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Sexually dimorphic effects of CYP2B6 in the development of fasting-mediated steatosis in mice: Effects are not mediated by the oxylipin products 9-HODE and 9-HOTrE

GSE282292 Mus musculus (mouse) RNA-seq (gene expression) 44 samples Submitted 2024/12/31 Platform GPL24247
At a glance

RNA-seq (gene expression) · mouse · 44 samples

What it is
RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
Organism
Mus musculus (mouse)
Samples
44 samples: 10 conditions, mostly with about 4 replicates eachGroups are read from the sample names, not from the paper. Check the list below.
Data you can get
A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
Summary (written by the submitters)
Cytochrome P450 2B6 (CYP2B6) is a sexually dimorphic, anti-obesity CYP enzyme responsible for the metabolism of xeno- and endobiotics, including the metabolism of polyunsaturated fatty acids (PUFAs) into 9-HODE and 9-HOTrE. However, hCYP2B6-Tg mice are sensitive to diet-induced hepatic steatosis despite their resistance to obesity. The purpose of this manuscript was determine if 9-HODE, 9-HOTrE, or other factors contribute to the sexually dimorphic steatosis observed in hCYP2B6-Tg mice.
Read the full summary ↓
Cyp2b-null mice were injected with either 9-HODE or 9-HOTrE for 2 days then subjected to a fasting period of 20 hours to induce steatosis. Moderately increased serum lipids, especially in females, were observed after 9-HODE (TG, VLDL) and 9-HOTrE (HLD, LDL, cholesterol) treatment. No change in hepatic lipids and few changes in hepatic gene expression were observed in mice treated with either oxylipin, suggesting these oxylipins had little effect or their effects were extrahepatic. Therefore, to further investigate CYP2B6’s role in steatosis, hCYP2B6-Tg and Cyp2b-null mice were subjected to a 20-hour fast and compared. Both male and female hCYP2B6-Tg mice exhibited increased steatosis compared to Cyp2b-null mice. Serum cholesterol, triglycerides, HDL, and VLDL were increased in hCYP2B6-Tg males. Serum triglycerides and VLDL were decreased in hCYP2B6-Tg females, suggesting greater hepatic retention of lipids. Hepatic oxylipin profiles revealed 8 perturbed oxylipins in hCYP2B6-Tg mice and only 1 in males when compared to Cyp2b-null mice. RNA-seq also demonstrated greater effects in females in terms of number of genes and GO terms perturbed. There were only a few overlapping GO terms and lipid metabolic processes was enriched in hCYP2B6-Tg male mice but repressed in hCYP2B6-Tg females compared to Cyp2b-nulls. In conclusion, hCYP2B6-Tg mice are sensitive to steatosis in males and females although the responses are different. In addition, the oxylipins 9-HODE and 9-HOTrE are unlikely to be a major cause of CYP2B6’s pro-steatotic effects.
This dataset
Open GSE282292 in finder → Find more mouse RNA-seq datasets →
Download · which file do I need?

Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.

1 · Just have a look

Processed table

The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.

Series matrix ↓
2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE282292_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓
3 · Start from the raw reads

Raw sequencing reads

The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.

Raw reads on ENA ↗

What the files usually look like: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.

Also filed as BioProject PRJNA1188082 and SRA study SRP546175. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
10 conditions, mostly with about 4 replicates each
F_Control ×8 M_Cypb2null ×4 F_Cyp2bnull ×4 M_CYP2B6 ×4 F_CYP2B6 ×4 M_Control ×4 M_9HODE ×4 M_9HOTrE ×4 +2 more

Supports a between-group comparison across 44 samples.

How we read this: 10 replicated groups read from 44 sample titles; they account for 44 of them. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.

Samples in this study

+ 4 more — browse all 44 samples with per-sample file links →

Datasets on a similar topic

Search all mouse RNA-seq datasets in GEO →

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