Multi-Omics Approach Reveals miR-SNPs Affecting Muscle Fatty Acids Profile in Nelore Cattle

Author(s):Show less -

Cardoso, Taina Figueiredo ^[1] ; Coutinho, Luiz Lehmann ^[2] ; Bruscadin, Jennifer Jessica ^[3] ; da Silva Diniz, Wellison Jarles ^[4] ; Petrini, Juliana ^[2] ; Andrade, Bruno Gabriel Nascimento ^[1] ; de Oliveira, Priscila Silva Neubern ^[3] ; Poleti, Mirele Daiana ^[5] ; Cesar, Aline Silva Mello ^[6] ; da Silveira, Juliano Coelho ^[5] ; Chiaratti, Marcos Roberto ^[3] ; Zerlotini, Adhemar ^[7] ; Mourao, Gerson Barreto ^[2] ; de Almeida Regitano, Luciana Correia ^[1]

Affiliation

^[1] Embrapa Pecuaria Sudeste, Rodovia Washington Luiz, Km 234, S-N, BR-339 Sao Carlos, SP - Brazil

^[2] Univ Sao Paulo, Dept Anim Sci, Luiz de Queiroz Coll Agr, ESALQ, BR-13418900 Piracicaba, SP - Brazil

^[3] Univ Fed Sao Carlos UFSCAR, Dept Genet & Evolucao, BR-13565905 Sao Carlos, SP - Brazil

^[4] North Dakota State Univ, Dept Anim Sci, Fargo, ND 58105 - USA

^[5] Univ Sao Paulo, Fac Anim Sci & Food Engn, Dept Vet Med, BR-13635900 Pirassununga, SP - Brazil

^[6] Univ Sao Paulo, Dept Agrifood Ind Food & Nutr, Luiz de Queiroz Coll Agr, ESALQ, BR-13418900 Piracicaba, SP - Brazil

^[7] Embrapa Informat Agr, BR-13083886 Campinas, SP - Brazil

• Document type: Journal article
• Source: GENES; v. 12, n. 1 JAN 2021.
• Web of Science Citations: 1

Abstract

MicroRNAs (miRNAs) are key regulators of gene expression, potentially affecting several biological processes, whose function can be altered by sequence variation. Hence, the integration of single nucleotide polymorphisms (SNP) and miRNAs can explain individual differences in economic traits. To provide new insights into the effects of SNPs on miRNAs and their related target genes, we carried out a multi-omic analysis to identify SNPs in miRNA mature sequences (miR-SNPs) associated with fatty acid (FA) composition in the Nelore cattle. As a result, we identified 3 miR-SNPs in different miRNAs (bta-miR-2419-3p, bta-miR-193a-2, and bta-miR-1291) significantly associated with FA traits (p-value < 0.02, Bonferroni corrected). Among these, the rs110817643C>T, located in the seed sequence of the bta-miR-1291, was associated with different omega 6 FAs, polyunsaturated FA, and polyunsaturated:saturated FA ratios. Concerning the other two miR-SNPs, the rs43400521T>C (located in the bta-miR-2419-3p) was associated with C12:0 and C18:1 cis-11 FA, whereas the rs516857374A>G (located in the bta-miR-193a-2) was associated with C18:3 omega 6 and ratio of omega 6/omega 3 traits. Additionally, to identify potential biomarkers for FA composition, we described target genes affected by these miR-SNPs at the mRNA or protein level. Our multi-omics analysis outlines the effects of genetic polymorphism on miRNA, and it highlights miR-SNPs and target candidate genes that control beef fatty acid composition. (AU)

• FAPESP's process: 18/11953-2 - Variations in regulatory regions associated with meat production and quality characteristics in the Nelore breed
• Grantee: Tainã Figueiredo Cardoso
• Support Opportunities: Scholarships in Brazil - Post-Doctoral
• 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: 19/04089-2 - The Nelore hologenome: implications in beef quality and feed efficiency
• Grantee: Luciana Correia de Almeida Regitano
• Support Opportunities: Research Grants - eScience and Data Science Program - Thematic Grants