Feline microRNA transcriptome in whole blood in 6 healthy cats and in 6 cats with preclinical hypertrophic cardiomyopathy
Aim to characterize differentially expressed miRNAS between healthy Norwegian Forest cats and healthy Domestic Shorthair cats, and to compare with cats with hypertropic cardiomyopathy (HCM) Six neutered healthy cats, three male domestic cats (DOM) and one male and two female Norwegian Forest (NF) cats were included. Each healthy cat was matched (breed, sex, age, body-weight and body condition score) with a cat with HCM. The dataset includes the miRDeep2 report, rawcounts miRNAs, differentially expressed miRNAs for contrasts compared using DESeq2, human and feline target genes producing messenger RNA (mRNA) and gene ontology analysis (GO) for these 12 cats. Whole blood was collected in PAXgene blood RNA System frozen and stored in -20 °C until date of RNA-extraction for a median storage time of 177 days. Total RNA was extracted. Samples with an RNA integrity number (RIN)-value of 7.7 or higher were included in the study. Libraries were prepared and quantified and normalized prior sequencing. Paired-end sequencing data was generated. Bioformatic data processing and count genertion of known and novel miRNAs in cats were identified using miRDeep2. Mature miRNA and hairpin sequences were downloaded from miRBase with human as main reference, an mouse and dog assigned as close relatives. Main reference miRNAs identified in the dataset were classified as predicted known miRNAs, and miRNAs previously not described in the main reference were classified as novel miRNAs by miRDeep2. Only novel miRNAs with a miRDeep2 score of >5.0 was included in the count-file generated for subsequent differently expressed (DE)-analyses. Identification of DE miRNAs were performed in DESeq2. Number of variables 6: breed, age, sex, body-weight, body condition score, healthy or hypertrophic cardiomyopathy. The compiled files gives an overview of the data set. Compiled Excel file “miRDeep2_counts_DEsignmiRNAcontrasts_compiled” is a compiled file with the miRDeep2 report, raw counts of miRNAs and the differentially expressed miRNAs found in the dataset. The following nine csv-files are named miR_ and the name of the file in the compiled Excel file. Compiled Excel file “Target_HumanGOmiRNA_Feline_GOmiRNA_compiled” is a compiled file with the human and feline target genes producing messenger RNA for the differentially expressed miRNAs found in the dataset, gene ontology analysis of these miRNAS both for human and feline genes. The following nineteen csv-files are named Target_ and the name of the file in the compiled Excel file.
Swedish University of Agricultural Sciences
Department of Animal Breeding and Genetics
Felina cirkulerande biomarkörer för hjärtsjukdom hos katt
Agria and the Swedish Kennel Club’s research fund
Cirkulerande biomarkörer hos katter med hjärtsjukdom
Cirkulerande biomarkörer hos katter med och utan hjärtsjukdom