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.

    Full text documents are added when available. The database is updated daily and currently holds about 240,000 items, of which 72,000 in open access.

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Dissemination materials (a flyer, a leaflet, a press release, Food Today articles, an infographics and a roll up) : deliverable D2.3
Sadler, Christina ; Mariani, Jessica ; Zimmermann, K.L. ; Veer, P. van 't - \ 2018
EU - 22 p.
Web-based dissemination (, videos, social media and e-newsletter) : deliverable D2.4
Sadler, Christina ; Mariani, Jessica ; Zimmermann, K.L. ; Veer, P. van 't - \ 2018
EU - 17 p.
Final dissemination report : deliverable D2.5
Sadler, Christina ; Mariani, Jessica ; Zimmermann, K.L. ; Veer, P. van 't - \ 2018
EU - 23 p.
A disturbed auxin signaling affects adventitious root outgrowth in Solanum dulcamara under complete submergence
Yang, Xinping ; Jansen, Martijn J. ; Zhang, Qian ; Sergeeva, Lidiya ; Ligterink, Wilco ; Mariani, Celestina ; Rieu, Ivo ; Visser, Eric J.W. - \ 2018
Journal of Plant Physiology 224-225 (2018). - ISSN 0176-1617 - p. 11 - 18.
ABA - Adventitious roots - Auxin - Complete submergence - JA - Signaling
Flooding negatively affects the growth and even survival of most terrestrial plants. Upon flooding, the excess water quickly decreases the gas exchange between atmosphere and the submerged plant tissues, which leads to oxygen deficiency resulting in a plant cell energy crisis, and eventually plant death. Solanum dulcamara survives flooding by producing aerenchymatous adventitious roots (ARs) from pre-formed primordia on the stem, which replace the original flood-sensitive root system. However, we found that under complete submergence, AR outgrowth was impaired in S. dulcamara. In the present work, we tried to elucidate the mechanisms behind this phenomenon in particular the involvement of the phytohormones auxin, abscisic acid and jasmonic acid. Abscisic acid (ABA) is a negative regulator of AR outgrowth, but surprisingly the ABA content and signaling were decreased to a similar extent under both partial and complete submergence, suggesting that ABA might not be responsible for the difference in AR outgrowth. Auxin, which is necessary for AR outgrowth, was at similar concentrations in either partially or completely submerged primordia, but complete submergence resulted in a decrease of auxin signaling in the primordia. Application of 1-naphthaleneacetic acid (NAA) to completely submerged plants restored AR outgrowth, implying that auxin response in the rooting tissues of completely submerged plants was reduced. Furthermore, jasmonic acid (JA) concentrations did not differ between partial and complete submergence. To conclude, a disruption in the auxin signaling within S. dulcamara AR primordia may result in the abortion of AR outgrowth under complete submergence.
A co-opted hormonal cascade activates dormant adventitious root primordia upon flooding in solanum dulcamara
Dawood, Thikra ; Yang, Xinping ; Visser, Eric J.W. ; Beek, Tim A.H. Te; Kensche, Philip R. ; Cristescu, Simona M. ; Lee, Sangseok ; Floková, Kristýna ; Nguyen, Duy ; Mariani, Celestina ; Rieu, Ivo - \ 2016
Plant Physiology 170 (2016)4. - ISSN 0032-0889 - p. 2351 - 2364.

Soil flooding is a common stress factor affecting plants. To sustain root function in the hypoxic environment, flooding-tolerant plants may form new, aerenchymatous adventitious roots (ARs), originating from preformed, dormant primordia on the stem. We investigated the signaling pathway behind AR primordium reactivation in the dicot species Solanum dulcamara. Transcriptome analysis indicated that flooding imposes a state of quiescence on the stem tissue, while increasing cellular activity in the AR primordia. Flooding led to ethylene accumulation in the lower stem region and subsequently to a drop in abscisic acid (ABA) level in both stem and AR primordia tissue. Whereas ABA treatment prevented activation of AR primordia by flooding, inhibition of ABA synthesis was sufficient to activate them in absence of flooding. Together, this reveals that there is a highly tissue-specific response to reduced ABA levels. The central role for ABA in the response differentiates the pathway identified here from the AR emergence pathway known from rice (Oryza sativa). Flooding and ethylene treatment also induced expression of the polar auxin transporter PIN2, and silencing of this gene or chemical inhibition of auxin transport inhibited primordium activation, even though ABA levels were reduced. Auxin treatment, however, was not sufficient for AR emergence, indicating that the auxin pathway acts in parallel with the requirement for ABA reduction. In conclusion, adaptation of S. dulcamara to wet habitats involved co-option of a hormonal signaling cascade well known to regulate shoot growth responses, to direct a root developmental program upon soil flooding.

Microarray analysis of developing fruits from transgenic lines with increased or reduced SlARF9 mRNA levels in tomato.
Jong, Maaike de; Wolters-Arts, Mieke ; Schimmel, Bernardus C. ; Stultiens, Catharina L. ; Groot, Peter F. de; Powers, Stephen J. ; Tikunov, Yury ; Bovy, Arnaud ; Mariani, Celestina ; Vriezen, Wim H. ; Rieu, Ivo - \ 2014
Solanum lycopersicum - GSE63637 - PRJNA268511
The transformation of the ovary into a fruit after successful completion of pollination and fertilization has been associated with many changes at transcriptomic level. These changes are part of a dynamic and complex regulatory network that is controlled by phytohormones, with a major role for auxin. One of the auxin-related genes differentially expressed upon fruit set and early tomato fruit development is Solanum lycopersicum ARF9 (SlARF9). To explore the physiological role of SlARF9 in tomato fruit set and development, we generated transgenic tomato lines in which the gene was overexpressed or silenced, and used microarray analysis to identify possible transcriptomic changes associated with the fruit developmental phenotypes observed in the transgenic lines.
Pectic arabinan side chains are essential for pollen cell wall integrity during pollen development
Cankar, K. ; Kortstee, A.J. ; Toonen, M.A.J. ; Wolters-Arts, M. ; Houbein, R. ; Mariani, C. ; Ulvskov, P. ; Jorgensen, B. ; Schols, H.A. ; Visser, R.G.F. ; Trindade, L.M. - \ 2014
Plant Biotechnology Journal 12 (2014)4. - ISSN 1467-7644 - p. 492 - 502.
in-vivo expression - mechanical-properties - potato pectin - arabidopsis - gene - galactan - growth - biosynthesis - mutants - tubers
Pectin is a complex polysaccharide and an integral part of the primary plant cell wall and middle lamella, contributing to cell wall mechanical strength and cell adhesion. To understand the structure–function relationships of pectin in the cell wall, a set of transgenic potato lines with altered pectin composition was analysed. The expression of genes encoding enzymes involved in pectin acetylation, degradation of the rhamnogalacturonan backbone and type and length of neutral side chains, arabinan and galactan in particular, has been altered. Upon crossing of different transgenic lines, some transgenes were not transmitted to the next generation when these lines were used as a pollen donor, suggesting male sterility. Viability of mature pollen was severely decreased in potato lines with reduced pectic arabinan, but not in lines with altered galactan side chains. Anthers and pollen of different developmental stages were microscopically examined to study the phenotype in more detail. Scanning electron microscopy of flowers showed collapsed pollen grains in mature anthers and in earlier stages cytoplasmic protrusions at the site of the of kin pore, eventually leading to bursting of the pollen grain and leaking of the cytoplasm. This phenomenon is only observed after the microspores are released and the tapetum starts to degenerate. Timing of the phenotype indicates a role for pectic arabinan side chains during remodelling of the cell wall when the pollen grain is maturing and dehydrating.
Genomic analysis of the native European Solanum species, S. dulcamara
Agostino, N.D. ; Golas, T. ; Geest, H. van; Bombarely, A. ; Dawood, T. ; Zethof, J. ; Driedonks, N. ; Wijnker, T.G. ; Bargsten, J. ; Nap, J.P. ; Mariani, C. ; Rieu, I. - \ 2013
BMC Genomics 14 (2013). - ISSN 1471-2164 - 14 p.
phytophthora-infestans - solanaceae - identification - evolution - polymorphism - sequence - tomato - potato - genes
Background - Solanum dulcamara (bittersweet, climbing nightshade) is one of the few species of the Solanaceae family native to Europe. As a common weed it is adapted to a wide range of ecological niches and it has long been recognized as one of the alternative hosts for pathogens and pests responsible for many important diseases in potato, such as Phytophthora. At the same time, it may represent an alternative source of resistance genes against these diseases. Despite its unique ecology and potential as a genetic resource, genomic research tools are lacking for S. dulcamara. We have taken advantage of next-generation sequencing to speed up research on and use of this non-model species. Results - In this work, we present the first large-scale characterization of the S. dulcamara transcriptome. Through comparison of RNAseq reads from two different accessions, we were able to predict transcript-based SNP and SSR markers. Using the SNP markers in combination with genomic AFLP and CAPS markers, the first genome-wide genetic linkage map of bittersweet was generated. Based on gene orthology, the markers were anchored to the genome of related Solanum species (tomato, potato and eggplant), revealing both conserved and novel chromosomal rearrangements. This allowed a better estimation of the evolutionary moment of rearrangements in a number of cases and showed that chromosomal breakpoints are regularly re-used. Conclusion - Knowledge and tools developed as part of this study pave the way for future genomic research and exploitation of this wild Solanum species. The transcriptome assembly represents a resource for functional analysis of genes underlying interesting biological and agronomical traits and, in the absence of the full genome, provides a reference for RNAseq gene expression profiling aimed at understanding the unique biology of S. dulcamara. Cross-species orthology-based marker selection is shown to be a powerful tool to quickly generate a comparative genetic map, which may speed up gene mapping and contribute to the understanding of genome evolution within the Solanaceae family.
Identification and semi-quantification of polysaccharides in complex food matrices by NMR
Velzen, E.J.J. van; Roo, N. de; Poort, R. ; Adrichem, L. van; Brunt, K. ; Schols, H. ; Westphal, Y. ; Mariani, L. ; Grün, C. ; Duynhoven, J.P.M. van - \ 2013
In: Proceedings of the 11th International Conference on the Applications of Magnetic Resonance in Food Science 2012. - Cambridge : RSC Publishing - ISBN 9781849736343 - p. 156 - 163.
ABA-deficiency results in reduced plant and fruit size in tomato
Nitsch, L. ; Kohlen, W. ; Oplaat, C. ; Charnikhova, T. ; Cristescu, S. ; Michieli, P. ; Wolters-Arts, M. ; Bouwmeester, H.J. ; Mariani, C. ; Vriezen, W.H. ; Rieu, I. - \ 2012
Journal of Plant Physiology 169 (2012)9. - ISSN 0176-1617 - p. 878 - 883.
abscisic-acid biosynthesis - shoot growth - arabidopsis-thaliana - endogenous aba - ethylene - mutants - drought - stress - gene - expression
Abscisic acid (ABA) deficient mutants, such as notabilis and flacca, have helped elucidating the role of ABA during plant development and stress responses in tomato (Solanum lycopersicum L.). However, these mutants have only moderately decreased ABA levels. Here we report on plant and fruit development in the more strongly ABA-deficient notabilis/flacca (not/flc) double mutant. We observed that plant growth, leaf-surface area, drought-induced wilting and ABA-related gene expression in the different genotypes were strongly correlated with the ABA levels and thus most strongly affected in the not/flc double mutants. These mutants also had reduced fruit size that was caused by an overall smaller cell size. Lower ABA levels in fruits did not correlate with changes in auxin levels, but were accompanied by higher ethylene evolution rates. This suggests that in a wild-type background ABA stimulates cell enlargement during tomato fruit growth via a negative effect on ethylene synthesis.
Identification and semi-quantification of polysaccharides in complex food matrices by NMR
Velzen, E.J.J. van; Roo, N. de; Poort, R. ; Adrichem, L. van; Brunt, K. ; Schols, H.A. ; Westphal, Y. ; Mariani, L. ; Grün, C. ; Duynhoven, J.P.M. van - \ 2012
In: Magnetic Resonance in Food Science: Challenges in a Changing World / Belton, P., Webb, G., London : RSC Books - ISBN 9780854041176 - 260 p.
A new tetraploid species of Solanum section Solanum (Solanaceae) from Tanzania
Manoko, M.L.K. ; Weerden, van der, G.M. ; Berg, van den, R.G. ; Mariani, C. - \ 2012
Phytokeys 16 (2012). - ISSN 1314-2011 - p. 65 - 74.
Solanum umalilaense Manoko sp. nov. (Solanaceae) is described from the Umalila area, in the southern highlands of Tanzania. Its novelty is supported with both morphological and AFLP data. Phenetic and phylogenetic analyses place Solanum umalilaense as a unique and well-supported taxon among tetraploid species of Solanum sect. Solanum from Africa. It can be distinguished from other African species by its extremely developed branching, each branch producing many multi-flowered inflorescences, flowers with short calyx lobes and its persistent, small, light yellowish brown fruits
Detecting population structure in a high gene-flow species, Atlantic herring (Clupea harengus): direct, simultaneous evaluation of neutral vs putatively selected loci
Andre, C. ; Larsson, L.C. ; Laikre, L. ; Bekkevold, D. ; Brigham, J. ; Carvalho, G.R. ; Dahlgren, T.G. ; Hutchinson, W.F. ; Mariani, S. ; Mudde, C.M. ; Ruzzante, D.E. ; Ryman, N. - \ 2011
Heredity 106 (2011)2. - ISSN 0018-067X - p. 270 - 280.
cod gadus-morhua - salmon salmo-salar - histocompatibility class-i - mitochondrial-dna - north-sea - molecular markers - balancing selection - statistical power - natural-selection - computer-program
In many marine fish species, genetic population structure is typically weak because populations are large, evolutionarily young and have a high potential for gene flow. We tested whether genetic markers influenced by natural selection are more efficient than the presumed neutral genetic markers to detect population structure in Atlantic herring (Clupea harengus), a migratory pelagic species with large effective population sizes. We compared the spatial and temporal patterns of divergence and statistical power of three traditional genetic marker types, microsatellites, allozymes and mitochondrial DNA, with one microsatellite locus, Cpa112, previously shown to be influenced by divergent selection associated with salinity, and one locus located in the major histocompatibility complex class IIA (MHC-IIA) gene, using the same individuals across analyses. Samples were collected in 2002 and 2003 at two locations in the North Sea, one location in the Skagerrak and one location in the low-saline Baltic Sea. Levels of divergence for putatively neutral markers were generally low, with the exception of single outlier locus/sample combinations; microsatellites were the most statistically powerful markers under neutral expectations. We found no evidence of selection acting on the MHC locus. Cpa112, however, was highly divergent in the Baltic samples. Simulations addressing the statistical power for detecting population divergence showed that when using Cpa112 alone, compared with using eight presumed neutral microsatellite loci, sample sizes could be reduced by up to a tenth while still retaining high statistical power. Our results show that the loci influenced by selection can serve as powerful markers for detecting population structure in high gene-flow marine fish species. Heredity (2011) 106, 270-280; doi:10.1038/hdy.2010.71; published online 16 June 2010
Role of Solanum dulcamara L. in Potato Late Blight Epidemiology
Golas, T.M. ; Weerden, G.M. van der; Berg, R.G. van den; Mariani, C. ; Allefs, J.J.H.M. - \ 2010
Potato Research 53 (2010)1. - ISSN 0014-3065 - p. 69 - 81.
infestans mont debary - nevado-de-toluca - phytophthora-infestans - natural occurrence - solanaceous hosts - western slopes - resistance - plant - inoculation - strains
Four sites with naturally growing Solanum dulcamara were surveyed during 2006 and 2007 for the presence of late blight. Despite 2 years of observations, no late blight was detected among natural populations of bittersweet. Nevertheless, repeated infections occurred on few S. dulcamara plants from a collection growing in a botanical garden in the same years. These plants were used to investigate the possibility of survival of the inoculum between seasons. In the respective years, a set of 21 and 52 S. dulcamara accessions inoculated with Phytophthora infestans under field conditions resulted in a wide range of responses to the disease. More susceptible reactions were found among genotypes collected at greater distance from commercial potato fields indicating the possibility of genetic selection caused by P. infestans. However, both scarceness of natural infections and no overwintering, suggest that bittersweet may not play a role in late blight epidemiology
Identification of a resistance gene Rpi-dlc1 to Phytophthora infestans in European accessions of Solanum dulcamara
Golas, T.M. ; Sikkema, A. ; Gros, J. ; Feron, R.M.C. ; Berg, R.G. van den; Weerden, G.M. van der; Mariani, C. ; Allefs, J.J.H.M. - \ 2010
Theoretical and Applied Genetics 120 (2010)4. - ISSN 0040-5752 - p. 797 - 808.
late-blight resistance - broad-spectrum resistance - race-specific resistance - potato late blight - r-gene - disease-resistance - chromosome-ix - bulbocastanum - tomato - locus
Initial screening of 14 Solanum dulcamara accessions enabled the identification of individuals resistant and susceptible to Phytophthora infestans. Crosses between contrasting genotypes resulted in three F2–BC1 populations segregating for resistance to late blight in a laboratory assay and under field conditions. Genetic profiling of one of these populations using 128 AFLP primers generated three markers linked to the resistant phenotype. Blast analysis of the sequenced markers resulted in a plausible gene position on the distal end of the long arm of chromosome 9 that could be confirmed by CAPS markers. Thus, we describe a first resistant gene, named Rpi-dlc1, from S. dulcamara, a Solanum species native to Europe. In addition, one population was tested for broadness of resistance responses using a set of seven additional P. infestans isolates, varying in virulence. This indicated the possible presence of additional Rpi genes.
Genetic structure of European accessions of Solanum dulcamara L. (Solanaceae)
Golas, T.M. ; Feron, R.M.C. ; Berg, R.G. van den; Weerden, G.M. van der; Mariani, C. ; Allefs, J.J.H.M. - \ 2010
Plant Systematics and Evolution 285 (2010)1-2. - ISSN 0378-2697 - p. 103 - 110.
phytophthora-infestans - aflp - populations - nigrum
Solanum dulcamara (bittersweet) is one of the few native species of Solanum present in Europe. It is a common weed that occupies a wide range of habitats and is often found in the direct vicinity of cultivated potatoes (Solanum tuberosum), where it could transmit diseases. A broad sampling of European S. dulcamara accessions was carried out to gain insight into the population structure and crossing preferences of this species. Three amplified fragment length polymorphism (AFLP®) primer combinations generating 288 polymorphic fragments were used to analyze 79 bittersweet accessions (245 individuals). Dendrograms revealed a low level of genetic polymorphism in the bittersweet populations, caused partially by the out-crossing nature of this species
Genetic diversity of the African hexaploid species Solanum scabrum Mill. and S. nigrum L. (Solanaceae)
Manoko, M.L.K. ; Berg, R.G. van den; Feron, R.M.C. ; Weerden, G.M. van der; Mariani, C. - \ 2008
Genetic Resources and Crop Evolution 55 (2008)3. - ISSN 0925-9864 - p. 409 - 418.
fragment length polymorphism - aflp analysis - wild relatives
Two hexaploid species of Solanum sect. Solanum are present in Africa: Solanum scabrum and S. nigrum. Solanum scabrum is a widely cultivated species and is used as a leafy vegetable, as a source of medicine and as a source of ink dye. In previous studies a wide range of morphological diversity has been reported in this species and in some studies subspecies have been proposed. Subspecies are also recognized in S. nigrum. However, it has not been established whether or not the morphological differences are reflected at the genomic level. The present study applies AFLPs to study the genetic diversity in S. scabrum and its relationship to geographical provenance, morphological differences and the possible existence of subspecies within S. scabrum and S. nigrum. The data obtained were analyzed with cluster analysis (using UPGMA and NJ). The results indicate that the genetic variation within S. scabrum was higher within accessions than between accessions. Accessions did not cluster according to their geographical provenance, indicating that accessions from different geographical areas were not significantly different genetically. The clustering reflected neither morphological differences nor domestication status (cultivated or wild). The morphological differences exhibited by S. scabrum could be due to selection by farmers for different plant types. The AFLP derived clustering pattern did not segregate the subspecies recognized in S. scabrum and S. nigrum into separate subclusters.
AFLP markers support separation of Solanum nodiflorum from Solanum americanum sensu strictio (Solanaceae)
Manoko, M.L.K. ; Berg, R.G. van den; Feron, R.M.C. ; Weerden, G.M. van der; Mariani, C. - \ 2007
Plant Systematics and Evolution 267 (2007)1-4. - ISSN 0378-2697 - p. 1 - 11.
genetic-relationships - l. - biosystematics - relatives - homology - barley - wild
This study was aimed at examining the relationships between the African material of Solanum americanum (also designated as S. nodiflorum), accessions of this taxon from other geographical areas, and American S. americanum using AFLP markers. 96 individuals representing 39 accessions of S. americanum sensu lato and related diploid species from the widest possible geographical range, and one accession of S. dulcamara (as outgroup) were used. The AFLP results suggested that American S. americanum differs from S. nodiflorum and that the material investigated in this study can be assigned to three different species: S. americanum sensu stricto, S. nodiflorum and a Solanum species from Brazil. These species can be differentiated based on a combination of floral and fruit characteristics.
Biocomplexity in a highly migratory pelagic marine fish , Atlantic herring
Ruzzante, D.E. ; Mariani, S. ; Bekkevold, D. ; André, C. ; Mosegaard, H. ; Clausen, L.A.W. ; Dahlgren, T.G. ; Hutchinson, W.F. ; Hatfield, E.M.C. ; Torstensen, E. ; Brigham, J. ; Simmonds, E.J. ; Laikre, L. ; Larsson, L.C. ; Stet, R.J.M. ; Ryman, N. ; Carvalho, G.R. - \ 2006
Proceedings of the Royal Society. B: Biological Sciences 273 (2006)1593. - ISSN 0962-8452 - p. 1459 - 1464.
larvae clupea-harengus - north-sea - population-structure - anadromous fishes - fresh-water - diversity - ecosystem - recovery
The existence of biologically differentiated populations has been credited with a major role in conferring sustainability and in buffering overall productivity of anadromous fish population complexes where evidence for spatial structure is uncontroversial. Here, we describe evidence of correlated genetic and life history (spawning season linked to spawning location) differentiation in an abundant and highly migratory pelagic fish, Atlantic herring, Clupea harengus, in the North Sea (NS) and adjacent areas. The existence of genetically and phenotypically diverse stocks in this region despite intense seasonal mixing strongly implicates natal homing in this species. Based on information from genetic markers and otolith morphology, we estimate the proportional contribution by NS, Skagerrak (SKG) and Kattegat and western Baltic (WBS) fish to mixed aggregations targeted by the NS fishery. We use these estimates to identify spatial and temporal differences in life history (migratory behaviour) and habitat use among genetically differentiated migratory populations that mix seasonally. Our study suggests the existence of more complex patterns of intraspecific diversity than was previously recognized. Sustainability may be compromised if such complex patterns are reduced through generalized management (e.g. area closures) that overlooks population differences in spatial use throughout the life cycle
Aquaporins of the PIP2 class are required for efficient anther dehiscence in tobacco
Bots, M.L. ; Vergeldt, F.J. ; Wolters-Arts, M. ; Weterings, K. ; As, H. van; Mariani, C. - \ 2005
Plant Physiology 137 (2005)3. - ISSN 0032-0889 - p. 1049 - 1056.
jasmonic acid biosynthesis - membrane-permeability - arabidopsis-thaliana - brassica-oleracea - channel proteins - gene-expression - osmotic-stress - male-sterility - water - plants
Several processes during sexual reproduction in higher plants involve the movement of water between cells or tissues. Before flower anthesis, anther and pollen dehydration takes place before the release of mature pollen at dehiscence. Aquaporins represent a class of proteins that mediates the movement of water over cellular membranes. Aquaporins of the plasmamembrane PIP2 family are expressed in tobacco (Nicotiana tabacum) anthers and may therefore be involved in the movement of water in this organ. To gain more insight into the role these proteins may play in this process, we have analyzed their localization using immunolocalizations and generated plants displaying RNA interference of PIP2 aquaporins. Our results indicate that PIP2 protein expression is modulated during anther development. Furthermore, in tobacco PIP2 RNA interference plants, anther dehydration was slower, and dehiscence occurred later when compared with control plants. Together, our results suggest that aquaporins of the PIP2 class are required for efficient anther dehydration prior to dehiscence.
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