GEO series

SLC25A45 mediates mitochondrial import of methylated mitochondrial amino acids and carnitine biosynthesis

GSE308565 Mus musculus (mouse) RNA-seq (gene expression) 19 samples Submitted 2025/11/25 Platform GPL24247

At a glance

RNA-seq (gene expression) · mouse · 19 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: 19 samples: 5 conditions, mostly with about 5 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)

Solute carriers (SLCs) regulate cellular and organismal metabolism by transporting small molecules and ions across membranes, yet the physiological substrates of ~20% remain elusive. To address this, we developed a supervised machine learning platform to predict and prioritize gene-metabolite associations. This approach identifies UNC93A and SLC45A4 as candidate plasma membrane transporters for acetylglucosamine and polyamines, respectively.

Read the full summary ↓

Additionally, we uncover SLC25A45 as a mitochondrial transporter linked to serum levels of methylated basic amino acids, products of protein catabolism. Mechanistically, SLC25A45 is necessary for the mitochondrial import of methylated basic amino acids, including ADMA and TML, the latter serving as a precursor for carnitine synthesis. In line with this observation, SLC25A45 loss impairs hepatic carnitine synthesis and upregulation of carnitine-containing metabolites under fasted conditions. By facilitating mitochondrial TML import, SLC25A45 connects protein catabolism to carnitine production, sustaining β-oxidation during fasting. Altogether, our study identifies putative substrates for three SLCs and provides a resource for transporter deorphanization.

This dataset

Open GSE308565 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 GSE308565_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 PRJNA1331545 and SRA study SRP622229. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

5 conditions, mostly with about 5 replicates each

Liv_KO_Fed ×5 Liv_KO_Fast ×5 Liv_HET_Fed ×3 Liv_HET_Fast ×3 Liv_WT_Fast ×2 Liv_WT_Fed ×1

Supports a between-group comparison across 18 samples.

How we read this: 5 replicated groups read from 19 sample titles; they account for 18 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

GSM9248284 Liv_HET_Fed_10 Liv_HET_Fed
GSM9248285 Liv_WT_Fast_12 Liv_WT_Fast
GSM9248286 Liv_HET_Fed_21 Liv_HET_Fed
GSM9248287 Liv_WT_Fed_22
GSM9248288 Liv_KO_Fed_23 Liv_KO_Fed
GSM9248289 Liv_HET_Fed_26 Liv_HET_Fed
GSM9248290 Liv_KO_Fed_31 Liv_KO_Fed
GSM9248291 Liv_KO_Fast_36 Liv_KO_Fast
GSM9248292 Liv_KO_Fast_40 Liv_KO_Fast
GSM9248293 Liv_HET_Fast_42 Liv_HET_Fast
GSM9248294 Liv_HET_Fast_43 Liv_HET_Fast
GSM9248295 Liv_HET_Fast_45 Liv_HET_Fast
GSM9248296 Liv_KO_Fast_59 Liv_KO_Fast
GSM9248297 Liv_KO_Fed_62 Liv_KO_Fed
GSM9248298 Liv_KO_Fed_64 Liv_KO_Fed
GSM9248299 Liv_KO_Fast_65 Liv_KO_Fast
GSM9248300 Liv_KO_Fed_7 Liv_KO_Fed
GSM9248301 Liv_KO_Fast_73 Liv_KO_Fast
GSM9248302 Liv_WT_Fast_8 Liv_WT_Fast

Datasets on a similar topic

GSE186649 A mitochondrial long-chain fatty acid oxidation defect in a mouse leads to dysregulation of plasma long-chain acylcarnitines, dysregulation of plasma amino acids, and an increased reliance on glucocorticoid signaling to maintain euglycemia during fasting 50 samples shares mitochondrial, carnitine, amino
GSE341991 The role of glutaminolysis and mitochondrial pyruvate import on plasma cell differentiation 14 samples shares mitochondrial, import, amino
GSE276036 Direct mitochondrial import of lactate supports resilient carbohydrate oxidation 25 samples shares mitochondrial, import
GSE271207 2-hydroxyglutarate mediates whitening of brown adipocytes coupled to nuclear softening upon mitochondrial dysfunction 16 samples shares mitochondrial, mediates
GSE239814 Mitochondrial signals mediate paternal effects on offspring metabolism (Smart-Seq) 221 samples shares mitochondrial
GSE280991 Partial restoration of the mitochondrial dysfunction by AAV-Ant1 (Slc25a4) transduction protects against dilated cardiomyopathy in Slc25a4-/- plus mtDNA mutant mice 115 samples shares mitochondrial
GSE296763 Mitochondrial respiration is necessary for CD8 T cell proliferation and cell fate 99 samples shares mitochondrial
GSE280699 The mitochondrial-targeted peptide therapeutic elamipretide improves cardiac and skeletal muscle function during aging without detectable changes in tissue epigenetic or transcriptomic age [RNA-seq] 78 samples shares mitochondrial

Search all mouse RNA-seq datasets in GEO →

Share this dataset

Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.