Scientific publications on plants in 2016

M. K. Abera, M. A. Retta, P. Verboven, B. M. Nicolai, H. Berghuijs,P. Struik (2016) Virtual microstructural leaf tissue generation based on cell growth modeling, Acta Horticulturae 1110: 155-162 view paper>

 H. N. C. Berghuijs, X. Yin, Q. T. Ho, S. M. Driever, M. A. Retta, B. M. Nicolaï,P. C. Struik (2016) Mesophyll conductance and reaction-diffusion models for CO2 transport in C3 leaves; needs, opportunities and challenges, Plant Science 252: 62-75 view paper>

L. W. Bielczynski, G. Schansker,R. Croce (2016) Effect of light acclimation on the organization of photosystem II super- and sub-complexes in arabidopsis thaliana, Frontiers in Plant Science 7(FEB2016) view paper>

C. Cai, X. Yin, S. He, W. Jiang, C. Si, P. C. Struik, W. Luo, G. Li, Y. Xie, Y. Xiong,G. Pan (2016) Responses of wheat and rice to factorial combinations of ambient and elevated CO2 and temperature in FACE experiments, Global Change Biology 22(2): 856-874 view paper >

Q. T. Ho, H. N. C. Berghuijs, R. Watté, P. Verboven, E. Herremans, X. Yin, M. A. Retta, B. Aernouts, W. Saeys, L. Helfen, G. D. Farquhar, P. C. Struik, B. M. Nicolaï (2016) Three-dimensional microscale modelling of CO2 transport and light propagation in tomato leaves enlightens photosynthesis, Plant, Cell and Environment 39(1): 50-61 view paper >

I. Iermak, J. Vink, A. N. Bader, E. Wientjes,H. Van Amerongen (2016) Visualizing heterogeneity of photosynthetic properties of plant leaves with two-photon fluorescence lifetime imaging microscopy, Biochimica et Biophysica Acta - Bioenergetics 1857(9): 1473-1478 view paper>

E. Kaiser, A. Morales, J. Harbinson, E. Heuvelink, A. E. Prinzenberg ,L. F. M. Marcelis (2016) Metabolic and diffusional limitations of photosynthesis in fluctuating irradiance in Arabidopsis thaliana, Scientific Reports 6 view paper >

S. Lechthaler, E. M. R. Robert, N. Tonné, A. Prusova, E. Gerkema, H. Van As, N. Koedam,C. W. Windt (2016) Rhizophoraceae mangrove saplings use hypocotyl and leaf water storage capacity to cope with soil water salinity changes, Frontiers in Plant Science 7(JUNE2016): 1-13 view paper>

T. Li, J. Kromdijk, E. Heuvelink, F. R. van Noort, E. Kaiser,L. F. M. Marcelis (2016) Effects of diffuse light on radiation use efficiency of two Anthurium cultivars depend on the response of stomatal conductance to dynamic light intensity, Frontiers in Plant Science, 04 February 2016 view paper>

M. Retta, Q. T. Ho, X. Yin, P. Verboven, H. N. C. Berghuijs, P. C. Struik,B. M. Nicolaï (2016) A two-dimensional microscale model of gas exchange during photosynthesis in maize (Zea mays L.) leaves, Plant Science 246: 37-51 view paper>

M. Retta, X. Yin, P. E. L. van der Putten, D. Cantre, H. N. C. Berghuijs, Q. T. Ho, P. Verboven, P. C. Struik,B. M. Nicolaï (2016) Impact of anatomical traits of maize (Zea mays L.) leaf as affected by nitrogen supply and leaf age on bundle sheath conductance, Plant Science 252: 205-214 view paper>

A. Savvides, J. A. Dieleman, W. van Ieperen,L. F. M. Marcelis (2016) A unique approach to demonstrating that apical bud temperature specifically determines leaf initiation rate in the dicot Cucumis sativus, Planta 243(4): 1071-1079 view paper>

A. Savvides, W. van Ieperen, J. A. Dieleman,L. F. Marcelis (2016) Phenotypic plasticity to altered apical bud temperature in Cucumis sativus: More leaves-smaller leaves and vice versa, Plant Cell and Environment view paper >

N. van Tol, J. Pinas, H. Schat, P. J. J. Hooykaas,B. J. van der Zaal (2016) Genome interrogation for novel salinity tolerant Arabidopsis mutants, Plant Cell and Environment view paper >

X. Yin, P. E. L. Van Der Putten, S. M. Driever,P. C. Struik (2016) Temperature response of bundle-sheath conductance in maize leaves, Journal of Experimental Botany 67(9): 2699-2714 view paper >

Scientific publications on plants in 2015

H. N. C. Berghuijs, X. Yin, Q. Tri Ho, P. E. L. van der Putten, P. Verboven, M. A. Retta, B. M. Nicolaï,P. C. Struik (2015) Modeling the relationship between CO2 assimilation and leaf anatomical properties in tomato leaves, Plant Science 238: 297-311 view paper>

T. Li, E. Heuvelink,L. F. M. Marcelis (2015) Quantifying the source-sink balance and carbohydrate content in three tomato cultivars, Frontiers in Plant Science, 05 June 2015 view paper>

E. Kaiser, A. Morales, J. Harbinson, J. Kromdijk, E. Heuvelink, L. F. M. Marcelis (2015) Dynamic photosynthesis in different environmental conditions, Journal of Experimental Botany 66(9): 2415-2426 view paper >

Robert, E.M.R., N. Schmitz, P. Copini, E. Gerkema, F.J. Vergeldt, C.W. Windt, H. Beeckman, N. Koedam and H. van As (2014). Visualization of the stem water content of two genera with secondary phloem produced by successive cambia through Magnetic Resonance Imaging (MRI). the Journal of Plant Hydraulics 1. view article >

Rooijen, R. V., M. G. M. Aarts and J. Harbinson (2015). Natural genetic variation for acclimation of photosynthetic light use efficiency to growth irradiance in Arabidopsis. Plant Physiology 167(4): 1412-1429. view article >

S. M. Weraduwage, J. Chen, F. C. Anozie, A. Morales, S. E. Weise,T. D. Sharkey (2015) The relationship between leaf area growth and biomass accumulation in Arabidopsis thaliana, Frontiers in Plant Science 6(APR) view paper>

K. Wetser, J. Liu, C. Buisman,D. Strik (2015) Plant microbial fuel cell applied in wetlands: Spatial, temporal and potential electricity generation of Spartina anglica salt marshes and Phragmites australis peat soils, Biomass and Bioenergy 83: 543-550 view paper>

T. Qian, J. A. Dieleman, A. Elings, A. De Gelder,L. F. M. Marcelis (2015) Response of tomato crop growth and development to a vertical temperature gradient in a semi-closed greenhouse, Journal of Horticultural Science and Biotechnology 90(5): 578-584 view paper>

Scientific publications before 2014

Scientific publications on plants in 2014

Chukhutsina, V. U., C. Büchel and H. Van Amerongen (2014). Disentangling two non-photochemical quenching processes in Cyclotella meneghiniana by spectrally-resolved picosecond fluorescence at 77 K. Biochimica et Biophysica Acta - Bioenergetics 1837(6): 899-907. view article >

Croce, R. and H. Van Amerongen (2014). Natural strategies for photosynthetic light harvesting. Nature Chemical Biology 10(7): 492-501. view article >

J. Gu, X. Yin, C. Zhang, H. Wang, P. C. Struik (2014) Linking ecophysiological modelling with quantitative genetics to support marker-assisted crop design for improved yields of rice (Oryza sativa) under drought stress, Annals of Botany 114(3): 499-511 view paper>

J. Gu, X. Yin, T. J. Stomph,P. C. Struik (2014) Can exploiting natural genetic variation in leaf photosynthesis contribute to increasing rice productivity? A simulation analysis, Plant, Cell and Environment 37(1): 22-34 view paper >

Li, T., E. Heuvelink, T. A. Dueck, J. Janse, G. Gort and L. F. M. Marcelis (2014). Enhancement of crop photosynthesis by diffuse light: Quantifying the contributing factors. Annals of Botany 114(1): 145-156 view article >

Li, T., E. Heuvelink, F van Noort, J. Kromdijk and L.F.M. Marcelis (2014). Responses of two Anthurium cultivars to high daily integralsof diffuse light. Scientia Horticulturae 179: 306-313. view article >

Marcelis, L.F.M., F. Buwalda, J. A. Dieleman, T. A. Dueck, A. Elings, Gelder, S. Hemming, F.L.K. Kempkes, T. Li, F.R. van Noort and P.H.B. de Visser (2014). Innovations in crop production: A matter of physiology and technology. Acta Horticulturae 1037. view article >

Robert, E.M.R., N. Schmitz, P. Copini, E. Gerkema, F.J. Vergeldt, C.W. Windt, H. Beeckman, N. Koedam and H. van As (2014). Visualization of the stem water content of two genera with secondary phloem produced by successive cambia through Magnetic Resonance Imaging (MRI). the Journal of Plant Hydraulics 1. view article >

Savvides, A., N. Ntagkas, W. Van Ieperen, J. A. Dieleman and L. F. M. Marcelis (2014). Impact of light on leaf initiation: A matter of photosynthate availability in the apical bud? Functional Plant Biology 41(5): 547-556 view article >

Van Tol, N. and B. J. Van Der Zaal (2014). Review: Artificial transcription factor-mediated regulation of gene expression. Plant Science 225: 58-67. view article >

Koen Wetser, Emilius Sudirjo, Cees J. N. Buisman, David P. B. T. B. Strik (2015) Electricity generation by a plant microbial fuel cell with an integrated oxygen reducing biocathode, Applied Energy 137(0): 151-157 view paper >

 Scientific publications on plants before 2014


Phenotypic engineering of photosynthesis related traits in Arabidopsis thaliana using genome interrogation

N. Van Tol, Leiden University, 2016

view dissertation >


Leaf anatomy and photosynthesis: Unravelling the CO2 diffusion pathway in C3 leaves

H.N.C. Berghuijs, Wageningen University, 2016

view dissertation >

Light on phloem transport (an MRI approach)

A. Prusova, Wageningen University, 2016

view dissertation >

Natural genetic variation for regulation of photosynthesis response to light in Arabidopsis thaliana

Rooyen, Roxanne van (2016), Wageningen University
This thesis aims at identifying the genetic loci that are regulating the (sub-) processes in photosynthetic acclimation to increased irradiance levels, in order to obtain the genetic information useful to breed for photosynthetic performance. It shows different Arabidopsis accessions display different photosynthetic responses to various light environments, well relatable to genetic differences. A candidate gene list for the direct response to increased growth irradiance was revealed after performing genome wide association analysis. By identifying and characterizing genes for which different alleles affect photosynthesis responses, some of the regulatory and physiological processes underlying natural variation for photosynthetic acclimation to a step increase in irradiance could be revealed.


Electricity from wetlands: Technology assessment of the tubular Plant Microbial Fuel Celll with an integrated biocathode

Wetser, Koen (2016), Wageningen University

Improving radiation use efficiency in greenhouse production systems

Li, T. (2014), Wageningen University
A large increase in agricultural production is needed to feed the increasing world population with their increasing demand per capita. However, growing competition for arable land, water, energy, and the degradation of the environment impose challenges to improve crop production. Hence agricultural production efficiency needs to increase. Greenhouses provide the possibility to create optimal growth conditions for crops, thereby improving production and
product quality. Light is the driving force for plant photosynthesis and in greenhouse horticulture, light is often the most limiting factor for plant growth. Therefore, improving radiation use efficiency (RUE) in greenhouse production systems is imperative in order to improve plant growth and production. The objective of this thesis is to obtain insight in improving RUE in greenhouse production systems through better understanding of crop
physiology. Three aspects related to RUE have been studied in this thesis, 1) improving light distribution in the crop canopy; 2) allowing more light in the greenhouse during summer; and 3) balancing the source and sink strength during plant growth.

view dissertation >

Linking leaf initiation to the aerial environment: when air temperature is not the whole story

Savvides, A. (2014), Wageningen University
The initiation of new leaves, which takes place at the shoot apical meristem, is essential for plant growth and development. Leaf initiation rate (LIR) is very sensitive to meristem temperature. However, in practice meristem temperature is hardly ever monitored and air temperature is often used instead. It can be questioned whether relating LIR solely to air temperature is valid. This thesis aims at linking LIR to the aerial environment in two main horticultural crops: tomato and cucumber. It was shown that meristem temperature often differs from air temperature, depending on other environmental factors (e.g. radiation, humidity and wind speed) and species-specific traits. LIR was solely influenced by meristem temperature even when it largely deviated from air temperature. In addition, LIR was reduced at low light levels.  Consequently, air temperature is not the whole story when relating leaf initiation to the environment.

view dissertation >

QTL-based physiological modelling of leaf photsynthesis and crop productivity of rice (Oryza sativa L.) under well-watered and drought environments.

Gu, J. (2013),Wageningen University
Improving grain yield of rice (Oryza sativa L.) crop for both favourable and stressful environments is the main breeding objective to ensure food security. The objective of this study was to amalgamate crop modelling and genetic analysis, to create knowledge and insight useful in view of this breeding objective.
Photosynthesis is fundamental to biomass production, but the process is very sensitive to abiotic stresses, including drought. Upland rice cv. Haogelao, lowland rice cv. Shennong265, and 94 of their introgression lines (ILs) were studied under drought and well-watered conditions to analyse the genetics of leaf photosynthesis. After correcting for microclimate fluctuations, significant genetic variation was found in this population, and 1-3 quantitative trait loci (QTLs) were detected per photosynthesis-related trait. A major QTL was mapped near marker RM410 on Chromosome 9 and was consistent for phenotyping at flowering and grain filling, under drought and well-watered conditions, and across field and greenhouse experiments. These results suggest that photosynthesis at different phenological stages and under different environmental conditions is, at least to some extent, influenced by the same genetic factors.
To understand the physiological regulation of genetic variation and resulting QTLs for photosynthesis detected in the first study, 13 ILs were carefully selected as representatives of the population, based on the QTLs for leaf photosynthesis. These 13 ILs were studied under moderate drought and well-watered conditions in the experiment where combined gas exchange and chlorophyll fluorescence data were collected to assess CO2 and light response curves. Using these curves, seven parameters of a photosynthesis model were estimated to dissect photosynthesis into stomatal conductance (gs), mesophyll conductance (gm), electron transport capacity (Jmax), and Rubisco carboxylation capacity (Vcmax). Genetic variation in light saturated photosynthesis and the major QTL of photosynthesis on Chromosome 9 were mainly associated with variation in gs and gm. Furthermore, relationships between these parameters and leaf nitrogen or dry matter per unit area were shown valid for variation across genotypes and across water treatments. In view of these results and literature reports, it was argued that variation in photosynthesis due to environmental conditions and to genetic variation shares common physiological mechanisms.
QTL analyses were further extended to other physiological parameters of rice. Molecular marker-based estimates of these traits from estimated additive allele effects were used as input tothe mechanistic crop model GECROS. This marker/QTL-based modelling approach showed the ability of predicting genetic variation of crop performance within ILs for a diverse set of field conditions. This approach also showed the potential of extrapolating to a large population of recombinant inbred lines from the same parents. Most importantly, this model approach may improve the efficiency of marker-assisted selection, as it provides a tool to rank the relative importance of the identified markers in determining final yield under specific environmental conditions.
To examine the extent to which natural genetic variation in photosynthesis can contribute to increasing biomass production and yield of rice, the GECROS crop model was used again to analyse the impact of genetic variation in photosynthesis on crop biomass production. It was shown that in contrast to other studies a genetic variation in photosynthesis of 25% can be scaled up equally to crop level, resulting in an increase in biomass of 22-29% across different locations and years. The difference with earlier studies seems related to the fact that variation in both Rubisco-limited and electron transport-limited photosynthesis were observed in our IL population.
This thesis has contributed to closing the gap between genotype and phenotype by integrating crop physiology and genetics through an innovative QTL/marker-based modelling approach. This approach can contribute to making the use of genomics much more efficient in practical plant breeding.

view dissertation >

Modelling and remote sensing of canopy light interception and plant stress in greenhouses

Sarlikioti, V. (2011), Wageningen University
A greenhouse crop can be approached as an open system that can be affected by a number of parameters such as light, climate or nutrient supply. In the last decades efforts have been made to understand the functioning of this system and the interaction between the different parameters. The intensive nature of greenhouse cultivation combined with the economic necessity to enlarge the farm size makes the development of decision support systems (DSS) imperative to help the growers in managing their farms efficiently. The foundation of DSS are plant models and in order to work more efficiently they should be able to receive information in real time from sensors that measure different plant parameters such as light interception, leaf area index and photosynthetic stress in a non-destructive way. In order to develop functional DSS it is imperative to develop accurate models and monitoring techniques applied in the specific greenhouse environment.
The aim of this thesis was to explore different techniques to simulate and monitor light interception and photosynthesis by a greenhouse grown tomato canopy. Since photosynthesis is directly linked to light absorption we opted to develop a three dimensional model that takes into account the explicit plant architecture. Different methodologies to monitor these physiological properties online by means of remote sensing were also explored.

view dissertation >

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