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| Status |
Public on Nov 10, 2021 |
| Title |
Four-month-old zebrafish brain transcriptome analysis of mitofusin 2 (mfn2) loss-of-function mutation (hu3528 allele) homozygous, heterozygous, and wild type siblings |
| Organism |
Danio rerio |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
An assessment of brain transcriptome differences between zebrafish siblings homozygous, heterozygous, and wild type for a loss-of-function mutation in mfn2.
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| Overall design |
Six families of siblings were generated by mating of pairs of zebrafish heterozygous for the hu3528 allele of the mfn2 gene (https://0-doi-org.brum.beds.ac.uk/10.1371/journal.pone.0067276). Each family was raised from a single mating event. Each family was derived from a different pair of heterozygous fish. The mfn2 homozygous mutant fish have lower fitness than other genotypes and so, at 2.5 months of age, the siblings of a family were genotyped using PCRs on DNA from tail biopsies, and then separated into wild type, homozygous and heterozygous groups that were subsequently raised in separate tanks in the same recirculated water system. At 4 months of age the fish were humanely euthanised using tricaine and their brains were removed for RNA purification. The brains of two male and two female fish from each tank were pooled before RNA purification of total RNA using Trizol (Invitrogen) and Direct-Zol (Zymo Research). RNA-seq was performed on the Illumina HiSeq platform (Illumina, San Diego, California, USA) by Novogene (UK) Company Limited, Cambridge, UK. Libraries were provided as paired-end (2x150bp) reads for n = 6 from each of the three genotypes. Library sizes ranged between 40,530,508 and 69,496,372 reads.
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| Contributor(s) |
Lardelli M, Grierson A, Pederson S, Baer L |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Nov 09, 2020 |
| Last update date |
Nov 10, 2021 |
| Contact name |
Michael Lardelli |
| Organization name |
The University of Adelaide
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| Street address |
North Terrace
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| City |
Adelaide |
| ZIP/Postal code |
5000 |
| Country |
Australia |
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| Platforms (1) |
| GPL14875 |
Illumina HiSeq 2000 (Danio rerio) |
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| Samples (18)
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| Relations |
| BioProject |
PRJNA675608 |
| SRA |
SRP291749 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE161117_genes.out.txt.gz |
833.3 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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