Equine ATAC-Seq

The equine (Equus ferus caballus) is an herbivorous domestic animal, a subspecies of the wild horse, widely distributed throughout the world. There are currently about 58 million equines of 905 breeds in the world. As an important member of the domestic animal population, the equine has been a vehicle for advancing human civilization. It has greatly contributed to the human diet, warfare, farming, transportation, and recreation. Although no longer as important to humans, the modern equine remains a key model organism in anatomy, genealogy, and movement science.

Completing the equine genome assembly has brought the study of equines to the genome level. However, the lack of understanding of gene regulation has made it difficult for scientists to explore the molecular mechanisms underlying complex traits in equines. Chromatin accessibility, an essential component of epigenetic regulation, can help advance scientists' understanding of complex equine traits. ATAC-seq is a technique to detect chromatin accessibility under specific conditions and applies to equine tissues.

Lifeasible has specialized in sequencing for many years, has extensive experience in equine epigenome sequencing, and can provide optimized, one-stop equine ATAC-seq services to our clients. We are dedicated to detecting chromatin accessibility at the whole genome level, identifying and classifying tissue-specific regulatory elements, and providing new research perspectives for equine evolution, breeding, and complex shape studies.

Our Equine ATAC-Seq Service Content

• Analysis of chromatin accessibility in frozen tissues of equines using ATAC-seq

ATAC-seq is commonly used to detect genome-wide chromatin accessibility in freshly tissued isolated cell nuclei. To investigate whether the application of ATAC-seq in frozen equine tissues is feasible and also to analyze the accessibility of whole genome chromatin in different equine tissues, we examined different frozen equine tissues using the ATAC-seq technique. The results showed that the frozen tissues were acceptable samples, and tissue-specific chromatin accessibility was found.

Figure 1. Relationship between promoter accessibility and gene expression in liver and lamina. (Peng, S, et al. 2021)

Technical Route of Equine ATAC-Seq

Sample Requirements

• Cells: > 2 × 10⁵
• Tissue: 50 mg/serving
• Take cells in a good growth state for trypsin digestion counting to ensure cell viability of 85% or more.
• Resuspend the cells in the cryopreservation solution and add 80-100,000 cells per cryopreservation tube. (Basic freezing solution recipe: 50% FBS + 40% complete medium + 10% DMSO)

Please note: Ensure sufficient dry ice when transporting samples to avoid temperature rise to destroy cell activity.

Bioinformatics Analysis Content

• Raw data collation, filtering, and quality assessment
• Reference genome annotation collation and statistics
• Reference sequence alignment analysis
• Peak calling
• Peak-associated gene GO annotation
• KEGG annotation of Peak-related genes
• Sample-to-sample differential Peak analysis
• Differential Peak-related gene GO enrichment analysis
• Differential Peak-related gene KEGG pathway enrichment analysis
• Nucleosome localization
• Genome-wide chromatin open mapping

Lifeasible's animal-oriented sequencing technology platform can provide flexible and scalable equine ATAC-seq services to our customers. Our extensive project experience, scientific protocol design, and strict quality control management ensure that all aspects of our customers' needs are met. Please feel free to contact us for questions, inquiries, or collaboration.