Additional file 2 of Integrating on-farm and genomic information improves the predictive ability of milk infrared prediction of blood indicators of metabolic disorders in dairy cows
Creators: name: Mota, Lucio F. M.
name: Giannuzzi, Diana
name: Pegolo, Sara
name: Trevisi, Erminio
name: Ajmone-Marsan, Paolo
name: Cecchinato, Alessio
Publisher: name: figshare
Year: 2023
Subjects: subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Physiology
subject: Pharmacology
subject: Biotechnology
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Marine Biology

description: Additional file 2: Figure S1. Distribution of the phenotypic values for blood metabolites. Distribution of the phenotypic values for blood metabolites. (a) Energy-related metabolites: BHBA: β-hydroxybutyric acid; GLU: glucose and urea; (b) Liver function/hepatic damage: AST: aspartate aminotransferase, GGT: γ-glutamyl transferase and PON: paraoxonase; (c) Oxidative stress metabolites: AOPP: advanced oxidation protein products, FRAP: ferric reducing antioxidant power, ROMt: total reactive oxygen metabolites; (d) Inflammation/innate immunity: CuCp: ceruloplasmin, GLOB: globulins, PROTt: total proteins; and (e) Minerals: Ca: calcium, K: potassium, and Zn: zinc. Figure S2. oxplot of the phenotypic values for blood metabolites. Boxplot of the phenotypic values for blood metabolites across the six classes of days in milk (DIM). (a) Energy-related metabolites: BHBA: β-hydroxybutyric acid; GLU: glucose and urea; (b) Liver function/hepatic damage: AST: aspartate aminotransferase, GGT: γ-glutamyl transferase and PON: paraoxonase; (c) Oxidative stress metabolites: AOPP: advanced oxidation protein products, FRAP: ferric reducing antioxidant power, ROMt: total reactive oxygen metabolites; (d) Inflammation/innate immunity: CuCp: ceruloplasmin, GLOB: globulins, PROTt: total proteins; and (e) Minerals: Ca: calcium, K: potassium, and Zn: zinc. Class of days in milk (DIM): CL1: less than 60 days; CL 2: from 60 to 120 days; CL 3: from 121 to 180 days; CL 4: from 181 to 240 days; CL 5: from 241 to 300 days; and CL 6: higher than &gt; 300 days. Figure S3. Venn diagrams of the most informative milk FTIR wavelengths for blood metabolites using BayesB and gradient boosting machine (GBM). Venn diagrams showing the unique and shared milk FTIR wavelengths explaining more than 0.8% of the phenotypic variability for BayesB and gradient boosting machine (GBM) for blood metabolites. (a) Energy-related metabolites: BHBA: β-hydroxybutyric acid; GLU: glucose and urea; (b) Liver function/hepatic damage: AST: aspartate aminotransferase, GGT: γ-glutamyl transferase and: paraoxonase; (c) Oxidative stress metabolites: AOPP: advanced oxidation protein products, FRAP: ferric reducing antioxidant power, ROMt: total reactive oxygen metabolites; (d) Inflammation/innate immunity: CuCp: ceruloplasmin, GLOB: globulins, PROTt: total proteins; and (e) Minerals: Ca: calcium, K: potassium, and Zn: zinc. Figure S4. Pearson correlation of most informative wavelength regions with blood metabolites. Pearson correlation between wavelength regions explains more than 0.8% of the phenotypic variability in the GBM approach and blood metabolites in the Holstein cow population. AOPP: advanced oxidation protein products; AST: aspartate aminotransferase; BHBA: β-hydroxybutyric acid; Ca: calcium; CuCp: ceruloplasmin; FRAP: ferric reducing antioxidant power; GGT: γ-glutamyl transferase; GLOB:globulins; GLU: glucose; K: potassium; PON: paraoxonase; PROTt: total proteins; ROMt: total reactive oxygen metabolites; Zn: zinc.