Staff Publications

Staff Publications

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    'Staff publications' is the digital repository of Wageningen University & Research

    'Staff publications' contains references to publications authored by Wageningen University staff from 1976 onward.

    Publications authored by the staff of the Research Institutes are available from 1995 onwards.

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Fecal microbial composition associated with variation in feed efficiency in pigs depends on diet and sex
Verschuren, Lisanne M.G. ; Calus, Mario P.L. ; Jansman, Alfons J.M. ; Bergsma, Rob ; Knol, Egbert F. ; Gilbert, Hélène ; Zemb, Olivier - \ 2018
Journal of Animal Science 96 (2018)4. - ISSN 0021-8812 - p. 1405 - 1418.
Diet - Fecal microbiome - Feed efficiency - Pig - Sex
Dietary fiber content and composition affect microbial composition and activity in the gut, which in turn influence energetic contribution of fermentation products to the metabolic energy supply in pigs. This may affect feed efficiency (FE) in pigs. The present study investigated the relationship between the fecal microbial composition and FE in individual growing-finishing pigs. In addition, the effects of diet composition and sex on the fecal microbiome were studied. Fecal samples were collected of 154 grower-finisher pigs (3-way crossbreeds) the day before slaughter. Pigs were either fed a diet based on corn/soybean meal (CS) or a diet based on wheat/barley/by-products (WB). Fecal microbiome was characterized by 16S ribosomal DNA sequencing, clustered by operational taxonomic unit (OTU), and results were subjected to a discriminant approach combined with principal component analysis to discriminate diets, sexes, and FE extreme groups (10 high and 10 low FE pigs for each diet by sex-combination). Pigs on different diets and males vs. females had a very distinct fecal microbiome, needing only 2 OTU for diet (P = 0.020) and 18 OTU for sex (P = 0.040) to separate the groups. The 2 most important OTU for diet, and the most important OTU for sex, were taxonomically classified as the same bacterium. In pigs fed the CS diet, there was no significant association between FE and fecal microbiota composition based on OTU (P > 0.05), but in pigs fed the WB diet differences in FE were associated with 17 OTU in males (P = 0.018) and to 7 OTU in females (P = 0.010), with 3 OTU in common for both sexes. In conclusion, our results showed a diet and sex-dependent relationship between FE and the fecal microbial composition at slaughter weight in grower-finisher pigs.
Ranavirus genotypes in Netherlands and their potential association with virulence in water frogs (Pelophylax spp.) article
Saucedo, Bernardo ; Hughes, Joseph ; Spitzen-Van Der Sluijs, Annemarieke ; Kruithof, Natasja ; Schills, Marc ; Rijks, Jolianne M. ; Jacinto-Maldonado, Mónica ; Suarez, Nicolás ; Haenen, Olga L.M. ; Voorbergen-Laarman, Michal ; Broek, Jan Van Den; Gilbert, Maarten ; Gröne, Andrea ; Beurden, Steven J. Van; Verheije, M.H. - \ 2018
Emerging Microbes and Infections 7 (2018)1. - ISSN 2222-1751
Ranaviruses are pathogenic viruses for poikilothermic vertebrates worldwide. The identification of a common midwife toad virus (CMTV) associated with massive die-offs in water frogs (Pelophylax spp.) in Netherlands has increased awareness for emerging viruses in amphibians in the country. Complete genome sequencing of 13 ranavirus isolates collected from ten different sites in the period 2011-2016 revealed three CMTV groups present in distinct geographical areas in Netherlands. Phylogenetic analysis showed that emerging viruses from the northern part of Netherlands belonged to CMTV-NL group I. Group II and III viruses were derived from the animals located in the center-east and south of the country, and shared a more recent common ancestor to CMTV-amphibian associated ranaviruses reported in China, Italy, Denmark, and Switzerland. Field monitoring revealed differences in water frog host abundance at sites where distinct ranavirus groups occur; with ranavirus-associated deaths, host counts decreasing progressively, and few juveniles found in the north where CMTV-NL group I occurs but not in the south with CMTV-NL group III. Investigation of tandem repeats of coding genes gave no conclusive information about phylo-geographical clustering, while genetic analysis of the genomes revealed truncations in 17 genes across CMTV-NL groups II and III compared to group I. Further studies are needed to elucidate the contribution of these genes as well as environmental variables to explain the observed differences in host abundance.
Short communication : Supplementation of fructo-oligosaccharides does not improve insulin sensitivity in heavy veal calves fed different sources of carbohydrates
Pantophlet, Andre J. ; Gilbert, M.S. ; Gerrits, W.J.J. ; Vonk, R.J. - \ 2017
Journal of Dairy Science 100 (2017)11. - ISSN 0022-0302 - p. 9442 - 9446.
Fructo-oligosaccharides - Insulin sensitivity - Milk replacer - Veal calf

Heavy veal calves (4-6 mo old) often develop problems with insulin sensitivity. This could lead to metabolic disorders and impaired animal growth performance. Studies in various animal species have shown that the supplementation of short-chain fructo-oligosaccharides (scFOS) can improve insulin sensitivity. We therefore studied the effects of scFOS supplementation on insulin sensitivity in heavy veal calves. Forty male Holstein-Friesian calves (BW = 190 ± 2.9 kg; age = 162 ± 1.4 d at the start of the trial) were fed either a control milk replacer (MR) diet or a diet in which one-third of the lactose was replaced by glucose, fructose, or glycerol for 10 wk prior to the start of the trial. At the start of the trial, calves were subjected to a frequently sampled intravenous glucose tolerance test to assess whole-body insulin sensitivity (muscle and hepatic insulin sensitivity). Calves within each dietary treatment group were ranked based on their insulin sensitivity value. Half of the calves received scFOS (12 mg/kg of BW) with the MR for 6 wk (supplementation was equally distributed over the insulin sensitivity range). Subsequently, a second frequently sampled intravenous glucose tolerance test was conducted to assess the effect of scFOS. In addition, fasting plasma levels of glucose, insulin, triglycerides, and cholesterol were determined to calculate the quantitative insulin sensitivity check index and triglyceride:high-density lipoprotein cholesterol ratio (fasting indicators of insulin sensitivity). Whole-body insulin sensitivity was low at the start of the trial and remained low in all groups [1.0 ± 0.1 and 0.8 ± 0.1 (mU/L)-1 · min-1 on average, respectively]. Supplementation of scFOS did not improve insulin sensitivity in any of the treatment groups. The quantitative insulin sensitivity check index and the triglyceride:high-density lipoprotein cholesterol ratio also did not differ between scFOS and non-scFOS calves and averaged 0.326 ± 0.003 and 0.088 ± 0.004, respectively, at the end of the trial. We conclude that scFOS supplementation does not improve insulin sensitivity in heavy veal calves regardless of the carbohydrate composition of the MR. This is in contrast to other animals (e.g., dogs and horses), where scFOS supplementation did improve insulin sensitivity. The absence of an effect of scFOS might be related to the dosage or to metabolic differences between ruminants and nonruminants. Increasing evidence indicates that dietary interventions in veal calves have little or no effect on insulin sensitivity, possibly because of low levels of insulin sensitivity.

Feed efficiency and the faecal microbiome at slaughter weight in pigs
Verschuren, L.M.G. ; Calus, M.P.L. ; Jansman, A.J.M. ; Bergsma, R. ; Knol, E.F. ; Gilbert, H. ; Zemb, O. - \ 2017
- 1 p.
Feed efficiency (FE) is an important trait in the pig industry, as feed costs are responsible for the major part of production costs. Availability in the market and cost of feed ingredients dictate changes in feed composition. As a result, fibre level and composition can vary between pig diets. Microbiota in the gastrointestinal tract play an important role in fibre digestion, because they produce enzymes that break down fibre structures and deliver volatile fatty acids to the pig. These volatile fatty acids can be used as metabolic energy source. As such, microbial fermentation could influence FE in pigs. The aim of this study was to investigate the association between FE and faecal microbiome in commercial grower-finisher pigs. Three-way crossbreed grower-finisher pigs (154) were either fed a diet based on corn/soybean meal (CS) or a diet based on wheat/barley (WB). Faecal samples were collected on the day before slaughter (mean bodyweight 122 kg) and sequenced for the V3V4 16S ribosomal DNA regions. Sequences were clustered according to operational taxonomic units (OTU) for each individual, forming a table of OTU abundancy. A partial least square regression was applied to the dataset, together with a discriminant analysis using principal components of FE extreme groups (10 high and 10 low FE animals for each diet x sex-combination). Pigs on different diets and males vs. females had a very distinct microbiome, needing only two OTUs for diet (P=0.018) and 18 OTUs for sex (P=0.002) to separate the groups. Faecal microbiome was not related to FE groups fed the CS diet, but there were sex specific OTUs related to FE in the male and female pigs in the groups fed the WB diet. In conclusion, our results show a diet and sex dependent relationship between the faecal microbial composition and FE in grower-finisher pigs at slaughter weight. This study is part of the Feed-a-Gene Project, funded from the European Union’s H2020 Programme under grant agreement no 633531.
Whole genome-based phylogeny of reptile-associated Helicobacter indicates independent niche adaptation followed by diversification in a poikilothermic host
Gilbert, Maarten J. ; Duim, Birgitta ; Timmerman, Arjen J. ; Zomer, Aldert L. ; Wagenaar, Jaap A. - \ 2017
Scientific Reports 7 (2017). - ISSN 2045-2322 - 8 p.

Reptiles have been shown to host a significant Helicobacter diversity. In order to survive, reptile-associated Helicobacter lineages need to be adapted to the thermally dynamic environment encountered in a poikilothermic host. The whole genomes of reptile-associated Helicobacter lineages can provide insights in Helicobacter host adaptation and coevolution. These aspects were explored by comparing the genomes of reptile-, bird-, and mammal-associated Helicobacter lineages. Based on average nucleotide identity, all reptile-associated Helicobacter lineages in this study could be considered distinct species. A whole genome-based phylogeny showed two distinct clades, one associated with chelonians and one associated with lizards. The phylogeny indicates initial adaptation to an anatomical niche, which is followed by an ancient host jump and subsequent diversification. Furthermore, the ability to grow at low temperatures, which might reflect thermal adaptation to a reptilian host, originated at least twice in Helicobacter evolution. A putative tricarballylate catabolism locus was specifically present in Campylobacter and Helicobacter isolates from reptiles. The phylogeny of reptile-associated Helicobacter parallels host association, indicating a high level of host specificity. The high diversity and deep branching within these clades supports long-term coevolution with, and extensive radiation within the respective reptilian host type.

Only 7% of the variation in feed efficiency in veal calves can be predicted from variation in feeding motivation, digestion, metabolism, immunology, and behavioral traits in early life
Gilbert, M.S. ; Borne, J.J.G.C. van den; Reenen, C.G. van; Gerrits, W.J.J. - \ 2017
Journal of Dairy Science 100 (2017)10. - ISSN 0022-0302 - p. 8087 - 8101.
Feed efficiency - Glycerol - Growth performance - Lactose - Veal calf

High interindividual variation in growth performance is commonly observed in veal calf production and appears to depend on milk replacer (MR) composition. Our first objective was to examine whether variation in growth performance in healthy veal calves can be predicted from early life characterization of these calves. Our second objective was to determine whether these predictions differ between calves that are fed a high- or low-lactose MR in later life. A total of 180 male Holstein-Friesian calves arrived at the facilities at 17 ± 3.4 d of age, and blood samples were collected before the first feeding. Subsequently, calves were characterized in the following 9 wk (period 1) using targeted challenges related to traits within each of 5 categories: feeding motivation, digestion, postabsorptive metabolism, behavior and stress, and immunology. In period 2 (wk 10-26), 130 calves were equally divided over 2 MR treatments: a control MR that contained lactose as the only carbohydrate source and a low-lactose MR in which 51% of the lactose was isocalorically replaced by glucose, fructose, and glycerol (2:1:2 ratio). Relations between early life characteristics and growth performance in later life were assessed in 117 clinically healthy calves. Average daily gain (ADG) in period 2 tended to be greater for control calves (1,292 ± 111 g/d) than for calves receiving the low-lactose MR (1,267 ± 103 g/d). Observations in period 1 were clustered per category using principal component analysis, and the resulting principal components were used to predict performance in period 2 using multiple regression procedures. Variation in observations in period 1 predicted 17% of variation in ADG in period 2. However, this was mainly related to variation in solid feed refusals. When ADG was adjusted to equal solid feed intake, only 7% of the variation in standardized ADG in period 2, in fact reflecting feed efficiency, could be explained by early life measurements. This indicates that >90% of the variation in feed efficiency in later life could not be explained by early life characterization of the calves. It is speculated that variation in health status explains a substantial portion of variation in feed efficiency in later life. Significant relations between fasting plasma glucose concentrations, fecal pH, drinking speed, and plasma natural antibodies in early life (i.e., not exposed to the lactose replacer) and feed efficiency in later life depended on MR composition. These measurements are therefore potential tools for screening calves in early life on their ability to cope with MR varying in lactose content.

Campylobacter pinnipediorum sp. Nov., isolated from pinnipeds, comprising Campylobacter pinnipediorum subsp. pinnipediorum subsp. nov. and Campylobacter pinnipediorum subsp. caledonicus subsp. nov
Gilbert, Maarten J. ; Miller, William G. ; St. Leger, Judy ; Chapman, Mary H. ; Timmerman, Arjen J. ; Duim, Birgitta ; Foster, Geoffrey ; Wagenaar, Jaap A. - \ 2017
International Journal of Systematic and Evolutionary Microbiology 67 (2017)6. - ISSN 1466-5026 - p. 1961 - 1968.
Average nucleotide identity - Campylobacter - Novel species - Pinnipeds - Urease - Whole genome sequencing

During independent diagnostic screenings of otariid seals in California (USA) and phocid seals in Scotland (UK), Campylobacter-like isolates, which differed from the established taxa of the genus Campylobacter, were cultured from abscesses and internal organs of different seal species. A polyphasic study was undertaken to determine the taxonomic position of these six isolates. The isolates were characterized by 16S rRNA gene and AtpA sequence analysis and by conventional phenotypic testing. The whole-genome sequences were determined for all isolates, and the average nucleotide identity (ANI) was determined. The isolates formed a separate phylogenetic clade, divergent from all other taxa of the genus Campylobacter and most closely related to Campylobactermucosalis. Although all isolates showed 100 % 16S rRNA gene sequence homology, AtpA and ANI analyses indicated divergence between the otariid isolates from California and the phocid isolates from Scotland, which warrants subspecies status for each clade. The two subspecies could also be distinguished phenotypically on the basis of catalase activity. This study shows clearly that the isolates obtained from pinnipeds represent a novel species within the genus Campylobacter, for which the name Campylobacter pinnipediorum sp. nov. is proposed. Within this novel species, the Californian isolates represent a separate subspecies, for which the name C. pinnipediorum subsp. pinnipediorum subsp. nov. is proposed. The type strain for both this novel species and subspecies is RM17260T (=LMG 29472T=CCUG 69570T). The Scottish isolates represent another subspecies, for which the name C. pinnipediorum subsp. caledonicus subsp. nov. is proposed. The type strain of this subspecies is M302/10/6T (=LMG 29473T=CCUG 68650T).

Connecting Earth observation to high-throughput biodiversity data
Bush, Alex ; Sollmann, Rahel ; Wilting, Andreas ; Bohmann, Kristine ; Cole, Beth ; Balzter, Heiko ; Martius, Christopher ; Zlinszky, András ; Calvignac-Spencer, Sébastien ; Cobbold, Christina A. ; Dawson, Terence P. ; Emerson, Brent C. ; Ferrier, Simon ; Gilbert, M.T.P. ; Herold, Martin - \ 2017
Nature Ecology & Evolution 1 (2017)7. - ISSN 2397-334X - 9 p.
Understandably, given the fast pace of biodiversity loss, there is much interest in using Earth observation technology to track
biodiversity, ecosystem functions and ecosystem services. However, because most biodiversity is invisible to Earth observation,
indicators based on Earth observation could be misleading and reduce the effectiveness of nature conservation and even
unintentionally decrease conservation effort. We describe an approach that combines automated recording devices, highthroughput
DNA sequencing and modern ecological modelling to extract much more of the information available in Earth
observation data. This approach is achievable now, offering efficient and near-real-time monitoring of management impacts
on biodiversity and its functions and services.
Measuring temporal liking simultaneously to Temporal Dominance of Sensations in several intakes. An application to Gouda cheeses in 6 Europeans countries
Thomas, A. ; Chambault, M. ; Dreyfuss, L. ; Gilbert, C.C. ; Hegyi, A. ; Henneberg, S. ; Knippertz, A. ; Kostyra, E. ; Kremer, S. ; Silva, A.P. ; Schlich, P. - \ 2017
Food Research International 99 (2017)1. - ISSN 0963-9969 - p. 426 - 434.
Gouda cheese - Liking - Temporal Dominance of Sensations (TDS) - Temporal Drivers of Liking (TDL)
The idea of having untrained consumers performing Temporal Dominance of Sensations (TDS) and dynamic liking in the same session was recently introduced (Thomas, van der Stelt, Prokop, Lawlor, & Schlich, 2016). In the present study, a variation of the data acquisition protocol was done, aiming to record TDS and liking simultaneously on the same screen in a single session during multiple product intakes. This method, called Simultaneous Temporal Drivers of Liking (S-TDL), was used to describe samples of Gouda cheese in an international experiment.To test this idea, consumers from six European countries (n = 667) assessed 4 Gouda cheeses with different ages and fat contents during one sensory evaluation session. Ten sensory attributes and a 9-point hedonic scale were presented simultaneously on the computer screen. While performing TDS, consumers could reassess their liking score as often as they wanted. This new type of sensory data was coded by individual average liking scores while a given attribute was perceived as dominant (Liking While Dominant; LWD).Although significant differences in preference were observed among countries, there were global preferences for a longer dominance of melting, fatty and tender textures. The cheese flavour attribute was the best positive TDL, whereas bitter was a strong negative TDL. A cluster analysis of the 667 consumers identified three significant liking clusters, each with different most and least preferred samples. For the TDL computation by cluster, significant specific TDL were observed. These results showed the importance of overall liking segmentation before TDL analysis to determine which attributes should have a longer dominance duration in order to please specific consumer targets.
Green compressed fluid technologies for downstream processing of Scenedesmus obliquus in a biorefinery approach
Gilbert-López, Bienvenida ; Mendiola, José A. ; Broek, Lambertus A.M. van den; Houweling-Tan, Bwee ; Sijtsma, Lolke ; Cifuentes, Alejandro ; Herrero, Miguel ; Ibáñez, Elena - \ 2017
Algal Research 24 (2017). - ISSN 2211-9264 - p. 111 - 121.
Algae - Biorefinery - Carotenoid - Lipid - Pressurized liquid extraction - Supercritical fluid extraction

The fractionation of algae biomass in several high-value compounds that can be used as ingredients in other applications sets the basis of the algae biorefinery approach. The present study aimed at the extraction and fractionation of bioactive compounds from the microalga Scenedesmus obliquus, by means of applying a sequential process without the manipulation of the biomass in the extraction cell. This integrated platform of compressed fluid extraction technologies of low-environmental impact was designed in order to produce increases of solvent polarity using non-toxic solvents. The process involved the following steps:(1) supercritical fluid extraction (SFE) using supercritical carbon dioxide (ScCO2); (2) gas expanded liquids (GXL) using 75% ethanol and 25% ScCO2 (v/v) and; (3) pressurized liquid extraction (PLE) using water. Extraction conditions were optimized using response surface methodology (RSM) and kinetic studies. Extraction yield, antioxidant activity as well as contents of total phenols, carotenoids, proteins and sugars were the studied response variables. High performance liquid chromatography coupled to evaporative light-scattering detector (HPLC-ELSD) analyses of the fractions revealed that triacylglycerols were mainly extracted by SFE. Lutein and β-carotene were the main pigments identified in the extracts by HPLC coupled to diode array and mass spectrometry detectors (HPLC-DAD-MS/MS), which were preferentially extracted in the GXL step. Polar compounds such as proteins and sugars remained predominantly in the residue. Therefore, the green downstream platform developed in this study for valorization of the microalgae biomass, is able to produce different fractions with potential application in the food, pharmaceutical and cosmetic industries.

Comparative Genomics of Campylobacter fetus from Reptilesand Mammals Reveals Divergent Evolution in Host-Associated Lineages
Gilbert, Maarten J. ; Miller, William G. ; Yee, Emma ; Zomer, Aldert ; Graaf-Van Bloois, Linda Van Der; Fitzgerald, C. ; Forbes, Ken J. ; Méric, Guillaume ; Sheppard, S. ; Wagenaar, J.A. ; Duim, Birgitta - \ 2016
Genome Biology and Evolution 8 (2016)6. - ISSN 1759-6653 - p. 2006 - 2019.
Campylobacter fetus currently comprises three recognized subspecies, which display distinct host association. Campylobacter fetus subsp. fetus and C. fetus subsp. venerealis are both associated with endothermic mammals, primarily ruminants, whereas C. fetus subsp. testudinum is primarily associated with ectothermic reptiles. Both C. fetus subsp. testudinum and C. fetus subsp. fetus have been associated with severe infections, often with a systemic component, in immunocompromised humans. To study the genetic factors associated with the distinct host dichotomy in C. fetus, whole-genome sequencing and comparison of mammal- and reptile-associated C. fetus was performed. The genomes of C. fetus subsp. testudinum isolated from either reptiles or humans were compared with elucidate the genetic factors associated with pathogenicity in humans. Genomic comparisons showed conservation of gene content and organization among C. fetus subspecies, but a clear distinction between mammal- and reptile-associated C. fetus was observed. Several genomic regions appeared to be subspecies specific, including a putative tricarballylate catabolism pathway, exclusively present in C. fetus subsp. testudinum strains. Within C. fetus subsp. testudinum, sapA, sapB, and sapAB type strains were observed. The recombinant locus iamABC (mlaFED) was exclusively associated with invasive C. fetus subsp. testudinum strains isolated from humans. A phylogenetic reconstruction was consistent with divergent evolution in host-associated strains and the existence of a barrier to lateral gene transfer between mammal- and reptile-associated C. fetus. Overall, this study shows that reptile-associated C. fetus subsp. testudinum is genetically divergent from mammal-associated C. fetus subspecies.
Safe food and feed through an integrated toolbox for mycotoxin management: the MyToolBox approach
Krska, R. ; Nijs, M. De; Mcnerney, O. ; Pichler, M. ; Gilbert, J. ; Edwards, S. ; Suman, M. ; Magan, N. ; Rossi, V. ; Fels, Ine van der; Bagi, F. ; Poschmaier, B. ; Sulyok, M. ; Berthiller, F. ; Egmond, H.P. Van - \ 2016
World Mycotoxin Journal 9 (2016)4. - ISSN 1875-0710 - p. 487 - 495.
There is a pressing need to mobilise the wealth of knowledge from the international mycotoxin research conductedover the past 25-30 years, and to perform cutting-edge research where knowledge gaps still exist. This knowledgeneeds to be integrated into affordable and practical tools for farmers and food processors along the chain inorder to reduce the risk of mycotoxin contamination of crops, feed and food. This is the mission of MyToolBox – a four-year project which has received funding from the European Commission. It mobilises a multi-actorpartnership (academia, farmers, technology small and medium sized enterprises, food industry and policystakeholders) to develop novel interventions aimed at achieving a significant reduction in crop losses due tomycotoxin contamination. Besides a field-to-fork approach, MyToolBox also considers safe use options ofcontaminated batches, such as the efficient production of biofuels. Compared to previous efforts of mycotoxin reduction strategies, the distinguishing feature of MyToolBox is to provide the recommended measures to theend users along the food and feed chain in a web-based MyToolBox platform (e-toolbox). The project focuseson small grain cereals, maize, peanuts and dried figs, applicable to agricultural conditions in the EU and China. Crop losses using existing practices are being compared with crop losses after novel pre-harvest interventionsincluding investigation of genetic resistance to fungal infection, cultural control (e.g. minimum tillage or cropdebris treatment), the use of novel biopesticides suitable for organic farming, competitive biocontrol treatment and development of novel modelling approaches to predict mycotoxin contamination. Research into post-harvestmeasures includes real-time monitoring during storage, innovative sorting of crops using vision-technology, novelmilling technology and studying the effects of baking on mycotoxins at an industrial scale.
Predicting variation in feed efficiency in veal calves by early life characterization
Gilbert, M.S. ; Borne, J.J.G.C. van den; Reenen, C.G. van; Gerrits, W.J.J. - \ 2016
In: Energy and protein metabolism and nutrition. - Wageningen Academic Publishers (EAAP publication 137) - ISBN 9789086862863 - p. 75 - 76.
Predicting variation in feed efficiency in veal calves by early life characterization
Gilbert, Myrthe - \ 2016
Comparative genomics of campylobacter iguaniorum to unravel genetic regions associated with reptilian hosts
Gilbert, Maarten J. ; Miller, William G. ; Yee, Emma ; Kik, Marja ; Zomer, Aldert L. ; Wagenaar, Jaap A. ; Duim, Birgitta - \ 2016
Genome Biology and Evolution 8 (2016)9. - ISSN 1759-6653 - p. 3022 - 3029.
Campylobacter Iguaniorum - Comparative Genomics - Evolution - Phylogeny - Recombination - Reptile

Campylobacter iguaniorum is most closely related to the species C. fetus, C. hyointestinalis, andC. lanienae. Reptiles, chelonians and lizards in particular, appear to be a primary reservoir of this Campylobacter species. Here we report the genome comparison of C. iguaniorumstrain 1485E, isolated from a bearded dragon (Pogona vitticeps), and strain 2463D, isolated froma green iguana (Iguana iguana), with the genomes of closely related taxa, in particular with reptile-Associated C. fetus subsp.Testudinum. In contrast to C. fetus, C. iguaniorum is lacking an S-layer encoding region. Furthermore, a defined lipooligosaccharide biosynthesis locus, encoding multiple glycosyltransferases and bounded by waa genes, is absent from C. iguaniorum. Instead, multiple predicted glycosylation regionswere identified inC. iguaniorum.One of these regions is>50 kb withdeviantG+Ccontent, suggesting acquisition via lateral transfer. These similar, but non-homologous glycosylation regions were located at the same position on the genome in both strains. Multiple genes encoding respiratory enzymes not identified to date within the C. fetus clade were present. C. iguaniorum shared highest homology with C. hyointestinalis and C. fetus. As in reptile-Associated C. fetus subsp.Testudinum, a putative tricarballylate catabolism locus was identified. However, despite colonizing a shared host, no recent recombination between both taxa was detected. This genomic study provides a better understanding of host adaptation, virulence, phylogeny, and evolution of C. iguaniorum and related Campylobacter taxa.

Herstel en ontwikkeling van laagdynamische, aquatische systemen in het rivierengebied
Arts, Gertie ; Verdonschot, Ralf ; Maas, Gilbert ; Massop, Harry ; Ottburg, Fabrice ; Weeda, Eddy - \ 2016
Driebergen : Vereniging van Bos- en Natuurterreineigenaren, VBNE (Alterra-rapport 2729) - 128
aquatische ecosystemen - aquatisch milieu - ecologisch herstel - rivierengebied - nederland - aquatic ecosystems - aquatic environment - ecological restoration - netherlands
Na een inleiding (Hoofdstuk 1) beschrijft het rapport achtereenvolgens de macro-evertebraten (Hoofdstuk 2); de vissen, amfibieën en reptielen (Hoofdstuk 3); en de waterplanten van het rivierengebied (Hoofdstuk 4). Hoofdstuk 5 beschrijft de uitgevoerde GIS analyse en presenteert de resultaten en de kansenkaarten. Alle gegenereerde kaarten zijn opgenomen in twee bijlagerapporten. Hoofdstuk 6 geeft een discussie van het uitgevoerde onderzoek ten aanzien van de methode, de beschikbare gegevens en de analyse en plaatst de resultaten in het licht van uitgevoerde herstelmaatregelen in het rivierengebied. Hoofdstuk 7 vat de voornaamste conclusies samen. Hoofdstuk 8 geeft een overzicht van de gebruikte literatuur.
Insulin sensitivity in calves decreases substantially during the first 3 months of life and is unaffected by weaning or fructo-oligosaccharide supplementation
Pantophlet, A.J. ; Gilbert, M.S. ; Borne, J.J.G.C. van den; Gerrits, W.J.J. ; Priebe, M.G. ; Vonk, R.J. - \ 2016
Journal of Dairy Science 99 (2016)9. - ISSN 0022-0302 - p. 7602 - 7611.
Veal calves at the age of 4 to 6 mo often experience problems with glucose homeostasis, as indicated by postprandial hyperglycemia, hyperinsulinemia, and insulin resistance. It is not clear to what extent the ontogenetic development of calves or the feeding strategy [e.g., prolonged milk replacer (MR) feeding] contribute to this pathology. The objective of this study was therefore to analyze effects of MR feeding, weaning, and supplementation of short-chain fructo-oligosaccharides (FOS) on the development of glucose homeostasis and insulin sensitivity in calves during the first 3 mo of life. Thirty male Holstein-Friesian calves (18 ± 0.7 d of age) were assigned to 1 of 3 dietary treatments: the control (CON) group received MR only, the FOS group received MR with the addition of short-chain FOS, and the solid feed (SF) group was progressively weaned to SF. The CON and FOS calves received an amount of MR, which gradually increased (from 400 to 1,400 g/d) during the 71-d trial period. For the SF calves, the amount of MR increased from 400 to 850 g/d at d 30, and then gradually decreased, until completely weaned to only SF at d 63. The change in whole body insulin sensitivity was assessed by intravenous glucose tolerance tests. Milk tolerance tests were performed twice to assess changes in postprandial blood glucose, insulin, and nonesterified fatty acid responses. Whole-body insulin sensitivity was high at the start (16.7 ± 1.6 × 10−4 [μU/mL]−1), but decreased with age to 4.2 ± 0.6 × 10−4 [μU/mL]−1 at the end of the trial. The decrease in insulin sensitivity was most pronounced (∼70%) between d 8 and 29 of the trial. Dietary treatments did not affect the decrease in insulin sensitivity. For CON and FOS calves, the postprandial insulin response was 3-fold higher at the end of the trial than at the start, whereas the glucose response remained similar. The SF calves, however, showed pronounced hyperglycemia and hyperinsulinemia at the end of the trial, although weaning did not affect insulin sensitivity. We conclude that whole body insulin sensitivity decreases by 75% in calves during the first 3 mo of life. Weaning or supplementation of short-chain FOS does not affect this age-related decline in insulin sensitivity. Glucose homeostasis is not affected by supplementation of short-chain FOS in young calves, whereas postprandial responses of glucose and insulin to a MR meal strongly increase after weaning.
Redirection of auxin flow in Arabidopsis thaliana roots after infection by root-knot nematodes
Kyndt, Tina ; Goverse, Aska ; Haegeman, Annelies ; Warmerdam, Sonja ; Wanjau, Cecilia ; Jahani, Mona ; Engler, Gilbert ; Almeida Engler, Janice De; Gheysen, Godelieve - \ 2016
Journal of Experimental Botany 67 (2016)15. - ISSN 0022-0957 - p. 4559 - 4570.
Plant-parasitic root-knot nematodes induce the formation of giant cells within the plant root, and it has been recognized that auxin accumulates in these feeding sites. Here, we studied the role of the auxin transport system governed by AUX1/LAX3 influx proteins and different PIN efflux proteins during feeding site development in Arabidopsis thaliana roots. Data generated via promoter–reporter line and protein localization analyses evoke a model in which auxin is being imported at the basipetal side of the feeding site by the concerted action of the influx proteins AUX1 and LAX3, and the efflux protein PIN3. Mutants in auxin influx proteins AUX1 and LAX3 bear significantly fewer and smaller galls, revealing that auxin import into the feeding sites is needed for their development and expansion. The feeding site development in auxin export (PIN) mutants was only slightly hampered. Expression of some PINs appears to be suppressed in galls, probably to prevent auxin drainage. Nevertheless, a functional PIN4 gene seems to be a prerequisite for proper nematode development and gall expansion, most likely by removing excessive auxin to stabilize the hormone level in the feeding site. Our data also indicate a role of local auxin peaks in nematode attraction towards the root
The effect of replacing lactose by starch on protein and fat digestion in milk-fed veal calves
Pluschke, A.M. ; Gilbert, M.S. ; Williams, B.A. ; Borne, J.J.G.C. van den; Schols, H.A. ; Gerrits, W.J.J. - \ 2016
Animal 10 (2016)8. - ISSN 1751-7311 - p. 1296 - 1302.
lipase - milk-fed calf - starch - trypsin - α-amylase

Replacing dairy components from milk replacer (MR) with vegetable products has been previously associated with decreased protein and fat digestibility in milk-fed calves resulting in lower live weight gain. In this experiment, the major carbohydrate source in MR, lactose, was partly replaced with gelatinized corn starch (GCS) to determine the effect on protein and fat digestibility in milk-fed calves. In total, 16 male Holstein-Friesian calves received either MR with lactose as the carbohydrate source (control) or 18% GCS at the expense of lactose. In the adaptation period, calves were exposed to an increasing dose of GCS for 14 weeks. The indigestible marker cobalt ethylenediaminetetraacetic acid was incorporated into the MR for calculating apparent nutrient digestibility, whereas a pulse dose of chromium (Cr) chloride was fed with the last MR meal 4 h before slaughter as an indicator of passage rates. The calves were anesthetized and exsanguinated at 30 weeks of age. The small intestine was divided in three; small intestine 1 and 2 (SI1 and SI2, respectively) and the terminal ileum (last ~100 cm of small intestine) and samples of digesta were collected. Small intestinal digesta was analysed for α-amylase, lipase and trypsin activity. Digestibility of protein was determined for SI1, SI2, ileum and total tract, whereas digestibility of fat was determined for SI1, SI2 and total tract. Apparent protein digestibility in the small intestine did not differ between treatments but was higher in control calves at total tract level. Apparent crude fat digestibility tended to be increased in SI1 and SI2 for GCS calves, but no difference was found at total tract level. Activity of α-amylase in SI2 and lipase in both SI1 and SI2 was higher in GCS calves. Activity of trypsin tended to be higher in control calves and was higher in SI1 compared with SI2. A lower recovery of Cr in SI2 and a higher recovery of Cr in the large intestine suggest an increased rate of passage for GCS calves. Including 18% of GCS in a milk replacer at the expense of lactose increased passage rate and decreased apparent total tract protein digestibility. In the small intestine, protein digestion did not decrease when feeding GCS and fat digestion even tended to increase. Overall, effects on digestion might be levelled when partially replacing lactose with GCS, because starch digestion is lower than that of lactose but fat digestion may be slightly increased when feeding GCS.

Lactose in milk replacer can partly be replaced by glucose, fructose, or glycerol without affecting insulin sensitivity in veal calves
Pantophlet, A.J. ; Gilbert, M.S. ; Borne, J.J.G.C. van den; Gerrits, W.J.J. ; Roelofsen, H. ; Priebe, M.G. ; Vonk, R.J. - \ 2016
Journal of Dairy Science 99 (2016)4. - ISSN 0022-0302 - p. 3072 - 3080.
Fructose - Glucose homeostasis - Glycerol - Insulin sensitivity - Veal calves

Calf milk replacer (MR) contains 40 to 50% lactose. Lactose strongly fluctuates in price and alternatives are desired. Also, problems with glucose homeostasis and insulin sensitivity (i.e., high incidence of hyperglycemia and hyperinsulinemia) have been described for heavy veal calves (body weight >100 kg). Replacement of lactose by other dietary substrates can be economically attractive, and may also positively (or negatively) affect the risk of developing problems with glucose metabolism. An experiment was designed to study the effects of replacing one third of the dietary lactose by glucose, fructose, or glycerol on glucose homeostasis and insulin sensitivity in veal calves. Forty male Holstein-Friesian (body weight = 114 ± 2.4 kg; age = 97 ± 1.4 d) calves were fed an MR containing 462 g of lactose/kg (CON), or an MR in which 150 g of lactose/kg of MR was replaced by glucose (GLU), fructose (FRU), or glycerol (GLY). During the first 10 d of the trial, all calves received CON. The CON group remained on this diet and the other groups received their experimental diets for a period of 8 wk. Measurements were conducted during the first (baseline) and last week of the trial. A frequently sampled intravenous glucose tolerance test was performed to assess insulin sensitivity and 24 h of urine was collected to measure glucose excretion. During the last week of the trial, a bolus of 1.5 g of [U-13C] substrates was added to their respective meals and plasma glucose, insulin, and 13C-glucose responses were measured. Insulin sensitivity was low at the start of the trial and remained low [1.2 ± 0.1 and 1.0 ± 0.1 (mU/L)-1 × min-1], and no treatment effect was noted. Glucose excretion was low at the start of the trial (3.4 ± 1.0 g/d), but increased (P <0.01) in CON and GLU calves (26.9 ± 3.9 and 43.0 ± 10.6 g/d) but not in FRU and GLY calves. Postprandial glucose was higher in GLU, lower in FRU, and similar in GLY compared with CON calves. Postprandial insulin was lower in FRU and GLY and similar in GLU compared with CON calves. Postprandial 13C-glucose increased substantially in FRU and GLY calves, indicating that calves are able to partially convert these substrates to glucose. We concluded that replacing one third of lactose in MR by glucose, fructose, or glycerol in MR differentially influences postprandial glucose homeostasis but does not affect insulin sensitivity in veal calves.

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