Impacts of prenatal nutrition on metabolic pathways in beef cattle: an integrative approach using metabolomics and metagenomics

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Polizel, Guilherme Henrique Gebim ; Diniz, Wellison J. S. ; Cesar, Aline Silva Mello ; Ramirez-Zamudio, German D. ; Canovas, Angela ; Dias, Evandro Fernando Ferreira ; Fernandes, Aricia Christofaro ; Prati, Barbara Carolina Teixeira ; Furlan, Edison ; Pombo, Gabriela do Vale ; Santana, Miguel Henrique de Almeida

• Tipo de documento: Artigo Científico
• Fonte: BMC Genomics; v. 26, n. 1, p. 21-pg., 2025-04-10.

Resumo

BackgroundThis study assessed the long-term metabolic effects of prenatal nutrition in Nelore bulls through an integrated analysis of metabolome and microbiome data to elucidate the interconnected host-microbe metabolic pathways. To this end, a total of 126 cows were assigned to three supplementation strategies during pregnancy: NP (control)- only mineral supplementation; PP- protein-energy supplementation during the last trimester; and FP- protein-energy supplementation throughout pregnancy. At the end of the finishing phase, blood, fecal, and ruminal fluid samples were collected from 63 male offspring. The plasma underwent targeted metabolomics analysis, and fecal and ruminal fluid samples were used to perform 16 S rRNA gene sequencing. Metabolite and ASV (amplicon sequence variant) co-abundance networks were constructed for each treatment using the weighted gene correlation network analysis (WGCNA) framework. Significant modules (p <= 0.1) were selected for over-representation analyses to assess the metabolic pathways underlying the metabolome (MetaboAnalyst 6.0) and the microbiome (MicrobiomeProfiler). To explore the metabolome-metagenome interplay, correlation analyses between host metabolome and microbiome were performed. Additionally, a holistic integration of metabolic pathways was performed (MicrobiomeAnalyst 2.0).ResultsA total of one and two metabolite modules associated with the NP and FP were identified, respectively. Regarding fecal microbiome, three, one, and two modules for the NP, PP, and FP were identified, respectively. The rumen microbiome demonstrated two modules correlated with each of the groups under study. Metabolite and microbiome enrichment analyses revealed the main metabolic pathways associated with lipid and protein metabolism, and regulatory mechanisms. The correlation analyses performed between the host metabolome and fecal ASVs revealed 13 and 12 significant correlations for NP and FP, respectively. Regarding the rumen, 16 and 17 significant correlations were found for NP and FP, respectively. The NP holistic analysis was mainly associated with amino acid and methane metabolism. Glycerophospholipid and polyunsaturated fatty acid metabolism were over-represented in the FP group.ConclusionsPrenatal nutrition significantly affected the plasma metabolome, fecal microbiome, and ruminal fluid microbiome of Nelore bulls, providing insights into key pathways in protein, lipid, and methane metabolism. These findings offer novel discoveries about the molecular mechanisms underlying the effects of prenatal nutrition.Clinical trial numberNot applicable. (AU)

• Processo FAPESP: 21/03265-1 - Uso de ferramentas da biologia de sistemas na avaliação dos efeitos da programação fetal em bovinos de corte
• Beneficiário: Guilherme Henrique Gebim Polizel
• Modalidade de apoio: Bolsas no Brasil - Doutorado
• Processo FAPESP: 17/12105-2 - Fenômica da programação fetal na produção de bovinos de corte: uma abordagem sistêmica
• Beneficiário: Miguel Henrique de Almeida Santana
• Modalidade de apoio: Auxílio à Pesquisa - Jovens Pesquisadores