همایش ملی بیوانفورماتیک ایران

صفحه اصلی / 4th international edition and 13th Iranian Conference on Bioinformatics

Identifying mRNAs and miRNAs in extracellular vesicles through comparative transcriptome analyses of healthy and mastitic bovine milk

نویسندگان :

Farzad Ghafouri¹ Seyed Midia Pirkhezranian² Mostafa Sadeghi³ Seyed Reza Miraei-Ashtiani⁴ John P. Kastelic⁵ Herman W. Barkema⁶ Vahid Razban⁷ Masoud Shirali⁸

1- Department of Animal Science, University College of Agriculture and Natural Resources, University of Tehran, Karaj 77871-31587, Iran | Agri-Food and Biosciences Institute, Hillsborough, BT26 6DR, UK 2- Department of Animal Science, University College of Agriculture and Natural Resources, University of Tehran, Karaj 77871-31587, Iran 3- Department of Animal Science, University College of Agriculture and Natural Resources, University of Tehran, Karaj 77871-31587, Iran 4- Department of Animal Science, University College of Agriculture and Natural Resources, University of Tehran, Karaj 77871-31587, Iran 5- Faculty of Veterinary Medicine, University of Calgary, Calgary, AB T2N 4N1, Canada 6- Faculty of Veterinary Medicine, University of Calgary, Calgary, AB T2N 4N1, Canada 7- Agri-Food and Biosciences Institute, Hillsborough, BT26 6DR, UK 8- Agri-Food and Biosciences Institute, Hillsborough, BT26 6DR, UK | School of Biological Sciences, Queen’s University Belfast, Belfast, BT9 5AJ, UK

کلمات کلیدی :

Dairy cattle،Hub RNAs،Mastitis،Milk extracellular vesicles،Transcriptome analysis

چکیده :

Mammary gland inflammation (mastitis) is mainly caused by bacteria in dairy cows (Cheng et al., 2020; Naserkheil et al., 2022) with huge economic losses worldwide, exceeding $2B annually in the USA alone due to reduced milk production and treatment costs (De Oliveira et al., 2000). To elucidate molecular mechanisms associated with subclinical mastitis, comparative transcriptome studies can prioritize candidate mRNAs and miRNAs (Sun et al., 2015; Saenz-de-Juano et al., 2022). Our objective was to compare transcriptomic analyses and mRNA-miRNA regulatory network analyses to identify key mRNAs, miRNAs and potential pathways involved in molecular regulation of extracellular vesicles in milk of healthy cows and cows with mastitis. Twenty-three miRNAs and 48 mRNAs were identified through integrated Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses. We constructed an mRNA-miRNA regulatory network that included 8 miRNAs and 22 mRNAs and based on interactions, identified 6 hub mRNAs (HSPA5, CSN1S1, CSN2, LALBA, SPP1, and FASN) and 1 hub miRNA (miR-29-3p) associated with subclinical mastitis. Analyses of these RNAs revealed 6, 5, and 6 significantly enriched GO terms related to subclinical mastitis in biological process, molecular function, and cellular component categories, respectively. The main metabolic-signaling pathways associated with bovine milk extracellular vesicles in subclinical mastitis were also enriched, including responses to 11-deoxycorticosterone, progesterone, ketones, and estradiol. Other enriched terms involved potassium channel regulator activity, ubiquitin protein ligase binding, structural constituents of post-synapse, as well as components of extracellular space and region, Golgi lumen, and focal adhesion signaling pathway. Identifying these RNAs, potential pathways and their respective functions provided insights into mechanisms regulating subclinical mastitis and are a foundation for future studies assessing key mRNAs and miRNAs associated with bovine mastitis.