Identification of NBS-Type Resistance Gene Homologs in Tobacco Genome

Tobacco (Nicotiana tabacum) is an important cash crop and an ideal experimental system for studies on plant–pathogen interaction. The sequenced tobacco genome provides an opportunity for examining resistance gene homologs (RGHs) in the tobacco genome. Thirty nucleotide-binding site-type RGHs were annotated from genomic data, and another 281 putative RGHs were identified via PCR amplification from wild and cultivated tobacco. The newly identified RGHs are similar to other known RGHs, and some were categorized into new groups or branches that are different from known Nicotiana R genes or RGHs. Of the 281RGHs, 146 were identified from a single tobacco genome. We did not find any polymorphism at the RGHs in cultivated accessions, implying that strong domestication selection and/or demographic effects might have caused a sharp reduction in nucleotide diversity. Three positive selection sites were found in several RGH groups, while purifying selection is pervasive in the RGH family. Our results provide a primary RGH pool and several positively selected sites for the further functional validation of resistance genes in tobacco.     

Determination of the three-dimensional structure of the Mrf2-DNA complex using paramagnetic spin labeling

Understanding the mechanism of protein-DNA interactions at the molecular level is one of the main focuses in structural and molecular biological investigations. At present, NMR spectroscopy is the only approach that can provide atomic details of protein-DNA recognition in solution. However, determining the structures of protein-DNA complexes using NMR spectroscopy has been dependent on the observation of intermolecular nuclear Overhauser effects (NOE) and their assignments, which are difficult to obtain in many cases. In this study, we have shown that intermolecular distance constraints derived from a single spin-label in combination with docking calculations have defined many specific contacts of the complex between the AT-rich interaction domain (ARID) of Mrf2 and its target DNA. Mrf2 contacts DNA mainly using the two flexible loops, L1 and L2. While the L1 loop contacts the phosphate backbone, L2 and several residues in the adjacent helices interact with AT base pairs in the major groove of DNA. Despite the structural diversity in the ARID family of DNA-binding proteins, Mrf2 maintains contacts with DNA similar to those observed in the homologous Dri-DNA complex.     

Directed evolution and structural analysis of N-carbamoyl-D-amino acid amidohydrolase provide insights into recombinant protein solubility in Escherichia coli

One of the greatest bottlenecks in producing recombinant proteins in Escherichia coli is that over-expressed target proteins are mostly present in an insoluble form without any biological activity. DCase (N-carbamoyl-D-amino acid amidohydrolase) is an important enzyme involved in semi-synthesis of beta-lactam antibiotics in industry. In the present study, in order to determine the amino acid sites responsible for solubility of DCase, error-prone PCR and DNA shuffling techniques were applied to randomly mutate its coding sequence, followed by an efficient screening based on structural complementation. Several mutants of DCase with reduced aggregation were isolated. Solubility tests of these and several other mutants generated by site-directed mutagenesis indicated that three amino acid residues of DCase (Ala18, Tyr30 and Lys34) are involved in its protein solubility. In silico structural modelling analyses suggest further that hydrophilicity and/or negative charge at these three residues may be responsible for the increased solubility of DCase proteins in E. coli. Based on this information, multiple engineering designated mutants were constructed by site-directed mutagenesis, among them a triple mutant A18T/Y30N/K34E (named DCase-M3) could be overexpressed in E. coli and up to 80% of it was soluble. DCase-M3 was purified to homogeneity and a comparative analysis with wild-type DCase demonstrated that DCase-M3 enzyme was similar to the native DCase in terms of its kinetic and thermodynamic properties. The present study provides new insights into recombinant protein solubility in E. coli.     

Biochemical analysis of the DNA unwinding and strand annealing activities catalyzed by human RECQ1

RecQ helicases play an important role in preserving genomic integrity, and their cellular roles in DNA repair, recombination, and replication have been of considerable interest. Of the five human RecQ helicases identified, three are associated with genetic disorders characterized by an elevated incidence of cancer or premature aging: Werner syndrome, Bloom syndrome, and Rothmund-Thomson syndrome. Although the biochemical properties and protein interactions of the WRN and BLM helicases defective in Werner syndrome and Bloom syndrome, respectively, have been extensively investigated, less information is available concerning the functions of the other human RecQ helicases. We have focused our attention on human RECQ1, a DNA helicase whose cellular functions remain largely uncharacterized. In this work, we have characterized the DNA substrate specificity and optimal cofactor requirements for efficient RECQ1-catalyzed DNA unwinding and determined that RECQ1 has certain properties that are distinct from those of other RecQ helicases. RECQ1 stably bound to a variety of DNA structures, enabling it to unwind a diverse set of DNA substrates. In addition to its DNA binding and helicase activities, RECQ1 catalyzed efficient strand annealing between complementary single-stranded DNA molecules. The ability of RECQ1 to promote strand annealing was modulated by ATP binding, which induced a conformational change in the protein. The enzymatic properties of the RECQ1 helicase and strand annealing activities are discussed in the context of proposed cellular DNA metabolic pathways that are important in the maintenance of genomic stability.     

云南澜沧景迈古茶园生态系统植物多样性评价

云南澜沧县境内的景迈古茶园是云南省现存面积最大的古茶园.本文应用植物学样地调查和农业生物多样性调查评价(HH-ABA)方法,在景迈古茶园内设置了78个20 m×20 m的样方,对植物多样性进行调查,并就古茶园的管理及资源利用等问题进行了问卷调查和农户访谈.研究结果表明,景迈芒景地区植物地理成分的热带性明显.在景迈古茶园中发现的珍稀濒危保护植物达15种,其中濒危种5个,易危种7个,稀有种3个,含国家三级保护植物11种.从古茶园、天然林、新式茶园3类生态系统的物种多样性分析来看,古茶园与天然林较为接近而比新式茶园高得多,因而在该区生物多样性的维护上起着非常重要的作用.古茶园的物种数按照生活型排序为草本＞乔木＞灌木＞藤本＞附生.与天然林相比,古茶园内乔木和灌木种类的比例减少,草本和附生(寄生)植物的比例大大增加,这与古茶园内乔木郁闭度及茶树的存在密切相关.农业生物多样性分析显示,不同村寨的物种丰富度和物种利用率均存在差异.6个村寨的农业物种丰富度指数的平均值为0.059,高于同纬度地区旱谷地和橡胶林,可见人们在古茶园管理中有意识地保留了可利用的物种.由于不同农户采取的管理措施不同,影响了古茶园内的植物多样性和古茶树的更新,因而使各农户的茶叶经济效益存在差别.古茶园生态系统是自然资源保护与利用相结合的典型例子,建议应当传承并发展当地人民对古茶园的管理经验,由政府、科研机构和农户共同参与,通过示范和培训加强学习指导,对古茶园进行保护和合理的开发利用.     

A Na+/H+ antiporter gene of the moderately halophilic bacterium Halobacillus dabanensis D-8T: cloning and molecular characterization

A gene encoding a Na(+)/H(+) antiporter was cloned from a chromosomal DNA of Halobacillus dabanensis strain D-8(T) by functional complementation. Its presence enabled the antiporter-deficient Escherichia coli strain KNabc to survive in the presence of 0.2 M NaCl or 5 mM LiCl. The gene was sequenced and designated as nhaH. The deduced amino-acid sequence of NhaH consists of 403 residues with a calculated molecular mass of 43,481 Da, which was 54% identical and 76% similar to the NhaG Na(+)/H(+) antiporter of Bacillus subtilis. The hydropathy profile was characteristic of a membrane protein with 12 putative transmembrane domains. Everted membrane vesicles prepared from E. coli cells carrying nhaH exhibited Na(+)/H(+) as well as Li(+)/H(+) antiporter activity, which was pH-dependent with highest activities at pH 8.5-9.0 and at pH 8.5, respectively. Moreover, nhaH confers upon E. coli KNabc cells the ability to grow under alkaline conditions.     

叶色草蛉的生物学研究1:热常数和发育速率(英文)

利用优选法和快速估计法对叶色草岭在７个温度处理下的个体发育的过程进行了测算,确定了它的卵期、幼虫期、蛹期及幼虫期的一龄、二龄和三龄的发育起始温度（Ｔ_０）和有效积温（Ｋ）,前一方法的结果Ｔ_０分别为１４．２０、１１．５５、８．２７、１０．８４、１０．０３和１２．７９℃;Ｋ分别为５３．８２、１５１．５８、２４３．８５、５２．１４、４５．８６和５５．２０日／度。后一方法的结果Ｔ_０分别为１４．３３、１２．１８、８．３８、 １１．６２、１０．６６和１３．２８℃;Ｋ分别为５４．４１、１５７．６２、２４５．２１、５４．６１、４７．５２和５７．０４日／度。同时根据Ｌｏｇｉｓｔｉｃ曲线方程确定了不同温度条件下叶色草蛉的发育速率计算式。     

TFP刺激裂殖酵母细胞钙离子内流的质膜效应

ＴＦＰ（１０－１００μｍｏｌ／Ｌ）可引起裂殖酵母（Ｓｃｈｉｚｏｓａｃｃｈａｒｏｍｙｃｅｓ　ｐｏｍｂｅ）胞外Ｃａ２＋内流,ＴＦＰ浓度不同,促进Ｃａ２＋内流程度也不一样,５０μｍｏｌ／ＬＴＦＰ的促进作用最大。并且ＴＦＰ浓度越大,Ｃａ２＋内流出现峰值也越早,１０、２０、５０、１００μｍｏｌ／ＬＴＦＰ处理后,胞内总钙出现峰值时间分别为４５、４５、３０、１５分钟。胞外Ｈ＋浓度也会对ＴＦＰ引起的Ｃａ２＋内流产生不同影响,缓冲液的ｐＨ值为６．０时最有利于ＴＦＰ引起胞内Ｃａ２＋含量增加,碱性条件下ＴＦＰ的效果最不明显。由ＴＦＰ引起的Ｃａ２＋内流增加要比单一地增加外钙浓度效果好得多,ＴＦＰ在１０μｍｏｌ／Ｌ浓度的外钙条件下引起的胞内钙含量数值比１０００μｍｏｌ／Ｌ的外钙条件而无ＴＦＰＴ所引起的胞内钙含量还要高５３．９％。缓冲液中加入０．８％的钙离子通道阻断剂ＬａＣ１３或溶液中无葡萄糖的存在,ＴＦＰ的促进作用消失,说明ＴＦＰ促进Ｃａ２＋内流是通过钙离子通道来完成的并需要能量参与。     

Neuron Specific Rab4 Effector GRASP-1 Coordinates Membrane Specialization and Maturation of Recycling Endosomes

The endosomal pathway in neuronal dendrites is essential for membrane receptor trafficking and proper synaptic function and plasticity. However, the molecular mechanisms that organize specific endocytic trafficking routes are poorly understood. Here, we identify GRIP-associated protein-1 (GRASP-1) as a neuron-specific effector of Rab4 and key component of the molecular machinery that coordinates recycling endosome maturation in dendrites. We show that GRASP-1 is necessary for AMPA receptor recycling, maintenance of spine morphology, and synaptic plasticity. At the molecular level, GRASP-1 segregates Rab4 from EEA1/Neep21/Rab5-positive early endosomal membranes and coordinates the coupling to Rab11-labelled recycling endosomes by interacting with the endosomal SNARE syntaxin 13. We propose that GRASP-1 connects early and late recycling endosomal compartments by forming a molecular bridge between Rab-specific membrane domains and the endosomal SNARE machinery. The data uncover a new mechanism to achieve specificity and directionality in neuronal membrane receptor trafficking.