菊花R病毒杭白菊分离株全基因组序列测定与分析

杭白菊作为著名的中药“浙八味”之一,种植规模和产区不断扩大,但其病毒病的发生也日益严重,对其产量和品质造成严重影响。本研究利用双链RNA（double stranded RNA,dsRNA）和非序列依赖PCR扩增（sequence independent amplification,SIA）等方法,对感病杭白菊病原物进行鉴定,为杭白菊病毒病原的检测构建一套快速和简便的方法。结果表明,感病杭白菊被菊花R病毒（Chrysanthemum virus R,CVR）侵染,将其命名为CVR-TX。通过对其全基因组进行序列扩增与分析,获得其全长基因组为8 872 bp,编码6个ORF,具有Carlavirus属病毒的典型特征。基于全基因组核酸序列以及复制酶、外壳蛋白氨基酸的序列比对发现,CVR-TX与CVR-BJ同源性最高,分别为85.5%、96.0%和96.3%;与Carlavirus属其他病毒同源性分别在48.2%～54.4%、46.9%～55.3%和36.8%～59.5%,因此CVR被确定为一种新的Carlavirus属病毒。系统进化分析表明,基于全长基因组、复制酶（replicase）基因和外壳蛋白（coat protein,CP）基因与CVR-BJ聚为一簇,亲缘性最近。本研究获得了CVR-TX的全长基因组,丰富了CVR的基因组信息,通过生物信息学分析明确其种属关系和区域变化情况,从而为建立CVR可靠灵敏的分子检测手段和有效的防控措施提供理论基础。     

Convergent and divergent ligand specificity among PDZ domains of the LAP and zonula occludens (ZO) families

We present a detailed comparative analysis of the PDZ domains of the human LAP proteins Erbin, Densin-180, and Scribble and the MAGUK ZO-1. Phage-displayed peptide libraries and in vitro affinity assays were used to define ligand binding profiles for each domain. The analysis reveals the importance of interactions with all four C-terminal residues of the ligand, which constitute a core recognition motif, and also the role of interactions with more upstream ligand residues that support and modulate the core binding interaction. In particular, the results highlight the importance of site(-1), which interacts with the penultimate residue of ligand C termini. Site(-1) was found to be monospecific in the Erbin PDZ domain (accepts tryptophan only), bispecific in the first PDZ domain of ZO-1 (accepts tryptophan or tyrosine), and promiscuous in the Scribble PDZ domains. Furthermore, it appears that the level of promiscuity within site(-1) greatly influences the range of potential biological partners and functions that can be associated with each protein. These findings show that subtle changes in binding specificity can significantly alter the range of biological partners for PDZ domains, and the insights enhance our understanding of this diverse family of peptide-binding modules.     

离子液体的性能及应用

离子液体不仅可用作环境友好的“绿色溶剂”,而且在生物合成和有机反应中能表现出特殊的催化、促进效应。在介绍离子液体种类、性质、合成方法的基础上,重点综述离子液体功能化方法、离子液体／超临界CO2体系和其在生物催化反应中应用的最新研究进展。     

Time-resolved NMR: extracting the topology of complex enzyme networks

The use of nondestructive NMR spectroscopy for enzymatic studies offers unique opportunities to identify nearly all enzymatic byproducts and detect unstable short-lived products or intermediates at the molecular level; however, numerous challenges must be overcome before it can become a widely used tool. The biosynthesis of acetyl-coenzyme A (acetyl-CoA) by acetyl-CoA synthetase is used here as a case study for the development of an analytical NMR-based time-course assay platform. We describe an algorithm to deconvolve superimposed spectra into spectra for individual molecules, and further develop a model to simulate the acetyl-CoA synthetase enzyme reaction network using the data derived from time-course NMR. Simulation shows indirectly that synthesis of acetyl-CoA is mediated via an enzyme-bound intermediate (possibly acetyl-AMP) and is accompanied by a nonproductive loss from an intermediate. The ability to predict enzyme function based on partial knowledge of the enzymatic pathway topology is also discussed.     

入侵害虫梣粉虱的种特异性SS-COⅠ检测技术

【目的】梣粉虱是新近入侵中国大陆的一种危险性果树和园林植物害虫,针对其体型微小,与近缘种粉虱形态相仿,很难快速准确区分的问题,以田间常见的11种/隐种粉虱为参考,采用基于mt DNA细胞色素C氧化酶亚基Ⅰ(mitochondrial DNA cytochrome c oxidase subunitⅠ,mt DNA COⅠ)基因的物种特异性(species-specific COⅠ,SS-COⅠ)PCR法,研究梣粉虱快速分子检测鉴定技术。【方法】利用mt DNA COⅠ基因通用型引物对LCO-1490/HCO-2198获得梣粉虱和其他常见粉虱的COⅠ基因序列,根据测序结果设计梣粉虱特异性SS-COⅠ引物1对(SPZWCF1/SPZWCR1),之后确定其对目的片段的扩增长度,并对该引物对的物种特异性和检测灵敏性进行检验。【结果】引物对SPZWCF1/SPZWCR1扩增片段的长度为426 bp。物种特异性检验结果显示,该对引物只对梣粉虱的mt DNA COⅠ基因具有扩增效果,对我国常见的其他种类的粉虱包括5种烟粉虱隐种(AsiaⅠ、AsiaⅡ1、AsiaⅡ3、MED、MEAM1隐种)以及桑粉虱、螺旋粉虱、黑刺粉虱、柑橘粉虱、双钩巢粉虱和温室粉虱等不具有交叉反应和扩增能力。灵敏性检验结果显示,该对引物不仅对不同性别、不同采集地的成虫具有良好的扩增效能,对2~4龄若虫以及单粒卵和初孵若虫亦具有同样的扩增效力,其最低检测阈值为75.1 pg·μL-1(相当于1/10240头雌性成虫)。【结论】该技术体系可用于梣粉虱的快速准确鉴定及其检测和监测,对有效阻截其进一步传播扩散具有重要作用。     

淡水螯虾生理生态学与环境毒理学研究进展

综述了我国2种主养的淡水螯虾(克氏原螯虾和红螯螯虾)在生理生态学与环境毒理学方面的研究进展。总结了淡水螯虾的环境条件(盐度、温度和pH)适应范围、毒性污染物(氨氮、亚硝酸盐、重金属和农药等)的半致死浓度和安全浓度,以及环境胁迫和毒性污染物暴露对淡水螯虾生长、组织结构、生理代谢和免疫功能等的影响,为淡水螯虾养殖的水环境监测与调控提供参考依据。     

Roles of active site tryptophans in substrate binding and catalysis by alpha-1,3 galactosyltransferase

Aromatic amino acids are frequent components of the carbohydrate binding sites of lectins and enzymes. Previous structural studies have shown that in alpha-1,3 galactosyltransferase, the binding site for disaccharide acceptor substrates is encircled by four tryptophans, residues 249, 250, 314, and 356. To investigate their roles in enzyme specificity and catalysis, we expressed and characterized variants of the catalytic domain of alpha-1,3 galactosyltransferase with substitutions for each tryptophan. Substitution of glycine for tryptophan 249, whose indole ring interacts with the nonpolar B face of glucose or GlcNAc, greatly increases the K(m) for the acceptor substrate. In contrast, the substitution of tyrosine for tryptophan 314, which interacts with the beta-galactosyl moiety of the acceptor and UDP-galactose, decreases k(cat) for the galactosyltransferase reaction but does not affect the low UDP-galactose hydrolase activity. Thus, this highly conserved residue stabilizes the transition state for the galactose transfer to disaccharide but not to water. High-resolution crystallographic structures of the Trp(249)Gly mutant and the Trp(314)Tyr mutant indicate that the mutations do not affect the overall structure of the enzyme or its interactions with ligands. Substitutions for tryptophan 250 have only small effects on catalytic activity, but mutation of tryptophan 356 to threonine reduces catalytic activity for both transferase and hydrolase activities and reduces affinity for the acceptor substrate. This residue is adjacent to the flexible C-terminus that becomes ordered on binding UDP to assemble the acceptor binding site and influence catalysis. The results highlight the diverse roles of these tryptophans in enzyme action and the importance of k(cat) changes in modulating glycosyltransferase specificity.     

Continuous methane fermentation and the production of vitamin B12 in a fixed-bed reactor packed with loofah

A fixed-bed reactor with acclimated methanogens immobilized on a loofah support was studied on a laboratory scale to evaluate the system producing methane from the mixture of CO(2) and H(2) gas, with the production of vitamin B(12) as a by-product. Fermentation using CO(2)/H(2) acclimated methanogens was conducted in a jar fermentor with hydraulic retention times (HRTs) of three and six days. The performance of the reactor was mainly dependent on the HRT. With an HRT of three days, the methane production rate and the vitamin B(12) concentration in the culture broth were 6.18 l/l-reactor/h and 2.88 mg/l-culture liquid; these values were 11.96 l/l-reactor/h and 37.54 mg/l-culture liquid for an HRT of six days. A higher total cell mass of methanogens retained 42.5 g dry cell/l-culture liquid was achieved in the HRT of six days. The loofah carrier immobilized almost 95% of the methanogens, which led to a more effective bio-reaction. It was also observed that the fermentation system had a better ability to buffer pH, especially for an HRT of six days.     

大鼠内毒素血症不同时期血浆CGRP和背根神经节CGRP mRNA水平的变化

本文采用逆转录聚合酶链反应（RT－PCR）方法测定大鼠内毒素血症不同时期胸腰段背根神经节降钙素基因相关肽（CGRP）mRNA水平的改变,结合血浆CGRP水平的改变,以期全面了解大鼠内毒素血症不同时期CGRP释放与合成的变化。结果显示：注射内毒素（5mg／kg）后30min时,大鼠血浆CGRP开始增高,而背根神经节CGRPmRNA水平无明显变化;注射内毒素后3h时,血浆CGRP及背根神经节CGRPmRNA均明显增高．分别为142％和32％,8h时则进一步增高,分别为216％和85％。提示内毒素不仅刺激外周组织释放CGRP,而且还能通过某些机制激活背根神经节CGRPmRNA的转录,使CGRP合成增加,以作为CGRP大量释放的重要补充来源。     

亚硝酸盐胁迫对罗氏沼虾血细胞及其抗氧化酶活力的影响

【背景】亚硝酸盐是虾类集约化养殖过程中最常见的毒性污染物之一,研究亚硝酸盐胁迫对罗氏沼虾血细胞的毒性以及抗氧化酶在抗胁迫防御中的作用,能够为罗氏沼虾养殖过程中的亚硝酸盐中毒防治提供理论参考。【方法】以不同浓度(0、1、5和10 mg·L~(-1))的亚硝态氮(NO_2~--N)对罗氏沼虾进行胁迫,于胁迫后的0、6、12、24和48 h取样,应用流式细胞术检测血细胞活性氧(ROS)含量和细胞凋亡率,同时测定血细胞总数(THC)和胞内抗氧化酶活力。【结果】1 mg·L~(-1)NO_2~--N在48 h内对血细胞ROS含量、凋亡率和THC均无显著影响。5 mg·L~(-1)NO_2~--N胁迫24 h,血细胞ROS含量显著上升,THC显著下降,胁迫48 h凋亡率显著提高。10 mg·L~(-1)NO_2~--N胁迫6 h,血细胞ROS含量和凋亡率均显著上升,胁迫12 h THC显著下降。血细胞的超氧化物歧化酶(SOD)、过氧化氢酶(CAT)和谷胱甘肽过氧化物酶(GPx)的活力均不同程度地被NO_2~--N胁迫所诱导,CAT活力主要在胁迫前期提高,而GPx活力在胁迫后期提高。【结论与意义】亚硝酸盐存在浓度和时间毒性效应,一定浓度的亚硝酸盐会诱导虾血细胞产生ROS,这些ROS的过量产生诱导了血细胞发生凋亡,继而导致THC下降,这一氧化胁迫过程可能是亚硝酸盐对罗氏沼虾产生细胞毒性的重要机制之一。抗氧化酶活力的诱导表明抗氧化酶在亚硝酸盐胁迫过程中发挥防御作用。