A spin label study of immobilized enzyme spectral subpopulations

Electron spin resonance (ESR) spin label studies have been carried out to examine the active site conformation of alpha-chymotrypsin before and after immobilization on two types of organic polymer supports: Amberlite XAD-8 and XAD-2. alpha-Chymotryspin was first chemically modified by reaction with methyl-4-phenylbutyrimidate and then inhibited by the active site spin label 4-(2,2,6,6-tetramethyl-piperdine-1-oxyl)-m-flurosulfonylbenzamide. In general, the ESR spectra of the active site lable revealed no significant changes in conformation for most of the enzyme before or after derivatization. On the other hand, two spectral subpopulations (A and B) of spin-labeled enzyme were characterized on the basis of their ESR spectra after immobilization on Amberlite XAD-8. Spectral subpopulation A (distinguished by a highly restrained spectrum) appeared to retain its active site structure and conformation and represented a large majority of the labeled chymotrypsin on the beads. Its presence correlated with the high activity and stability of phenylbutyramidinated chymotryspin on the Amberlite XAD-8 beads. Spectral subpopulation B (distinguished by a very weakly constrained spectrum) appeared to reflect loosely bound or denatured enzyme which was removable upon washing with 40% (v/v) ethylene glycol. Two methods for examining solvent accessibility to the active site lable of the kinetics of ascorbate reduction suggested that both spectral subpopulations had identical accessibilities to the bulk solvent. Paramagnetic broadening of the signal by K(3)Fe(CN)(6) revealed differences in the spin-spin broadening of the A and B components but is deemed and inappropriate indicator of solvent accessibility.     

In vivo inhibition of megakaryocyte and platelet production by platelet factor 4 in mice.

The in vivo effect of human platelet factor 4 (PF4) on murine megakaryocytopoiesis and thrombopoiesis was studied. Administration of PF4 induced a dose-dependent decrease in the numbers of megakaryocytes and their progenitor cells (CFU-MK), continuing for 1 week after the injection. However, the size of megakaryocytes and their colonies was not changed following PF4 injection. Platelet levels were significantly decreased at days 3-4. The number of CFU-GM was decreased at days 1-2. White blood cells and hemoglobin were unaffected by PF4. These data indicate that PF4 inhibits megakaryocyte and platelet production in vivo by acting on the early stage of megakaryocyte development.     

Study of a possible structural relationship between thymopoietin and the facteur thymique serique

Background peptide chemistry, and the known 49-amino acid sequence of thymopoietin and the known 9-amino acid sequence of the facteur thymique serique (FTS) allowed the concept that Arg⁴⁹ of thymopoietin might be linked to Gln¹ of FTS in a new 58-amino acid peptide in tissue. Cleavage between Arg⁴⁹ and Gln⁵⁰ adjacent to the unique Lys⁴⁸-Arg⁴⁹ moiety could liberate thymopoietin and the [H-Gln¹]-FTS which could cyclize to FTS by the known reaction. In support of, rather than negating, this concept, synthetic FTS and the new dodecapeptide consisting of Val-Lys-Arg linked to the N-terminal of [H-Gln¹]-FTS showed comparable immune stimulating activity, $\text{in vivo}$; both peptides appeared more active than synthetic thymopoietin II.     

Re-Identification on Korean Penicillium Sequences in GenBank Collected by Software GenMine

Penicillium species have been actively studied in various fields, and many new and unrecorded species continue to be reported in Korea. Moreover, unidentified and misidentified Korean Penicillium species still exist in GenBank. Therefore, it is necessary to revise the Korean Penicillium inventory based on accurate identification. We collected Korean Penicillium nucleotide sequence records from GenBank using the newly developed software, GenMine, and re-identified Korean Penicillium based on the maximum likelihood trees. A total of 1681 Korean Penicillium GenBank nucleotide sequence records were collected from GenBank. In these records, 1208 strains with four major genes (Internal Transcribed Spacer rDNA region, β-tubulin, Calmodulin and RNA polymerase II) were selected for Penicillium re-identification. Among 1208 strains, 927 were identified, 82 were identified as other genera, the rest remained undetermined due to low phylogenetic resolution. Identified strains consisted of 206 Penicillium species, including 156 recorded species and 50 new species candidates. However, 37 species recorded in the national list of species in Korea were not found in GenBank. Further studies on the presence or absence of these species are required through literature investigation, additional sampling, and sequencing. Our study can be the basis for updating the Korean Penicillium inventory.     

黄土高寒区典型植被类型土壤入渗特征及其影响因素

为了研究黄土高寒区典型植被在不同坡位下土壤入渗性能差异及其影响因素,采用恒定水头法测定了不同植被类型的土壤入渗过程,并分析了土壤孔隙状况、机械组成、水稳性团聚体等与渗透速率的相关性。结果表明:(1)初渗速率和稳渗速率均表现为青海云杉>祁连圆柏>华北落叶松>荒草地,且差异性显著;同一植被类型的土壤入渗速率沿坡面向下逐渐增大,但差异性不显著;(2)对不同植被类型的土壤入渗过程模拟发现Horton模型拟合效果最好,决定系数均在0.8以上,通用经验模型拟合精度较差,决定系数在0.614—0.982之间;(3)土壤入渗性能与孔隙状况、水稳性团聚体质量分数、有机质含量均有极显著相关性;>0.25 mm团聚体质量分数是影响稳渗速率的主要决策因素;总孔隙度是影响初渗速率的最主要的决策因素,而毛管孔隙度是主要的限制因子。为高寒地区土壤入渗模拟以及植被配置等提供了科学依据。     

中街山列岛海域鱼卵、仔稚鱼群落结构特征及其与环境因子的关系

为了解中街山列岛海域鱼卵仔稚鱼空间分布、种类组成及与环境因子的关系,于2010年5月—2012年2月在中街山列岛海域利用水平和垂直拖网开展了8个航次的鱼卵、仔稚鱼调查。运用非度量多维标度排序、聚类分析和典范对应分析(CCA)等方法对该海域鱼卵、仔稚鱼的空间分布进行了综合分析。结果表明:两年水平拖网共采集到鱼卵1783粒,仔稚鱼67尾;垂直拖网共采集到鱼卵576粒,仔稚鱼59尾。2010年平拖优势种为短吻红舌鳎(Cynoglossus joyneri),垂拖重要种为鲉形目未定种(Scorpaeniformes sp.)和扁舵鰹(Auxis thazard)。2011年平拖重要种为短吻红舌鳎、鰏属未定种(Leiognathuss sp.)、龙头鱼(Harpodon nehereus)和鳀(Engraulis japonicus);垂拖重要种为短吻红舌鳎、龙头鱼和中华小公鱼(Stolephorus chinensis)。经单因子相似性分析(ANOSIM),鱼卵仔稚鱼的优势种和重要种群落物种组成存在显著差异(P<0.01)。研究结果表明,温度和盐度对鱼卵仔稚鱼的影响较大,夏季是中街山列岛...     

Comparative Network Biology Discovers Protein Complexes That Underline Cellular Differentiation in Anabaena sp.

The filamentous cyanobacterium Anabaena sp. PCC 7120 can differentiate into heterocysts to fix atmospheric nitrogen. During cell differentiation, cellular morphology and gene expression undergo a series of significant changes. To uncover the mechanisms responsible for these alterations, we built protein–protein interaction (PPI) networks for these two cell types by cofractionation coupled with mass spectrometry. We predicted 280 and 215 protein complexes, with 6322 and 2791 high-confidence PPIs in vegetative cells and heterocysts, respectively. Most of the proteins in both types of cells presented similar elution profiles, whereas the elution peaks of 438 proteins showed significant changes. We observed that some well-known complexes recruited new members in heterocysts, such as ribosomes, diflavin flavoprotein, and cytochrome c oxidase. Photosynthetic complexes, including photosystem I, photosystem II, and phycobilisome, remained in both vegetative cells and heterocysts for electron transfer and energy generation. Besides that, PPI data also reveal new functions of proteins. For example, the hypothetical protein Alr4359 was found to interact with FraH and Alr4119 in heterocysts and was located on heterocyst poles, thereby influencing the diazotrophic growth of filaments. The overexpression of Alr4359 suspended heterocyst formation and altered the pigment composition and filament length. This work demonstrates the differences in protein assemblies and provides insight into physiological regulation during cell differentiation.     

Site-directed mutagenesis by combination of homologous recombination and DpnI digestion of the plasmid template in Escherichia coli

A rapid site-directed mutagenesis strategy using homologous recombination and DpnI digestion of the template in Escherichia coli is described. Briefly, inverse polymerase chain reaction amplification of the entire circular plasmid was performed by mutagenic primers with overlapping sequences ( approximately 15 bp) for generating PCR products with approximately 15 bp of homology on the terminal ends. On direct transformation of the amplified PCR products into restriction endonuclease DpnI-expressing E. coli BUNDpnI, homologous recombination occurs in E. coli while the original templates are removed via DpnI digestion in vivo, thus yielding clones harboring mutated circular plasmids. Nearly 100% efficiency was attained when this strategy was used to modify DNA sequences.     

三叶鬼针草与不同本地植物竞争对土壤 微生物和土壤养分的影响

入侵植物三叶鬼针草(Bidens pilosa)对我国农牧业生产造成了重大的损失。本文主要研究三叶鬼针草入侵与不同本地植物竞争对土壤微生物群落结构和土壤养分的影响。利用磷脂脂肪酸方法(phospholipid fatty acids, PLFAs)测定土壤微生物群落组成, 同时测定土壤养分和酶活性, 并利用Canoco4.5软件分析了土壤微生物、土壤养分和土壤酶活性的相关性。结果表明: (1)三叶鬼针草对革兰氏阳性菌、革兰氏阴性菌、丛枝菌根真菌等土壤微生物具有较强的聚集能力, 且其根际土壤聚集的微生物类群与本地植物种类密切相关。(2)三叶鬼针草入侵显著增加了入侵地土壤的有机碳含量, 降低了铵态氮的含量; 土壤中的速效钾、速效磷和硝态氮的含量则与本地植物种类密切相关。(3)相关性分析表明, 16:00和16:1 ω5c对铵态氮的含量影响较大, 而三叶鬼针草入侵地16:00和16:1 ω5c的含量显著高于裸土对照, 进而推测这一状况导致了铵态氮含量的降低。(4) 15:1 anteiso A和18:1 ω5c与速效钾的含量呈显著正相关, 而其含量在狗尾草(Setaria viridis)中显著高于其他处理, 三叶鬼针草与狗尾草混种处理中土壤中速效钾的含量高于其他处理。以上结果说明, 三叶鬼针草通过改变土壤微生物群落结构影响了土壤酶活性和土壤养分, 且这种改变与入侵地本地植物种类有关。