尤溪天然米槠林植物碳氮磷的化学计量特征及其分配格局

以福建尤溪的天然米槠[Castanopsis carlesii(Hemsl.) Hayata]林乔木层、灌木层和草本层的26个主要优势种为研究对象,分析了植物不同器官的C、N和P含量及其比值的差异及相关性,并对不同器官C、N和P含量在不同层次间的分布特征进行了研究.结果显示:同一器官中均为C平均含量最高、P平均含量最低;其中,叶片中C、N和P含量分别为344.95 ～ 486.15、6.26 ～ 19.50和0.18 ～0.62 mg·g-1,C/N、C/P和N/P比分别为22.52 ～61.21、696.64～2 589.72和11.38 ～58.94;根系中的C、N和P含量分别为277.95 ～458.30、1.41 ～12.73和0.13 ～0.44mg·g-1,C/N、C/P和N/P比分别为34.63 ～296.17、731.45 ～3 372.69和8.81 ～34.41;乔木层和灌木层植物枝条中C、N和P含量分别为407.75 ～473.75、3.10 ～7.39和0.09～0.61 mg·g-1,C/N、C/P和N/P比分别为57.43 ～148.15、776.64～5 054.44和7.05 ～48.11;乔木层植物树干中的C、N和P含量分别为432.56 ～463.32、2.67 ～6.35和0.16 ～0.31 mg·g-1,C/N、C/P和N/P比分别为68.12 ～167.73、1 494.58 ～2 860.63和11.35 ～29.06.乔木层植物的不同器官按C含量由高至低依次排序为叶片、枝条、树干、根系,按N和P含量由高至低依次排序为叶片、枝条、根系、树干;灌木层植物的C含量在枝条中最高、根系中最低,N和P含量在叶片中最高、枝条中最低;而草本层植物地上部分的C、N和P含量均高于地下部分.除根系中的N含量与P含量呈极显著正相关外,同一器官的C、N和P含量间均无显著相关性,但与C/N、C/P和N/P比值间大多有极显著的相关性.不同器官的C、N和P含量也因植物所处层次的不同而异,其中乔木层植物叶片中均最高、草本层植物叶片中均最低;乔木层植物全株的C含量最高、N含量最低,草本层植物全株的N含量最高、C含量最低,各层植物全株的P含量比较接近.研究结果表明:尤溪天然米槠林内植物叶片的C、N和P含量均偏低,P缺乏很可能是限制该林分植物生产力的最重要元素.     

Enhancement of nitrogen release properties of urea–kaolinite fertilizer with chitosan binder

The use of controlled release fertilizer (CRF) has become a new trend to minimize environmental pollution. In this study, urea–kaolinite containing 20 wt% urea after one hour dry grinding was mixed with different concentrations of chitosan as a binder to prepare nitrogen-based CRF. Fourier transform infrared spectroscopy confirmed the hydrogen bonding between urea and kaolinite. Covalent interaction between urea–kaolinite and chitosan make the granules stronger. The nitrogen release was measured in 5 days interval using a diacetylmonoxime calorimetric method at a wavelength of 527 nm. The results illustrated that by increasing the chitosan concentration from 3 to 7.5%, nitrogen release decreased from 41.23 to 25.25% after one day and from 77.31 to 59.27% after 30 days incubation in water. Compressive stress at break tests confirmed that granules with chitosan 6% had the highest resistance and were chosen for ammonia volatilization tests. Ammonia volatilization was carried out using the forced-draft technique for a period of 10 weeks. The results showed that the total amount of ammonia loss for conventional urea fertilizer and urea–kaolinite–chitosan granules was 68.63 and 56.75%, respectively. This controlled release product could be applied in agricultural crop production purpose due to its controlled solubility in the soil, high nutrient use efficiency and potential economic benefits.     

Asymmetric structure and domain binding interfaces of human tyrosyl‐tRNA synthetase studied by molecular dynamics simulations

Human tyrosyl‐tRNA synthetase (HsTyrRS) is composed of two structural modules: N‐terminal catalytic core and an EMAP II‐like C‐terminal domain. The structures of these modules are known, but no crystal structure of the full‐length HsTyrRS is currently available. An all‐atom model of the full‐length HsTyrRS was developed in this work. The structure, dynamics, and domain binding interfaces of HsTyrRS were investigated by extensive molecular dynamics (MD) simulations. Our data suggest that HsTyrRS in solution consists of a number of compact asymmetric conformations, which differ significantly by their rigidity, internal mobility, orientation of C‐terminal modules, and the strength of interdomain binding. Interfaces of domain binding obtained in MD simulations are in perfect agreement with our previous coarse‐grained hierarchical rotations technique simulations. Formation of the hydrogen bonds between R93 residue of the ELR cytokine motif and the residues A340 and E479 in the C‐module was observed. This observation supports the idea that the lack of cytokine activity in the full‐length HsTyrRS is explained by interactions between N‐modules and C‐modules, which block the ELR motif. Copyright © 2013 John Wiley & Sons, Ltd.     

Exploration of fluoroquinolone resistance in Streptococcus pyogenes: comparative structure analysis of wild‐type and mutant DNA gyrase

Quinolone resistance‐determining region is known to be the druggability site of the target protein that undergoes frequent mutation and thus renders quinolone resistance. In the present study, ligands were tested for their inhibitory activity against DNA gyrase of Streptococcus pyogenes involved in DNA replication. In silico mutational analysis on modelled gyrase A revealed that GLU85 had the most possible interactions with all the ligands used for the study. The amino acid residue GLU85 had also been predicted with an essential role of maintaining the three‐dimensional structure of the protein. When introduced with a mutation (GLU 85 LYS) on this particular residue, it had readily denatured the whole α‐helix (from 80 to 90 amino acids). This was confirmed through the molecular dynamics simulation and revealed that this single mutation can cause many functional and structural changes. Furthermore, LYS85 mutation has altered the original secondary structure of the protein, which in turn led to the steric hindrance during the ligand–receptor interaction. The results based on the G‐score revealed that ligands have reduced interaction with the mutant protein. The semisynthetic fluoroquinolone 6d, which is an exception, forms a strong interaction with the mutant protein and was experimentally verified using the antimicrobial test. Hence, the present study unravels the fact that mutation at the drug binding site is the major cause for different level of resistance by the S. pyogenes when exposed against the varying concentrations of the fluoroquinolones. Furthermore, a comparative assessment of quinolone derivative with the older generation fluoroquinolones will be of great impact for S. pyogenes–related infections. Copyright © 2013 John Wiley & Sons, Ltd.     

A Convenient Method for the Quantitative Determination of Pipecolic Acid

The quantitative determination of pipecolic acid was examined.

The reaction of 3% ninhydrin solution in n-butanol, saturated with citrate buffer (pH 4.2), with pipecolic acid in boiling water for 3 min yielded the colored products showing λ_max at 570 mμ, but with proline hardly yielded those products. By the colorimetry proposed, it is possible to determine the amount of pipecolic acid in the sample containing proline no more than 50 times the amount of the pipecolic acid, directly from the calibration curve using pipecolic acid.

The method for removal of amino acids from the sample containing pipecolic acid and proline was examined and discussed.     

Terpenoid Induction in Sweet Potato Roots by Cyclic-3′, 5′-Adenosine Monophosphate

The bar-headed goose, a specialized high-altitude species, has a capacity for high oxygen uptake from a hypoxic environment. It thus has a higher oxygen affinity than other bird species of lower-altitude environments. Oxygen affinity is determined by molecular structures and genetic mutations of hemoglobin (Hb), which can also influence the coordinating structures and dynamics of oxygen-Hb. To explore the structural differences in Hbs as between high and low altitude species, photolysis dynamic parameters, including quantum yield, enthalpy, and conformational volume changes in carboxy-Hbs (HbCO) for the bar-headed goose and low altitude counterparts (the Chinese goose and chicken) were investigated by the laser pumping-probing technique and photoacoustic calorimetry. Comparing the photolysis results for HbCO of the three species, the enthalpy and conformational volume changes of the bar-headed goose were much smaller than those of the others, although the quantum yields of all three species are similar. To explain the possible mechanisms of these differences, modifications of salt bridges and key residue mutations at the α β subunit interfaces of the proteins are described and discussed briefly.     

Influences of Nitrogen Sources on Usnic Acid Production in a Cultured Mycobiont of the Lichen Usnea hirta (L.) Wigg.

Effects of the nitrogen sources in the medium for the production of secondary metabolites in lichens were examined. The usnic acid production by a mycobiont of the lichen Usnea hirta was higher in the liquid medium containing ammonium and nitrate ions than in those containing amino acids.     

Molecular dynamics simulations give insight into the conformational change,complex formation,and electron transfer pathway for cytochrome P450 reductase

Cytochrome P450 reductase (CYPOR) undergoes a large conformational change to allow for an electron transfer to a redox partner to take place. After an internal electron transfer over its cofactors, it opens up to facilitate the interaction and electron transfer with a cytochrome P450. The open conformation appears difficult to crystallize. Therefore, a model of a human CYPOR in the open conformation was constructed to be able to investigate the stability and conformational change of this protein by means of molecular dynamics simulations. Since the role of the protein is to provide electrons to a redox partner, the interactions with cytochrome P450 2D6 (2D6) were investigated and a possible complex structure is suggested. Additionally, electron pathway calculations with a newly written program were performed to investigate which amino acids relay the electrons from the FMN cofactor of CYPOR to the HEME of 2D6. Several possible interacting amino acids in the complex, as well as a possible electron transfer pathway were identified and open the way for further investigation by site directed mutagenesis studies.     

Exploration of swapping enzymatic function between two proteins: A simulation study of chorismate mutase and isochorismate pyruvate lyase

The enzyme chorismate mutase EcCM from Escherichia coli catalyzes one of the few pericyclic reactions in biology, the transformation of chorismate to prephenate. The isochorismate pyruvate lyase PchB from Pseudomonas aeroginosa catalyzes another pericyclic reaction, the isochorismate to salicylate transformation. Interestingly, PchB possesses weak chorismate mutase activity as well thus being able to catalyze two distinct pericyclic reactions in a single active site. EcCM and PchB possess very similar folds, despite their low sequence identity. Using molecular dynamics simulations of four combinations of the two enzymes (EcCM and PchB) with the two substrates (chorismate and isochorismate) we show that the electrostatic field due to EcCM at atoms of chorismate favors the chorismate to prephenate transition and that, analogously, the electrostatic field due to PchB at atoms of isochorismate favors the isochorismate to salicylate transition. The largest differences between EcCM and PchB in electrostatic field strengths at atoms of the substrates are found to be due to residue side chains at distances between 0.6 and 0.8 nm from particular substrate atoms. Both enzymes tend to bring their non‐native substrate in the same conformation as their native substrate. EcCM and to a lower extent PchB fail in influencing the forces on and conformations of the substrate such as to favor the other chemical reaction (isochorismate pyruvate lyase activity for EcCM and chorismate mutase activity for PchB). These observations might explain the difficulty of engineering isochorismate pyruvate lyase activity in EcCM by solely mutating active site residues.