Project description:Domestication leads to a spectrum of striking behavioral changes whose genetic basis remains largely unknown. Silver foxes have been selectively bred for tame and aggressive behaviors for over 50 years at the Institute for Cytology and Genetics in Novosibirsk, Russia. To further understand the genetic basis and molecular mechanisms underlying tame and aggressive behavioral phenotypes segregating in selected strains of the silver fox, we quantified genome-wide gene expression levels using RNA-seq in two selected brain tissues, right prefrontal cortex and basal forebrain, from 12 aggressive and 12 tame individuals. Expression analysis reveals 146 differentially expressed genes in prefrontal cortex between tame and aggressive individuals at a 5% FDR, and 33 hits were found in basal forebrain. These candidates include genes in key pathways known to be critical to neurological processing, such as serotonin and glutamate receptor pathways. The data relate in interesting ways to neurological and pharmacological effects that are actively being studied to understand human aggression. In addition, we identified 31,000 high quality exonic SNPs, 295 of which show significant allele frequency differences between tame and aggressive individuals at an adjust P-value < 0.05 level from gene dropping simulation based on the entire pedigrees. A non-synonymous change in a glutamate receptor, GRM3, is among these significant SNPs, indicating that expression and allele-frequency changes are hitting the same pathways. These changes in expression level and allele frequency might be the direct response to the artificial selection and will help understand the genetic basis of mammalian domestication process.
Project description:We report global distribution of trimethylated Histone H3 Lysine 4 (H3K4me3) in human prefrontal cortex neurons at different ages Neuronal nuclei from human prefrontal cortex were isolated by FACS. Regions marked by H3K4me3 were identified by chromatin immunoprecipiation followed by deep sequencing.
Project description:We examined the histone modification H3K4 dimethylation (H3K4me2) in the prefrontal cortex of individual Rhesus macaques at different ages by chromatin immunoprecipitation, followed by deep sequencing (ChIP-seq) at the whole genome level Four Rhesus macaque prefrontal cortex samples with 0.4, 9,22 and 26 years old were used for H3K4me2 ChIP-Seq
Project description:We performed high-throughput snRNA-seq on hippocampus (Hip) and prefrontal lobe cortex (PFC) tissue in mice (Mus musculus) to identify cell-type specific differentially expressed genes. Mice were divided into GF, SPF and CGF group.
Project description:We performed high-throughput snRNA-seq and spatial transcriptomic RNA-seq on dorsolateral prefrontal cortex (BA9) tissue in Macaca fascicularis to identify cell-type specific differentially expressed genes. The macaques include depressive-like, healthy control and resilient individuals.
Project description:We performed high-throughput snRNA-seq using the 10X Genomics Chromium platform on archived post-mortem dorsolateral prefrontal cortex (BA9) tissue in MDD subjects who died by suicide and in control subjects to identify cell-type specific differentially expressed genes.
Project description:The prefrontal cortex is a crucial regulator of escalation of alcohol drinking, dependence, and other behavioral criteria associated with AUD. Comprehensive identification of cell-type specific transcriptomic changes in alcohol dependence will improve our understanding of mechanisms mediating the escalation of alcohol use and will refine targets for therapeutic development. We performed single nucleus RNA sequencing (snRNA-seq) on ~150,000 single nuclei from the medial prefrontal cortex (mPFC) obtained from C57BL/6J mice exposed to the chronic intermittent ethanol exposure (CIE) paradigm which models phenotypes associated with alcohol dependence. Gene co-expression network analysis and differential expression analysis identified highly dysregulated co-expression networks in multiple cell types. Here, we present a comprehensive atlas of cell-type specific alcohol dependence related gene expression changes in the mPFC.
