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Series GSE119629 Query DataSets for GSE119629
Status Public on Sep 10, 2018
Title Nuclear transcriptomes of the seven neuronal cell types that constitute the Drosophila mushroom bodies
Organism Drosophila melanogaster
Experiment type Expression profiling by high throughput sequencing
Summary The insect mushroom body (MB) is a conserved central brain structure that receives multi-modal inputs and plays key roles in a diverse array of behaviors. In Drosophila melanogaster, the MB has served as the primary invertebrate model to investigate how neural circuits underlie plasticity related to memory formation and storage. A vast literature describes the development, morphology, wiring, and function of each of the MB cell types as well as their inputs and outputs. MBs consist of approximately 2000 intrinsic Kenyon Cells per hemisphere that are divided into three major neuron classes — γ, α′/β′ and α/β — based on their birth order, morphology and connectivity. These classes are further sub-divided into 7 cell subtypes — γd, γm, α′/β′ap, α′/β′m, α/βp, α/βs and α/βc. A wealth of functional studies demonstrate that these 7 MB cell subtypes connect to different input and output neurons and play distinct roles in memory processing. The functional differences between these cell subtypes are presumably reflected in unique transcriptional programs, although this has not been investigated. Here, we used RNA sequencing (RNA-seq) to profile the nuclear transcriptomes of each of the 7 MB neuronal cell subtypes. We identified 350 MB class- or subtype-specific genes. These include the widely used α/β class marker Fas2 and the α′/β′ class marker trio. Immunostaining data corroborates the RNA-seq measurements at the protein level for several cases. Importantly, our data provide a full accounting of the neurotransmitter receptors, transporters, neurotransmitter biosynthetic enzymes, neuropeptides, and neuropeptide receptors expressed within each of these cell types. This high-quality, cell type-level transcriptomic catalog for the Drosophila MB provides a valuable resource for the fly neuroscience community.
 
Overall design 14 nuclear RNA-seq samples prepared from biological duplicates of seven Kenyon cell subtypes using the TAPIN protocol.
 
Contributor(s) Shih MM, Davis FP, Henry GL, Dubnau J
Citation(s) 30397017
Submission date Sep 07, 2018
Last update date Dec 30, 2018
Contact name Fred P. Davis
E-mail Fred.davis@nih.gov
Organization name NIH
Department NIAMS
Street address 9000 Rockville Pike
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
 
Platforms (1)
GPL17275 Illumina HiSeq 2500 (Drosophila melanogaster)
Samples (14)
GSM3379587 MB185_rep1
GSM3379588 MB185_rep2
GSM3379589 MB594_rep1
Relations
BioProject PRJNA489789
SRA SRP160109

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE119629_README_tables.txt 671 b (ftp)(http) TXT
GSE119629_table1_transcript_x_sample.txt.gz 948.2 Kb (ftp)(http) TXT
GSE119629_table2_gene_x_sample.txt.gz 418.5 Kb (ftp)(http) TXT
GSE119629_table3_gene_x_subtype.txt.gz 271.6 Kb (ftp)(http) TXT
GSE119629_table4_gene_x_class.txt.gz 175.5 Kb (ftp)(http) TXT
Raw data are available in SRA
Processed data are available on Series record

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