Abstract
Raw milk samples were collected from 200 dairy cows belonging to Girolando 1/2, Gyr, Guzera, and Holstein breeds, and the bacterial diversity was explored using 16S rRNA amplicon sequencing. SCC analysis showed that 69 animals were classified as affected with subclinical mastitis. The milk bacterial microbiome was dominated by Firmicutes, Proteobacteria, and Actinobacteria, with an increase of Firmicutes in animals with subclinical mastitis and Proteobacteria in healthy animals. At the family and genus level, the milk bacterial microbiome was dominated by Staphylococcus, Acinetobacter, Pseudomonas, members of the family Enterobacteriaceae, Lactococcus, Aerococcus, members of the family Rhizobiaceae, Anaerobacillus, Streptococcus, members of the family Intrasporangiaceae, members of the family Planococcaceae, Corynebacterium, Nocardioides, and Chryseobacterium. Significant differences in alpha and beta diversity analysis suggest an effect of udder health status and breed on the composition of raw bovine milk microbiota. LEfSe analysis showed 45 and 51 discriminative taxonomic biomarkers associated with udder health status and with one of the four breeds respectively, suggesting an effect of subclinical mastitis and breed on the microbiota of milk in cattle.
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Acknowledgements
Data analysis was performed using the Sagarana server commonly used by the Instituto de Ciências Biológicas—UFMG.
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This work was supported by Fundação de Amparo à Pesquisa de Minas Gerais (FAPEMIG APQ-02928–16), Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq), and Pró-Reitoria de Pesquisa da Universidade Federal de Minas Gerais (PRPq/UFMG). FAPEMIG, CNPq, and PRPq/UFMG provided resources for the collection of biological samples, laboratory analysis, and structure for data analysis and publication writing.
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Conceptualization: Raphael S. Steinberg and Álvaro C. Nunes. Field sample collection: Raphael S. Steinberg, Lilian C. Silva e Silva, and Ronaldo Braga. Funding acquisition: Marcelo R.e de Souza, Jacques R. Nicoli, Elisabeth Neumann, and Álvaro C. Nunes. Investigation: Raphael S. Steinberg, L. Cristina Silva e Silva, Marcelo R. de Souza, Patrícia C. L. da Silva, Gustavo A. Lacorte, Jacques R, Nicoli, Elisabeth Neumann, and Álvaro C. Nunes. Data curation: Raphael S. Steinberg and Álvaro C. Nunes. Formal analysis: Raphael S. Steinberg, Patrícia C. L. da Silva, Gustavo A. Lacorte, and Álvaro C. Nunes. Project administration: Raphael S. Steinberg, Jacques R. Nicoli, Elisabeth Neumann, and Álvaro C. Nunes. Writing-original draft: Raphael S. Steinberg. Writing-review and editing: Jacques R. Nicoli, Elisabeth Neumann, and Álvaro C. Nunes.
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Steinberg, R.S., Silva e Silva, L.C., de Souza, M.R. et al. Changes in bovine milk bacterial microbiome from healthy and subclinical mastitis affected animals of the Girolando, Gyr, Guzera, and Holstein breeds. Int Microbiol 25, 803–815 (2022). https://doi.org/10.1007/s10123-022-00267-4
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DOI: https://doi.org/10.1007/s10123-022-00267-4