Genome-wide transcriptomic analysis of the forebrain of postnatal Slc13a4+/− mice
Open Access
- 13 July 2021
- journal article
- research article
- Published by Springer Science and Business Media LLC in BMC Research Notes
- Vol. 14 (1), 1-4
- https://doi.org/10.1186/s13104-021-05687-5
Abstract
Sulfation is an essential physiological process that regulates the function of a wide array of molecules involved in brain development. We have previously shown expression levels for the sulfate transporter Slc13a4 to be elevated during postnatal development, and that sulfate accumulation in the brains of Slc13a4+/− mice is reduced, suggesting a role for this transporter during this critical window of brain development. In order to understand the pathways regulated by cellular sulfation within the brain, we performed a bulk RNA-sequencing analysis of the forebrain of postnatal day 20 (P20) Slc13a4 heterozygous mice and wild-type litter mate controls. We performed an RNA transcriptomic based sequencing screen on the whole forebrain from Slc13a4+/− and Slc13a4+/+mice at P20. Differential expression analysis revealed 90 differentially regulated genes in the forebrain of Slc13a4+/− mice (a p-value of 0.1 was considered as significant). Of these, 55 were upregulated, and 35 were downregulated in the forebrain of heterozygous mice. Moreover, when we stratified further with a ± 1.2 fold-change, we observed 38 upregulated, and 16 downregulated genes in the forebrain of heterozygous mice. This resource provides a useful tool to interrogate which pathways may require elevated sulfate levels to drive normal postnatal development of the brain.Keywords
Funding Information
- Australian Research Council (DP180100017)
This publication has 10 references indexed in Scilit:
- Tximeta: Reference sequence checksums for provenance identification in RNA-seqPLoS Computational Biology, 2020
- Cell-extrinsic requirement for sulfate in regulating hippocampal neurogenesisBiology Open, 2020
- Postnatal N-acetylcysteine administration rescues impaired social behaviors and neurogenesis in Slc13a4 haploinsufficient miceEBioMedicine, 2019
- Salmon provides fast and bias-aware quantification of transcript expressionNature Methods, 2017
- Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2Genome Biology, 2014
- Persistent cortical plasticity by upregulation of chondroitin 6-sulfationNature Neuroscience, 2012
- Heparan sulfate proteoglycans in the nervous system: their diverse roles in neurogenesis, axon guidance, and synaptogenesisSeminars in Cell & Developmental Biology, 2001
- The Clinical Chemistry of Inorganic SulfateCritical Reviews in Clinical Laboratory Sciences, 2000
- Inorganic sulfate in cerebrospinal fluid from infants and childrenClinica Chimica Acta; International Journal of Clinical Chemistry, 1982
- Age-dependent serum sulfate levels in children and adolescentsClinica Chimica Acta; International Journal of Clinical Chemistry, 1980