell Subtype	Cell Line	Disease	Disease State	Development Stage	Mutation	Phenotype	Case Detail	Control Detail	Growth Protocol	Treatment Protocol	Extract Protocol	Library Construction Protocol	Molecule Type	Library Layout	Strand-Specific	Library Strand	Spike-In	Strategy	Platform	Instrument Model	Cell Number	Reads Number	Gbases	AvgSpotLen1	AvgSpotLen2	Uniq Mapping Rate	Multiple Mapping Rate	Coverage Rate

Publications

Classifying Drosophila Olfactory Projection Neuron Subtypes by Single-Cell RNA Sequencing.

Cell . 2017-11-01 [PMID: 29149607]