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Identification of Alternative Splicing and Polyadenylation in RNA-seq Data

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Published on: June 24, 2021

Transcriptome diversity and differential expression in supporting limb laminitis.

Heather M Holl¹, Caitlin Armstrong², Hannah Galantino-Homer²

¹Department of Animal Sciences, UF Genetics Institute, University of Florida, Gainesville, FL, United States.

Veterinary Immunology and Immunopathology

|November 28, 2021

Summary

This study enhances understanding of equine laminitis by analyzing gene expression in hoof tissues. Key genes like Ezrin and TIMP3 show potential as laminitis biomarkers, while others offer targets for new treatments.

Keywords:

Biomarkers Hoof Horse Inflammasome

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Collection and Processing of Lymph Nodes from Large Animals for RNA Analysis: Preparing for Lymph Node Transcriptomic Studies of Large Animal Species

Collection and Processing of Lymph Nodes from Large Animals for RNA Analysis: Preparing for Lymph Node Transcriptomic Studies of Large Animal Species

Published on: May 19, 2018

Area of Science:

Equine genomics and transcriptomics
Veterinary pathology
Molecular biology

Background:

Laminitis causes significant equine welfare issues due to hoof tissue damage.
Previous research was limited by a lack of hoof-specific gene annotations.
Advancements in sequencing technology allow for more detailed analysis of equine hoof lamellar tissue.

Purpose of the Study:

To characterize the transcriptome of equine hoof lamellar tissue in supporting limb laminitis (SLL).
To identify changes in gene expression related to the development and acute stages of SLL.
To discover potential biomarkers and therapeutic targets for equine laminitis.

Main Methods:

Long-read sequencing for transcriptome annotation of hoof lamellar tissue.
Short-read RNA sequencing to identify differentially expressed genes in SLL cases.
Functional analysis of identified genes to understand biological pathways involved in laminitis.

Main Results:

Detailed characterization of 5067 unique loci in equine hoof lamellar tissue.
Identification of 66 differentially expressed loci in SLL cases.
Functional analysis revealed altered pathways in cell replication, stress response, and immune cell activity.

Conclusions:

Differential expression of Ezrin and TIMP3 suggests their potential as laminitis biomarkers.
NR1D1 and inflammasome-related genes present promising targets for novel laminitis treatments.
This research provides a foundation for improved diagnostics and therapeutics for equine laminitis.