Peromyscus maniculatus
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA53865 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Peromyscus maniculatus (North American deer mouse) and Peromyscus leucopus (white-footed mouse). Raw sequence reads
| PRJNA494419 | ENA
Project description:Analysis of gene expression can be challenging, especially if it involves genetically diverse populations that exhibit high variation in their individual expression profile. Despite this variation though, it is conceivable that in the same individuals a high degree of coordination is maintained between transcripts that belong to the same signaling modules and are associated with related biological functions. To explore this further, we calculated the correlation in the expression levels between each of ATF4, CHOP (DDIT3), GRP94, DNAJB9 (ERdj4), DNAJ3C (p58IPK) and HSPA5 (BiP/GRP78) with the whole transcriptome in primary fibroblasts from deer mice following induction of endoplasmic reticulum (ER) stress. Since these genes are associated with different transducers of the unfolded protein response (UPR) we postulated that their profile, in terms of correlation of transcripts, reflects distinct UPR branches engaged and therefore different biological processes. Standard gene ontology analysis was able to predict major functions associated with the corresponding transcript, and of the UPR arm related to that, namely regulation of the apoptotic response by ATF4 (PERK arm) and the ER stress associated degradation for GRP94 (IRE1). BiP, being a global regulator of the UPR, was associated with activation of ER stress in a rather global manner. Pairwise comparison in the correlation coefficients for these genes’ associated transcriptome showed the relevance of selected genes in terms of expression profiles.
2019-05-18 | GSE131429 | GEO
Project description:Whole transcriptome RNA sequencing in brain tissue was generated to explore differences between young and old animals of two closely related species of deer mice (genus Peromyscus) that reportedly differ in their lifespans: P. leucopus that lives for up to 8 years and P. maniculatus that exhibits a lifespan of about 4 years.
2021-03-31 | GSE166394 | GEO
Project description:The white-footed mouse is a rodent native to North America
| PRJNA53869 | ENA
Project description:Captivity and urbanization have distinct effects on the gut microbiome of deer mice (Peromyscus maniculatus)
| PRJEB51510 | ENA
Project description:The California mouse is a rodent native to north-western Mexico and southern California
| PRJNA53897 | ENA
Project description:BackgroundDeer mice (genus Peromyscus) are the most common rodents in North America. Despite the availability of reference genomes for some species, a comprehensive database of polymorphisms, especially in those maintained as living stocks and distributed to academic investigators, is missing. In the present study we surveyed two populations of P. maniculatus that are maintained at the Peromyscus Genetic Stock Center (PGSC) for polymorphisms across their 2.5 × 109 bp genome.ResultsHigh density of variation was identified, corresponding to one SNP every 55 bp for the high altitude stock (SM2) or 207 bp for the low altitude stock (BW) using snpEff (v4.3). Indels were detected every 1157 bp for BW or 311 bp for SM2. The average Watterson estimator for the BW and SM2 populations is 248813.70388 and 869071.7671 respectively. Some differences in the distribution of missense, nonsense and silent mutations were identified between the stocks, as well as polymorphisms in genes associated with inflammation (NFATC2), hypoxia (HIF1a) and cholesterol metabolism (INSIG1) and may possess value in modeling pathology.ConclusionsThis genomic resource, in combination with the availability of P. maniculatus from the PGSC, is expected to promote genetic and genomic studies with this animal model.
| S-EPMC8438655 | biostudies-literature
Project description:Peromyscus maniculatus Targeted Locus (Loci)
| PRJNA186524 | ENA
Project description:Peromyscus maniculatus Genome sequencing and assembly
| PRJNA1155673 | ENA