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(Reference retrieved automatically from Web of Science through information on FAPESP grant and its corresponding number as mentioned in the publication by the authors.)

Genetic regulators of mineral amount in Nelore cattle muscle predicted by a new co-expression and regulatory impact factor approach

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Author(s):
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Afonso, Juliana [1] ; Salinas Fortes, Marina Rufino [2] ; Reverter, Antonio [3] ; da Silva Diniz, Wellison Jarles [1] ; Mello Cesar, Aline Silva [4] ; de Lima, Andressa Oliveira [1] ; Petrini, Juliana [5] ; de Souza, Marcela M. [6] ; Coutinho, Luiz Lehmann [7] ; Mourao, Gerson Barreto [4] ; Zerlotini, Adhemar [8] ; Gromboni, Caio Fernando [9] ; Araujo Nogueira, Ana Rita [10] ; de Almeida Regitano, Luciana Correia [10]
Total Authors: 14
Affiliation:
[1] Univ Fed Sao Carlos, Dept Evolutionary Genet & Mol Biol, Sao Carlos - Brazil
[2] Univ Queensland, Fac Sci, Sch Chem & Mol Biosci, Brisbane, Qld - Australia
[3] CSIRO, Agr & Food, Brisbane, Qld - Australia
[4] Univ Sao Paulo, ESALQ, Dept Agroind Food & Nutr, Piracicaba - Brazil
[5] Univ Fed Alfenas, Inst Exact Sci, Dept Stat, Alfenas - Brazil
[6] Iowa State Univ, Dept Anim Sci, Ames, IA - USA
[7] Univ Sao Paulo, Dept Anim Sci, ESALQ, Piracicaba - Brazil
[8] Embrapa Informat Agr, Bioinformat Multiuser Lab, Campinas, SP - Brazil
[9] Bahia Fed Inst Educ Sci & Technol, Ilheus, BA - Brazil
[10] Embrapa Pecuaria Sudeste, Sao Carlos - Brazil
Total Affiliations: 10
Document type: Journal article
Source: SCIENTIFIC REPORTS; v. 10, n. 1 MAY 21 2020.
Web of Science Citations: 0
Abstract

Mineral contents in bovine muscle can affect meat quality, growth, health, and reproductive traits. To better understand the genetic basis of this phenotype in Nelore (Bos indicus) cattle, we analysed genome-wide mRNA and miRNA expression data from 114 muscle samples. The analysis implemented a new application for two complementary algorithms: the partial correlation and information theory (PCIT) and the regulatory impact factor (RIF), in which we included the estimated genomic breeding values (GEBVs) for the phenotypes additionally to the expression levels, originally proposed for these methods. We used PCIT to determine putative regulatory relationships based on significant associations between gene expression and GEBVs for each mineral amount. Then, RIF was adopted to determine the regulatory impact of genes and miRNAs expression over the GEBVs for the mineral amounts. We also investigated over-represented pathways, as well as pieces of evidences from previous studies carried in the same population and in the literature, to determine regulatory genes for the mineral amounts. For example, NOX1 expression level was positively correlated to Zinc and has been described as Zinc-regulated in humans. Based on our approach, we were able to identify genes, miRNAs and pathways not yet described as underlying mineral amount. The results support the hypothesis that extracellular matrix interactions are the core regulator of mineral amount in muscle cells. Putative regulators described here add information to this hypothesis, expanding the knowledge on molecular relationships between gene expression and minerals. (AU)

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