1.
Performance evaluation and modeling of synthetic-fiber barrier in the treatment of turbid water.
Yu, J, Kim, Y
Water environment research : a research publication of the Water Environment Federation. 2013;(7):596-603
Abstract
A synthetic-fiber barrier for the removal of turbidity in water was developed and tested using a laboratory scale channel. The effects of hydraulics (flow rate and exchange rate); density current caused by temperature and turbidity difference; barrier conditions (thickness, number and shape); and particle size were analyzed. The experimental results indicated that removal efficiency was positively related to barrier thickness and number, was inversely related to the strength of the density current, and was also negatively affected by the flow rate and exchange rate. A wedged barrier was found to work better than a rectangular one when the same amount of fiber was used. Based on the experimental work, empirical models for the removal efficiency and barrier design were established using dimensionless groups. The modeling results indicated that the predicted values were consistent with the experimental work and the increases and decreases in the performance were suitably simulated.
2.
Model-assisted integration of physiological and environmental constraints affecting the dynamic and spatial patterns of root water uptake from soils.
Draye, X, Kim, Y, Lobet, G, Javaux, M
Journal of experimental botany. 2010;(8):2145-55
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Abstract
Due in part to recent progress in root genetics and genomics, increasing attention is being devoted to root system architecture (RSA) for the improvement of drought tolerance. The focus is generally set on deep roots, expected to improve access to soil water resources during water deficit episodes. Surprisingly, our quantitative understanding of the role of RSA in the uptake of soil water remains extremely limited, which is mainly due to the inherent complexity of the soil-plant continuum. Evidently, there is a need for plant biologists and hydrologists to develop together their understanding of water movement in the soil-plant system. Using recent quantitative models coupling the hydraulic behaviour of soil and roots in an explicit 3D framework, this paper illustrates that the contribution of RSA to root water uptake is hardly separable from the hydraulic properties of the roots and of the soil. It is also argued that the traditional view that either the plant or the soil should be dominating the patterns of water extraction is not generally appropriate for crops growing with a sub-optimal water supply. Hopefully, in silico experiments using this type of model will help explore how water fluxes driven by soil and plant processes affect soil water availability and uptake throughout a growth cycle and will embed the study of RSA within the domains of root hydraulic architecture and sub-surface hydrology.
3.
Liquid hot water pretreatment of cellulosic biomass.
Kim, Y, Hendrickson, R, Mosier, NS, Ladisch, MR
Methods in molecular biology (Clifton, N.J.). 2009;:93-102
Abstract
Lignocellulosic biomass is an abundant and renewable resource for fuel ethanol production. However, the lignocellulose is recalcitrant to enzymatic hydrolysis because of its structural complexity. Controlled-pH liquid hot water (LHW) pretreatment of cellulosic feedstock improves its enzymatic digestibility by removing hemicellulose and making the cellulose more accessible to cellulase enzymes. The removed hemicellulose is solubilized in the liquid phase of the pretreated feedstock as oligosaccharides. Formation of monomeric sugars during the LHW pretreatment is minimal. The LHW pretreatment is carried out by cooking the feedstock in process water at temperatures between 160 and 190 degrees C and at a pH of 4-7. No additional chemicals are needed. This chapter presents the detailed procedure of the LHW pretreatment of lignocellulosic biomass.
4.
A bound water molecule is crucial in initiating autocatalytic precursor activation in an N-terminal hydrolase.
Yoon, J, Oh, B, Kim, K, Park, J, Han, D, Kim, KK, Cha, SS, Lee, D, Kim, Y
The Journal of biological chemistry. 2004;(1):341-7
Abstract
Cephalosporin acylase is a member of the N-terminal hydrolase family, which is activated from an inactive precursor by autoproteolytic processing to generate a new N-terminal nucleophile Ser or Thr. The gene structure of the precursor cephalosporin acylases generally consists of a signal peptide that is followed by an alpha-subunit, a spacer sequence, and a beta-subunit. The cephalosporin acylase precursor is post-translationally modified into an active heterodimeric enzyme with alpha- and beta-subunits, first by intramolecular cleavage and, second, by intermolecular cleavage. Intramolecular autocatalytic proteolysis is initiated by nucleophilic attack of the residue Ser-1beta onto the adjacent scissile carbonyl carbon. This study determined the precursor structure after disabling the intramolecular cleavage. This study also provides experimental evidence showing that a conserved water molecule plays an important role in assisting the polarization of the OG atom of Ser-1beta to generate a strong nucleophile and to direct the OG atom of the Ser-1beta to a target carbonyl carbon. Intramolecular proteolysis is disabled as a result of a mutation of the residues causing conformational distortion to the active site. This is because distortion affects the existence of the catalytically crucial water at the proper position. This study provides the first evidence showing that a bound water molecule plays a critical role in initiating intramolecular cleavage in the post-translational modification of the precursor enzyme.