FeedOmics, an approach to evaluate the functional properties of protein containing feed ingredients

This thesis presents FeedOmics approach as a toolkit, to evaluate (novel) protein containing feed ingredients of different origin considering both their nutritional and functional value in terms of their capacity to support or modify nutrient supply, the animal’s physiology, tissue development and functioning. Such knowledge may contribute to introduce novel and/or alternative protein containing feed ingredients in the diet of livestock, thus creating a sustainable food supply for growing human population.

[1]  W. Block,et al.  EXCRETION OF HISTIDINE AND HISTIDINE DERIVATIVES BY HUMAN SUBJECTS INGESTING PROTEIN FROM DIFFERENT SOURCES. , 1965, The Journal of nutrition.

[2]  Robert C. Wolpert,et al.  A Review of the , 1985 .

[3]  G. Friman,et al.  Urinary excretion of 1-methylhistidine: a qualitative indicator of exogenous 3-methylhistidine and intake of meats from various sources. , 1987, Metabolism: clinical and experimental.

[4]  H. Shinmoto,et al.  Anti-oxidant Activity of Bovine Lactoferrin on Iron/Ascorbate Induced Lipid Peroxidation , 1992 .

[5]  P. G. Reeves,et al.  Development and testing of the AIN-93 purified diets for rodents: results on growth, kidney calcification and bone mineralization in rats and mice. , 1993, The Journal of nutrition.

[6]  N. Yamamoto,et al.  Antihypertensive Effects of Different Kinds of Fermented Milk in Spontaneously Hypertensive Rats , 1994 .

[7]  H. Otani,et al.  Inhibition of proliferative responses of mouse spleen lymphocytes and rabbit Peyer's patch cells by bovine milk caseins and their digests , 1995, Journal of Dairy Research.

[8]  M. Boehm,et al.  Retinoid-induced hypertriglyceridemia in rats is mediated by retinoic acid receptors. , 1996, Fundamental and applied toxicology : official journal of the Society of Toxicology.

[9]  B. Beaufrère,et al.  Slow and fast dietary proteins differently modulate postprandial protein accretion. , 1997, Proceedings of the National Academy of Sciences of the United States of America.

[10]  N. Deutz,et al.  Infusion of soy and casein protein meals affects interorgan amino acid metabolism and urea kinetics differently in pigs. , 1998, The Journal of nutrition.

[11]  T. Myint,et al.  Urinary 1-methylhistidine is a marker of meat consumption in Black and in White California Seventh-day Adventists. , 2000, American journal of epidemiology.

[12]  P. W. van der Wielen,et al.  Role of Volatile Fatty Acids in Development of the Cecal Microflora in Broiler Chickens during Growth , 2000, Applied and Environmental Microbiology.

[13]  C. Hasler,et al.  Effects of feeding 4 levels of soy protein for 3 and 6 wk on blood lipids and apolipoproteins in moderately hypercholesterolemic men. , 2000, The American journal of clinical nutrition.

[14]  B. Beaufrère,et al.  The digestion rate of protein is an independent regulating factor of postprandial protein retention. , 2001, American journal of physiology. Endocrinology and metabolism.

[15]  D. Layman.  The role of leucine in weight loss diets and glucose homeostasis. , 2003, The Journal of nutrition.

[16]  G. Marchesini,et al.  Nutritional supplementation with branched-chain amino acids in advanced cirrhosis: a double-blind, randomized trial. , 2003, Gastroenterology.

[17]  T. Ebbels,et al.  NMR-based metabonomic toxicity classification: hierarchical cluster analysis and k-nearest-neighbour approaches , 2003 .

[18]  I. Rieu,et al.  Leucine-supplemented meal feeding for ten days beneficially affects postprandial muscle protein synthesis in old rats. , 2003, The Journal of nutrition.

[19]  R. Benamouzig,et al.  Postprandial kinetics of dietary amino acids are the main determinant of their metabolism after soy or milk protein ingestion in humans. , 2003, The Journal of nutrition.

[20]  M. Tenenhaus,et al.  Prediction of clinical outcome with microarray data: a partial least squares discriminant analysis (PLS-DA) approach , 2003, Human Genetics.

[21]  M. Barker,et al.  Partial least squares for discrimination , 2003 .

[22]  D. Chinkes,et al.  Leucine supplementation has an anabolic effect on proteins in rabbit skin wound and muscle. , 2004, The Journal of nutrition.

[23]  I. Curran,et al.  Dietary soy protein isolate and isoflavones modulate hepatic thyroid hormone receptors in rats. , 2004, The Journal of nutrition.

[24]  D. Sabatini,et al.  Growing roles for the mTOR pathway. , 2005, Current opinion in cell biology.

[25]  N. Deutz,et al.  Casein and soy protein meals differentially affect whole-body and splanchnic protein metabolism in healthy humans. , 2005, The Journal of nutrition.

[26]  V. Kolb-Bachofen,et al.  The role of nitric oxide. , 2006, Rheumatology.

[27]  Age K. Smilde,et al.  UvA-DARE ( Digital Academic Repository ) Assessment of PLSDA cross validation , 2008 .

[28]  J. Mei,et al.  Dietary soy protein isolate modifies hepatic retinoic acid receptor-beta proteins and inhibits their DNA binding activity in rats. , 2007, The Journal of nutrition.

[29]  Florent E. Angly,et al.  Comparative Metagenomics Reveals Host Specific Metavirulomes and Horizontal Gene Transfer Elements in the Chicken Cecum Microbiome , 2008, PloS one.

[30]  Guoyao Wu,et al.  Dietary l-arginine supplementation enhances the immune status in early-weaned piglets , 2009, Amino Acids.

[31]  L. Fulton,et al.  Diet-induced obesity is linked to marked but reversible alterations in the mouse distal gut microbiome. , 2008, Cell host & microbe.

[32]  A. Cowieson,et al.  Intestinal function and gut microflora of broiler chickens as influenced by cereal grains and microbial enzyme supplementation. , 2009, Journal of animal physiology and animal nutrition.

[33]  D. Schrenk,et al.  Bioactive compounds: definition and assessment of activity. , 2009, Nutrition.

[34]  Giuseppe Palermo,et al.  Performance of PLS regression coefficients in selecting variables for each response of a multivariate PLS for omics-type data , 2009, Advances and applications in bioinformatics and chemistry : AABC.

[35]  Frans M van der Kloet,et al.  Analytical error reduction using single point calibration for accurate and precise metabolomic phenotyping. , 2009, Journal of proteome research.

[36]  Masahito Watanabe,et al.  IN MICE , 2009 .

[37]  R. Owusu-Apenten.  Bioactive Peptides: Applications for Improving Nutrition and Health , 2010 .

[38]  J. Kerry,et al.  Consumer perception and the role of science in the meat industry. , 2010, Meat science.

[39]  Youfang Cao,et al.  Interactions between gut microbiota, host genetics and diet relevant to development of metabolic syndromes in mice , 2010, The ISME Journal.

[40]  Ping Liu,et al.  Serum and Urine Metabolite Profiling Reveals Potential Biomarkers of Human Hepatocellular Carcinoma* , 2011, Molecular & Cellular Proteomics.

[41]  Takeshi Saito,et al.  Metabolomics-Driven Nutraceutical Evaluation of Diverse Green Tea Cultivars , 2011, PloS one.

[42]  T. Hankemeier,et al.  Metabolomics of cerebrospinal fluid reveals changes in the central nervous system metabolism in a rat model of multiple sclerosis , 2011, Metabolomics.

[43]  B. Luhovyy,et al.  Dietary Proteins as Determinants of Metabolic and Physiologic Functions of the Gastrointestinal Tract , 2011, Nutrients.

[44]  A. van Huis,et al.  Insects as a sustainable feed ingredient in pig and poultry diets : a feasibility study = Insecten als duurzame diervoedergrondstof in varkens- en pluimveevoeders : een haalbaarheidsstudie , 2012 .

[45]  A. Fischer,et al.  The future supply of animal-derived protein for human consumption , 2012 .

[46]  Y. Belkaid,et al.  Dietary and commensal derived nutrients: shaping mucosal and systemic immunity. , 2012, Current opinion in immunology.

[47]  W. M. Rauw.  Immune response from a resource allocation perspective , 2012, Front. Gene..

[48]  J. O’Doherty,et al.  Effect of dietary laminarin and fucoidan on selected microbiota, intestinal morphology and immune status of the newly weaned pig , 2013, British Journal of Nutrition.

[49]  H. J. van der Fels-Klerx,et al.  Safety of Novel Protein Sources (Insects, Microalgae, Seaweed, Duckweed, and Rapeseed) and Legislative Aspects for Their Application in Food and Feed Production. , 2013, Comprehensive reviews in food science and food safety.

[50]  M. Kleerebezem,et al.  Regulation of intestinal homeostasis and immunity with probiotic lactobacilli. , 2013, Trends in immunology.

[51]  David S. Wishart,et al.  HMDB 3.0—The Human Metabolome Database in 2013 , 2012, Nucleic Acids Res..

[52]  E. Tourneur,et al.  Neonatal Immune Adaptation of the Gut and Its Role during Infections , 2013, Clinical & developmental immunology.

[53]  A. van Huis.  Potential of insects as food and feed in assuring food security. , 2013, Annual review of entomology.

[54]  R. Sinha,et al.  Urinary 1-methylhistidine and 3-methylhistidine, meat intake, and colorectal adenoma risk , 2014, European journal of cancer prevention : the official journal of the European Cancer Prevention Organisation.

[55]  K. Syrigos,et al.  mTOR pathway: A current, up-to-date mini-review (Review) , 2014, Oncology letters.

[56]  R. Krauss,et al.  Saturated Fats Versus Polyunsaturated Fats Versus Carbohydrates for Cardiovascular Disease Prevention and Treatment. , 2015, Annual review of nutrition.

[57]  C. Kahn,et al.  Interactions between Gut Microbiota, Host Genetics and Diet Modulate the Predisposition to Obesity and Metabolic Syndrome. , 2015, Cell metabolism.

[58]  T. R. Licht,et al.  A catalog of the mouse gut metagenome , 2015, Nature Biotechnology.

[59]  W. M. Rauw,et al.  Genotype by environment interaction and breeding for robustness in livestock , 2015, Front. Genet..

[60]  T. Weichhart,et al.  Regulation of innate immune cell function by mTOR , 2015, Nature Reviews Immunology.

[61]  David S. Wishart,et al.  MetaboAnalyst 3.0—making metabolomics more meaningful , 2015, Nucleic Acids Res..

[62]  B. McEwen,et al.  Mitochondrial functions modulate neuroendocrine, metabolic, inflammatory, and transcriptional responses to acute psychological stress , 2015, Proceedings of the National Academy of Sciences.

[63]  P. Toutain,et al.  Veterinary Medicine Needs New Green Antimicrobial Drugs , 2016, Front. Microbiol..

[64]  Richard D. Smith,et al.  Advances in targeted proteomics and applications to biomedical research , 2016, Proteomics.

[65]  Jianguo Xia,et al.  Using MetaboAnalyst 3.0 for Comprehensive Metabolomics Data Analysis , 2016, Current protocols in bioinformatics.

[66]  A. Jansman.  Health and functions of the gastrointestinal tract in pigs: Effects of functional ingredients and feed and ingredient processing , 2016 .

[67]  L. Che,et al.  A proteomic adaptation of small intestinal mucosa in response to dietary protein limitation , 2016, Scientific Reports.

[68]  D. Lawlor,et al.  Metabolic profiling of pregnancy: cross-sectional and longitudinal evidence , 2016, BMC Medicine.

[69]  Tabassum-Abbasi,et al.  Reducing the global environmental impact of livestock production: the minilivestock option , 2016 .

[70]  Guoyao Wu.  Dietary protein intake and human health. , 2016, Food & function.

[71]  N. Zmora,et al.  The microbiome and innate immunity , 2016, Nature.

[72]  Yulong Yin,et al.  Effects of Weaning on Intestinal Upper Villus Epithelial Cells of Piglets , 2016, PloS one.

[73]  F. Bäckhed,et al.  Diet–microbiota interactions as moderators of human metabolism , 2016, Nature.

[74]  M. Kogut,et al.  Gut Health: The New Paradigm in Food Animal Production , 2016 .

[75]  G. Shu,et al.  EAAT3 promotes amino acid transport and proliferation of porcine intestinal epithelial cells , 2016, Oncotarget.

[76]  W. D. de Vos,et al.  Homeostasis of the gut barrier and potential biomarkers , 2016, American journal of physiology. Gastrointestinal and liver physiology.

[77]  M. Calus,et al.  International Journal of Molecular Sciences the Importance of Endophenotypes to Evaluate the Relationship between Genotype and External Phenotype , 2022 .

[78]  Jian Peng,et al.  The effects of reduced dietary protein level on amino acid transporters and mTOR signaling pathway in pigs. , 2017, Biochemical and biophysical research communications.