Interplay among miR-29 family, mineral metabolism, and gene regulation in Bos indicus muscle

Author(s)

da Silva Diniz, Wellison Jarles ^{[1, 2]} ; Banerjee, Priyanka ^[1] ; Mazzoni, Gianluca ^[3] ; Coutinho, Luiz Lehmann ^[4] ; Mello Cesar, Aline Silva ^[4] ; Afonso, Juliana ^[2] ; Gromboni, Caio Fernando ^[5] ; Araujo Nogueira, Ana Rita ^[6] ; Kadarmideen, Haja N. ^[1] ; de Almeida Regitano, Luciana Correia ^[6]

Affiliation

^[1] Tech Univ Denmark, Dept Appl Math & Comp Sci, Lyngby - Denmark

^[2] Univ Fed Sao Carlos, Ctr Biol & Hlth Sci CCBS, Grad Program Evolutionary Genet & Mol Biol, Sao Carlos, SP - Brazil

^[3] Tech Univ Denmark, Dept Hlth Technol, Lyngby - Denmark

^[4] Univ Sao Paulo, Luiz de Queiroz Coll Agr, Dept Anim Sci, Piracicaba, SP - Brazil

^[5] Bahia Fed Inst Educ Sci & Technol, IFBA, Campus Ilheus, Ilheus, BA - Brazil

^[6] Empresa Brasileira Pesquisa Agr, Embrapa Pecuaria Sudeste, Sao Carlos, SP - Brazil

• Document type: Journal article
• Source: Molecular Genetics and Genomics; v. 295, n. 5, p. 1113-1127, SEP 2020.
• Web of Science Citations: 0

Abstract

An interplay between gene expression, mineral concentration, and beef quality traits in Bos indicus muscle has been reported previously under a network approach. However, growing evidence suggested that miRNAs not only modulate gene expression but are also involved with mineral homeostasis. To our knowledge, understanding of the miRNA-gene expression-mineral concentration relationship in mammals is still minimal. Therefore, we carried out a miRNA co-expression and multi-level miRNA-mRNA integration analyses to predict the putative drivers (miRNAs and genes) associated with muscle mineral concentration in Nelore steers. In this study, we identified calcium and iron to be the pivotal minerals associated with miRNAs and gene targets. Furthermore, we identified the miR-29 family (miR-29a, -29b, -29c, -29d-3p, and -29e) as the putative key regulators modulating mineral homeostasis. The miR-29 family targets genes involved with AMPK, insulin, mTOR, and thyroid hormone signaling pathways. Finally, we reported an interplay between miRNAs and minerals acting cooperatively to modulate co-expressed genes and signaling pathways both involved with mineral and energy homeostasis in Nelore muscle. Although we provided some evidence to understand this complex relationship, future work should determine the functional implications of minerals for miRNA levels and their feedback regulation system.\textbackslash{}\textbackslash{}An interplay between gene expression, mineral concentration, and beef quality traits in Bos indicus muscle has been reported previously under a network approach. However, growing evidence suggested that miRNAs not only modulate gene expression but are also involved with mineral homeostasis. To our knowledge, understanding of the miRNA-gene expression-mineral concentration relationship in mammals is still minimal. Therefore, we carried out a miRNA co-expression and multi-level miRNA-mRNA integration analyses to predict the putative drivers (miRNAs and genes) associated with muscle mineral concentration in Nelore steers. In this study, we identified calcium and iron to be the pivotal minerals associated with miRNAs and gene targets. Furthermore, we identified the miR-29 family (miR-29a, -29b, -29c, -29d-3p, and -29e) as the putative key regulators modulating mineral homeostasis. The miR-29 family targets genes involved with AMPK, insulin, mTOR, and thyroid hormone signaling pathways. Finally, we reported an interplay between miRNAs and minerals acting cooperatively to modulate co-expressed genes and signaling pathways both involved with mineral and energy homeostasis in Nelore muscle. Although we provided some evidence to understand this complex relationship, future work should determine the functional implications of minerals for miRNA levels and their feedback regulation system. (AU)

• FAPESP's process: 17/20761-7 - Integrative genetic and regulatory network analysis to detect genes associated with muscle iron content and beef quality related phenotypes in Nelore
• Grantee: Wellison Jarles da Silva Diniz
• Support Opportunities: Scholarships abroad - Research Internship - Doctorate
• FAPESP's process: 12/23638-8 - Molecular basis of meat quality in Nelore beef cattle
• Grantee: Luciana Correia de Almeida Regitano
• Support Opportunities: Research Projects - Thematic Grants
• FAPESP's process: 15/09158-1 - Identification of coexpression gene networks and regulatory mechanisms related to mineral composition and meat quality in bovine
• Grantee: Wellison Jarles da Silva Diniz
• Support Opportunities: Scholarships in Brazil - Doctorate