A residue-level investigation of the equilibrium unfolding of the C2A domain of synaptotagmin 1

Fibroblast growth factor (FGF) 1 is known to be released in response to cellular stress conditions through formation of a multi-protein complex with synaptotagmin 1 and S100A13. In this study, we characterized the denaturant-induced unfolding of synaptotagmin 1, C2A domain in a residue-specific manner by NMR spectroscopy. The amide protons of 30 residues distributed throughout the 3D structure of the whole protein could be followed in a series of ¹H-¹⁵N HSQC spectra recorded from 0 to 8 M urea under equilibrium conditions. The midpoint for the urea-induced unfolding obtained from NMR coincides with those obtained from steady state fluorescence and CD spectroscopy, revealing that the protein unfolds via a two-state mechanism without accumulating stable intermediates. The thermodynamic parameter obtained from the denaturation curve illustrates the cooperative unfolding of the C2A domain. The implications of C2A domain folding in relation to the release of FGF-1 from the multi-protein complex were discussed.     

Proteome analysis of a single zebrafish embryo using three different digestion strategies coupled with liquid chromatography-tandem mass spectrometry

Zebrafish is a powerful model to analyze vertebrate embryogenesis and organ development. Although a number of genes have been identified to specify embryonic development processes, only a few large-scale proteomic analyses have been reported in regard to these events to date. Here the total proteins of a single embryo were analyzed by urea-, sodium deoxycholate (SDC)-, and performic acid (PA)-assisted trypsin digestion strategies coupled to capillary liquid chromatography-tandem mass spectrometry (CapLC-MS/MS) identification. In total, 509 and 210 proteins were detected from the embryos at 72 and 120 hours postfertilization (hpf), respectively, with a false identification rate of less than 1%. Approximately 95% of those proteins could be observed by combining the urea- and SDC-assisted digestion strategies, suggesting that these two methods are more effective than the PA-assisted method. Compared with 0.5% SDC, 1% SDC was more effective to identify proteins in zebrafish embryos. In addition, removal of the predominant yolk proteins could significantly improve protein identification efficiency. Our study represents the first overview of the protein expression profile of a single zebrafish embryo at 72 or 120 hpf. More important, this single individual proteome methodology could be applied to multiple development stages of wide-type or mutant embryos, providing a simple and powerful way to further our understanding of embryonic development.     

添加尿素对模拟发酵罐中沼气发酵的影响

如何提高产气量一直以来都是沼气发酵过程中需要解决的主要问题.本研究是在实验室条件下组建模拟沼气发酵罐,并用于研究发酵罐中添加尿素对沼气发酵的影响.结果表明:与不添加尿素的对照组相比,处理组中添加浓度为1 000 mg/L的尿素可以有效提高沼气发酵基质的利用率,并提高沼气中甲烷含量,该系统中发酵原料总固体(total solid,TS)消耗率提高1.79%,挥发性固体(volatile solid,VS)消耗率提高4.36%,甲烷产量提高8.4%;添加3 000 mg/L尿素使发酵原料TS消耗率降低1.59%,但是VS消耗率提高2.28%,产甲烷量提高5.4%;添加5 000 mg/L尿素则会对发酵原料的利用产生抑制作用,TS、VS消耗率分别降低3.04%、3.72%,甲烷产量降低4.2%.本研究结果将为提高沼气发酵效率提供初步的理论基础.     

广州地区淡水水体尿素的分布特征

近年来,随着农业的发展,化学肥料尿素的使用量逐年攀升,由于土壤中氮肥的流失,导致水体中尿素含量偏高,对浮游植物的生长繁殖起到了重要的作用。于2007年8月～2008年7月对广州市区、从化市、花都区和增城区四个地区的具有代表性的河涌、河流、人工湖和水库等47个样点的尿素含量进行了一年的监测。结果表明,这四个地区河涌、河流、人工湖和水库都不同程度的受到了尿素的污染,其中广州市区尿素污染最严重,其次是花都区和增城区,污染最轻的是从化市;从水体类型来看,人工湖和大多数水库尿素污染较轻,而人口居住较密集地区和农田附近的河涌和河流污染较严重,可能与人类活动和农业生产关系较大。     

施用尿素引起红壤pH及铝活性的短期变化

酸性红壤在我国南方广泛分布,其酸性是限制大多数作物生长的一个主要环境胁迫因子,主要原因是低pH条件下土壤中Al的溶解所导致的毒性.对3种红壤施用不同浓度的尿素,其pH值在短期内都随着施入尿素浓度的增大而急剧上升,交换性Al随着施用尿素浓度的增大而急剧下降.交换性Al含量与土壤pH值变化呈显著负相关.动态试验表明,pH值上升的现象是短期的,pH值在达最大值后缓慢下降,下降幅度最大的阶段在第2～4周.短期内,施用尿素能显著降低酸性土壤对玉米的铝毒效应.     

Urea decomposing activity of fractionated brackish phytoplankton in Lake Nakaumi

The influence of brackish phytoplankton cell classes upon the response of urea decomposition was investigated in Lake Nakaumi. The urea decomposition rate was 5 to 350 μmol urea m⁻³ h⁻¹ in the light and 3 to 137 μmol urea m⁻³ h⁻¹ in the dark. The urea decomposition rates in the light were obviously higher than in the dark. An extremely high rate (350 μmol urea m⁻³ h⁻¹) was observed in Yonago Bay. The rate in the smaller fraction (<5 μm) exceeded that in the middle (5–25 μm) and larger fractions (>25 μm). The chlorophyll- and photosynthesis-specific rates for urea decomposition in the light were 0.5 to 3.9 μmol urea mg chl.a ⁻¹ h⁻¹ and 0.3 to 1.3 μmol urea mg photo.C⁻¹. The specific urea decomposing activities were higher in the smaller fraction than in the other two fractions. The present results suggest that in brackish waters urea decomposition occurred with coupling to the standing crop and photosynthetic activity of phytoplankton. Received: May 22, 1999 / Accepted: August 15, 1999     

Urea degradation by picophytoplankton in the euphotic zone of Lake Biwa

The ability of photoautotrophic picoplankton Synechococcus to degrade urea was examined in the euphotic zone of Lake Biwa. Samples were divided into pico (0.2–2.0 μm) and larger (>2.0 μm) size fractions by filtration. The rates of urea degradation (the sum of the rates of incorporation of carbon into phytoplankton cells and of liberation of CO₂ into water) measured by radiocarbon urea were 8 and 17 μmol urea m⁻³ day⁻¹ in June and July, respectively, for the picophytoplankton in the surface water, and 196 and 96 μmol urea m⁻³ day⁻¹, respectively for the larger phytoplankton. The rates decreased with depth, somewhat similar to the vertical profiles of the photosynthetic rate. The urea degradation rates were obviously high under light conditions. In daylight, urea was degraded into two phases, carbon incorporation and CO₂ liberation, whereas in the dark it was degraded only into the CO₂ liberation phase. The contribution of picophytoplankton to total phytoplankton in urea degradation was high in the subsurface to lower euphotic layer. Urea degradation activity was higher in the picophytoplankton fraction than in the larger phytoplankton fraction. Shorter residence times of urea were obtained in the upper euphotic zone. The contribution of picophytoplankton to urea cycling was 4% to 35%. The present results suggest that the picophytoplankton Synechococcus is able to degrade urea and effectively makes use of regenerated urea as a nitrogen source in the euphotic layer, and that picophytoplankton play an important role in the biogeochemical nitrogen cycle in Lake Biwa. Received: June 25, 1998 / Accepted: February 10, 1999     

Pathogenesis ofSynchytrium endobioticum

Summary Field plots infested withSynchytrium endobioticum pathotype 2 were amended with agricultural lime, NH₄NO₃ and/or urea and planted with cv. Arran Victory. A weekly survey of changes in pH from planting to harvest revealed constant pH in absence of the chemicals, fluctuating pH with lime, very large increase then falling off with urea, and depressed below normal pH with NH₄NO₃. Best disease control occurred in urea-treated plotsvs NH₄NO₃-treated plots. Addition of lime, although it elevated pH, did not suppress the disease with urea or NH₄NO₃ added. Mechanisms for suppression by urea are related to its role as an ammonia producer and microbial stimulator, and their implication for infection byS. endobioticum.Contribution No. 81, Research Station, Agriculture Canada, P.O. Box 7098 St. John's, Newfoundland, A1E 3Y3     

Induction of ureogenesis in perfused liver of a freshwater teleost, Heteropneustes fossilis, infused with different concentrations of ammonium chloride

The induction pattern of urea cycle enzymes and the rate of urea-N excretion were studied with relation to ammonia load in the perfused liver of a freshwater ammoniotelic teleost, Heteropneustes fossilis, when infused with different concentrations of ammonium chloride for 60 min. Both urea-N excretion and uptake of ammonia by the perfused liver were found to be a saturable process. The V_max of urea-N excretion (0.45 μmol/g liver/min) was obtained at ammonium chloride addition of 1.18 μmol/g liver/min. The maximum induction of carbamyl phosphate synthetase (ammonia dependent), 200%, and of ornithine transcarbamylase, 120%, was seen by the addition of 0.58 μmol/g liver/min, and for argininosuccinate synthetase and argininosuccinate lyase of 150% and 115%, respectively, by the addition of 2.8 μmol/g liver/min of ammonium chloride. However, arginase activity did not alter in any of the concentrations of ammonium chloride added. An increase of ammonia load of 3–5 μmol/g wet wt from the physiological level in the perfused liver was sufficient to initiate and to cause maximum induction of most of the urea cycle enzymes activitty. These results further confirm the capacity of transition from ammoniotelism to ureotelism in this unique freshwater air-breathing teleost to tolerate a very high ambient ammonia.