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  • 1
    Publication Date: 2016-08-11
    Description: Low-mass protostars are the extrasolar analogues of the natal Solar system. Sophisticated physicochemical models are used to simulate the formation of two protoplanetary discs from the initial prestellar phase, one dominated by viscous spreading and the other by pure infall. The results show that the volatile prestellar fingerprint is modified by the chemistry en route into the disc. This holds relatively independent of initial abundances and chemical parameters: physical conditions are more important. The amount of CO 2 increases via the grain-surface reaction of OH with CO, which is enhanced by photodissociation of H 2 O ice. Complex organic molecules are produced during transport through the envelope at the expense of CH 3 OH ice. Their abundances can be comparable to that of methanol ice (few per cent of water ice) at large disc radii ( R 〉 30 au). Current Class II disc models may be underestimating the complex organic content. Planet population synthesis models may underestimate the amount of CO 2 and overestimate CH 3 OH ices in planetesimals by disregarding chemical processing between the cloud and disc phases. The overall C/O and C/N ratios differ between the gas and solid phases. The two ice ratios show little variation beyond the inner 10 au and both are nearly solar in the case of pure infall, but both are subsolar when viscous spreading dominates. Chemistry in the protostellar envelope en route to the protoplanetary disc sets the initial volatile and prebiotically significant content of icy planetesimals and cometary bodies. Comets are thus potentially reflecting the provenances of the midplane ices in the solar nebula.
    Print ISSN: 0035-8711
    Electronic ISSN: 1365-2966
    Topics: Physics
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  • 2
    Publication Date: 2015-07-01
    Description: Complex organic molecules are ubiquitous companions of young low-mass protostars. Recent observations suggest that their emission stems, not only from the traditional hot corino, but also from offset positions. In this work, 2D physicochemical modelling of an envelope-cavity system is carried out. Wavelength-dependent radiative transfer calculations are performed and a comprehensive gas-grain chemical network is used to simulate the physical and chemical structure. The morphology of the system delineates three distinct regions: the cavity wall layer with time-dependent and species-variant enhancements; a torus rich in complex organic ices, but not reflected in gas-phase abundances and the remaining outer envelope abundant in simpler solid and gaseous molecules. Strongly irradiated regions, such as the cavity wall layer, are subject to frequent photodissociation in the solid phase. Subsequent recombination of the photoproducts leads to frequent reactive desorption, causing gas-phase enhancements of several orders of magnitude. This mechanism remains to be quantified with laboratory experiments. Direct photodesorption is found to be relatively inefficient. If radicals are not produced directly in the icy mantle, the formation of complex organics is impeded. For efficiency, a sufficient number of FUV photons needs to penetrate the envelope, and elevated cool dust temperatures need to enable grain-surface radical mobility. As a result, a high stellar luminosity and a sufficiently wide cavity favour chemical complexity. Furthermore within this paradigm, complex organics are demonstrated to have unique lifetimes and be grouped into early (formaldehyde, ketene, methanol, formic acid, methyl formate, acetic acid and glycolaldehyde) and late (acetaldehyde, dimethyl ether and ethanol) species.
    Print ISSN: 0035-8711
    Electronic ISSN: 1365-2966
    Topics: Physics
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  • 3
    Publication Date: 2012-07-06
    Description: : Marker2sequence (M2S) aims at mining quantitative trait loci (QTLs) for candidate genes. For each gene, within the QTL region, M2S uses data integration technology to integrate putative gene function with associated gene ontology terms, proteins, pathways and literature. As a typical QTL region easily contains several hundreds of genes, this gene list can then be further filtered using a keyword-based query on the aggregated annotations. M2S will help breeders to identify potential candidate genes for their traits of interest. Availability: Marker2sequence is freely accessible at http://www.plantbreeding.wur.nl/BreeDB/marker2seq/ . The source code can be obtained at https://github.com/PBR/Marker2Sequence . Contact: richard.finkers@wur.nl Supplementary information: Supplementary data are available at Bioinformatics online.
    Print ISSN: 1367-4803
    Electronic ISSN: 1460-2059
    Topics: Biology , Computer Science , Medicine
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  • 4
    Publication Date: 2014-10-10
    Description: Interstellar methanol is considered to be a parent species of larger, more complex organic molecules. A physicochemical simulation of infalling parcels of matter is performed for a low-mass star-forming system to trace the chemical evolution from cloud to disc. An axisymmetric 2D semi-analytic model generates the time-dependent density and velocity distributions, and full continuum radiative transfer is performed to calculate the dust temperature and the UV radiation field at each position as a function of time. A comprehensive gas–grain chemical network is employed to compute the chemical abundances along infall trajectories. Two physical scenarios are studied, one in which the dominant disc growth mechanism is viscous spreading, and another in which continuous infall of matter prevails. The results show that the infall path influences the abundance of methanol entering each type of disc, ranging from complete loss of methanol to an enhancement by a factor of 〉1 relative to the prestellar phase. Critical chemical processes and parameters for the methanol chemistry under different physical conditions are identified. The exact abundance and distribution of methanol is important for the budget of complex organic molecules in discs, which will be incorporated into forming planetary system objects such as protoplanets and comets. These simulations show that the comet-forming zone contains less methanol than in the precollapse phase, which is dominantly of prestellar origin, but also with additional layers built up in the envelope during infall. Such intriguing links will soon be tested by upcoming data from the Rosetta mission.
    Print ISSN: 0035-8711
    Electronic ISSN: 1365-2966
    Topics: Physics
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