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| Status |
Public on Aug 01, 2021 |
| Title |
Temporal profile of brain gene expression associated with learning in an anuran amphibian II |
| Organism |
Bombina orientalis |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Reported here are the transcriptomic changes resulting from extinction learning, in the brain of an anuran amphibian. RNA sequencing was utilized to investigate gene expression patterns resulting from conditioned learning in the fire-bellied toad, Bombina orientalis. As a basal tetrapod lineage, B. orientalis represents a robust candidate for investigating the evolution of molecular mechanisms underlying learning in vertebrates. The gene expression patterns associated with extinction learning in this species shared similarities with to those found in mammals submitted to extinction, but interesting divergent profiles highlighted potential differences in the mechanisms of learning and memory among tetrapods.
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| Overall design |
Experiment consisted of four treatments with three replicates each. Treatments represent training type (Short vs. Long) and post-training sacrifice timing (2 hours & 24 hours; n=12). For the resulting trancriptome assembly, these 12 samples were combined with the 2h & 24h (n=6) datasets from our previous RNA-seq exeriment. GEO submission: GSE135054.
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| Contributor(s) |
Lewis V, Laberge F, Heyland A |
| Citation(s) |
34391934 |
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| Submission date |
Apr 09, 2021 |
| Last update date |
Aug 19, 2021 |
| Contact name |
Vern Lewis |
| E-mail(s) |
vernlewis@cunet.carleton.ca
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| Organization name |
Carleton University
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| Department |
Neuroscience
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| Lab |
Dr. Argel Aguilar-Valles
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| Street address |
1125 Colonel By Drive
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| City |
Ottawa |
| State/province |
Ontario |
| ZIP/Postal code |
k1s5b6 |
| Country |
Canada |
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| Platforms (1) |
| GPL26992 |
Illumina HiSeq 2500 (Bombina orientalis) |
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| Samples (18)
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| GSM5233624 |
24 hour rep 1 |
| GSM5233625 |
24 hour rep 2 |
| GSM5233626 |
24 hour rep 3 |
| GSM5233627 |
Short trained 2h, Rep 1 |
| GSM5233628 |
Short trained 2h, Rep 2 |
| GSM5233629 |
Short trained 2h, Rep 3 |
| GSM5233630 |
Short trained 24h, Rep 1 |
| GSM5233631 |
Short trained 24h, Rep 2 |
| GSM5233632 |
Short trained 24h, Rep 3 |
| GSM5233633 |
Long trained 2h, Rep 1 |
| GSM5233634 |
Long trained 2h, Rep 2 |
| GSM5233635 |
Long trained 2h, Rep 3 |
| GSM5233636 |
Long trained 24h, Rep 1 |
| GSM5233637 |
Long trained 24h, Rep 2 |
| GSM5233638 |
Long trained 24h, Rep 3 |
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| Relations |
| BioProject |
PRJNA720847 |
| SRA |
SRP314199 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE171766_Exintion_VS_Acquisition_Analysis.csv.gz |
130.4 Kb |
(ftp)(http) |
CSV |
| GSE171766_Ext_vs_Acq_24h_DESeq2.csv.gz |
4.4 Mb |
(ftp)(http) |
CSV |
| GSE171766_Ext_vs_Acq_2h_DESeq2.csv.gz |
4.3 Mb |
(ftp)(http) |
CSV |
| GSE171766_Long-trained_VS_Short-trained_Analysis.csv.gz |
632.4 Kb |
(ftp)(http) |
CSV |
| GSE171766_Long_vs_Short_24h_DESeq2.csv.gz |
8.1 Mb |
(ftp)(http) |
CSV |
| GSE171766_Long_vs_Short_2h_DESeq2.csv.gz |
8.1 Mb |
(ftp)(http) |
CSV |
| GSE171766_Transcriptome_Assembly.fasta.gz |
371.3 Mb |
(ftp)(http) |
FASTA |
| GSE171766_trinotate_annotation_report.xls.csv.gz |
18.8 Mb |
(ftp)(http) |
CSV |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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