烟草花叶病毒装配起始位点反义RNA表达型中间载体的构建

利用基因工程方法培育抗病毒植物新品种的途径之一,是在植株中建立一个产生病毒基因组功能片段的反义RNA的系统。本工作设计并合成了一段烟草花叶病毒(TMV)装配起始位点反义RNA的基因,再以pBR 325为基本质粒,构建了包含带有花椰菜花叶病毒(CaMV)35S启动子和PolyA信号的反义RNA表达单元,以及为筛选转基因植株所必须的NPT-Ⅱ表达单元的中间载体,为以后经土壤农杆菌而获得转基因烟草植株打下了基础。     

States of aggregation of the dahlemense strain of tobacco mosaic virus protein and their relation to crystal formation.

The aggregation of the protein of the dahlemense strain of tobacco mosaic virus has been studied by electron microscopy and ultracentrifugation. The aggregates formed are similar to those formed by the vulgare strain, although the particular conditions for their formation are often rather different. Helix formation by dialysis of A protein at pH 8 to acid pH is much more efficient if an intermediate step at pH 7 is introduced. The 20 S particle or two-layer disk is stable over a wide range of pH and ionic strength values. There is no tendency to form short stacks of disks at high ionic strength; instead, 30 S particles are formed that correspond to a pair of interlocked disks giving a “figure-of-eight” appearance in electron micrographs. These particles appear to be the “building blocks” of the protein crystal.     

Quantized incorporation of RNA during assembly of tobacco mosaic virus from protein disks

Reassembly of tobacco mosaic virus from the isolated RNA and protein, supplied as a disk preparation consisting of over 75% as the disk aggregate, has been followed by the protection of the RNA from nuclease digestion. The sizes of the RNA fragments were determined on agarose/acrylamide gels.During the first few minutes the protected RNA is found to be “quantized” into discrete lengths, differing on average by about 50 or 100 nucleotides, corresponding to one or two turns of the virus helix and strongly supporting the hypothesis that elongation in the major direction, towards the 5′-hydroxyl end, is occurring by the direct addition of protein disks. Protected RNA of the full length found in tobacco mosaic virus is visible within six minutes of starting reassembly, and by 30 minutes most of the RNA is fully protected.     

Structure of the RNA in tobacco mosaic virus

A model of the RNA of tobacco mosaic virus has been built using computer model-building techniques. The model has good stereochemistry, and fits the electron density map of the virus obtained by fiber diffraction methods considerably better than did earlier models. The three sugar rings in the asymmetric unit all have the A (3′-endo) conformation, One of the bases is in the syn conformation, a conformation observed only rarely in nucleic acid structures.     

Detection of periodic patterns in RNA sequences: the first encapsidated region of the TMV RNA

A method is developed to study the periodic properties of nucleotide sequences allowing the favoured pattern of the repeating unit, as well as the length and localization of this periodic segment to be determined simultaneously. The degree of periodicity is evaluated calculating the probabilities for random occurrence of the maximal deviations of the nucleotide composition in each phase, making use of the binomial formula.The nucleotide sequence of the tobacco mosaic virus (TMV) RNA responsible for recognition of the homologous protein (“assembly origin”, AO) (Zimmern & Butler, 1977) was investigated in order to find periodic regions of primary structure which might be essential in the recognition process. As a result the most periodic segments of the AO consisting of 31 and 17 nucleotides corresponding to the schemes GAU or GA1 have been found. However, the periodicities in these regions do not exceed that expected for random sequences. It can be considered as an evidence that in addition to peculiarities of primary structure, some other features such as RNA secondary or tertiary structure are essential in this interaction.For comparison the nucleotide sequences of the other fragments of TMV RNA as well as MS2 RNA, TYMV RNA, 16S rRNA and phage fd DNA were investigated by the same method.     

Localization of N6-methyladenosine in the Rous sarcoma virus genome.

The 10,000-nucleotide RNA genome of the Prague strain, subgroup B (PR-B) of Rous sarcoma virus, was found to contain 11.6 ± 0.5 residues of m⁶Ap by quantitative analysis of ³²P-labeled virion RNA after complete RNAase digestion. Approximately ten of the m⁶Ap residues are located, without obvious clustering, in that region of the genome between 500 and 4000 nucleotides from the 3′ poly(A) end. The src gene, which is required for transformation, and part of the env gene, which codes for the major viral envelope glycoprotein, have previously been mapped in this region of the viral genome. A transformation-defective deletion mutant of PR-B Rous sarcoma virus, which lacks the src gene, has 7.0 ± 0.2 m⁶Ap residues per RNA subunit. This supports our mapping of a portion of the m⁶A residues in src and suggests that this methylation is specific to certain regions of the genome. The possible significance of this result for Rous sarcoma virus RNA processing and translation is discussed.     

Determination of the absolute hand of the helix in the nucleocapsid of haemagglutinating virus (Japan)

The basic hand of the helix of the nucleocapsid of haemagglutinating virus (Japan) was determined to be left-handed from observation of serrated-smooth asymmetry in tilted specimens examined in the electron microscope according to Finch's (1972) technique. Absolute determination of the helical hand was made by comparison with a tilted model of the virus nucleocapsid and by comparing this with the helical sense of the tobacco mosaic virus particle determined by the same method.The left-handed sense of the helix in the nucleocapsid was recognized by examination of cases showing opened-out turns of the helices. Under these conditions the far side of the particle was found to be contrasted predominantly. These conditions are discussed.     

Insight into the structural organization of the omega leader of TMV RNA: the role of various regions of the sequence in the formation of a compact structure of the omega RNA

The 5′-untranslated sequence of tobacco mosaic virus RNA – the so called omega leader – is a well-known translational enhancer. The structure of the omega RNA has unusual features. Despite the absence of extensive secondary structure of the Watson–Crick type, the omega RNA possesses a stable compact conformation. The central part of the omega sequence contains many CAA repeats and is flanked by U-rich regions. In this work we synthesized the polyribonucleotides containing modified omega sequences, and studied them using analytical ultracentrifugation and thermal melting techniques. It was demonstrated that changes made in both the central and the 3′-proximal part of the sequence led to a strong destabilization of the omega RNA structure. We conclude that the regular (CAA)_n core region and the 3′-proximal AU-rich region of the omega RNA interact with each other and contribute together to the formation of a stable tertiary structure.     

Alterations of the conformation of the RNAs of alfalfa mosaic virus upon binding of a few coat protein molecules

Structural changes in the single-stranded genome RNAs (RNAs 1, 2 and 3) and the subgenomic coat protein messenger (RNA 4) of alfalfa mosaic virus upon addition of a few coat protein molecules of the virus were investigated by measuring the fluorescent intensity of bound ethidium bromide and by circular dichroism. No effect could be observed in the case of the genome RNAs. However, in RNA 4, which is of much less complexity than the genome RNAs, a reduction of the ethidium bromide binding by 30% was found, whereas the positive molar ellipticity at 265 nm was reduced by 9% upon binding of the coat protein. Both changes point to a reduction of the ordered structure of the RNA. Since the protein is known to bind first at the 3′-terminus of RNA 4 and probably also of the genome RNAs, the conformational changes observed could be those thought to be necessary for replicase recognition in this positive-stranded RNA virus which needs the coat protein for starting an infection cycle.     

SINDBIS病毒基因组的研究

Sindbis病毒经蔗糖密度梯度离心纯化后,用SDS/酚/氯仿/异戊醇处理和乙醇沉淀,制得的基因组RNA具有典型核酸紫外吸收光谱的特征:最大吸收在260nm,最小在235nm。沉降系数为45S。沉降扫描图表明,RNA样品均一,分子完整。 用高渗法在原代鸡胚纤维母细胞测定了基因组RNA的感染性,空斑滴度为5.9×10~4pFU(空斑形成单位)/ml,空斑形态和大小与完整病毒颗粒相同。经核糖核酸酶处理,基因组RNA即丧失感染性,说明了这种生物活性的特异性。     

Preparation of an isomorphous heavy-atom derivative of tobacco mosaic virus by chemical modification with 4-sulpho-phenylisothiocyanate

The reaction of the vulgare and U2 strains of tobacco mosaic virus with 4-sulpho-phenylisothiocyanate has been investigated. The coat protein of the U2 strain has a proline residue at its N-terminus and a lysine residue at position 53. Whereas both residues could be reacted with 4-sulpho-phenylisothiocyanate in the isolated coat protein, only proline-1 was modified during treatment of the intact virus with the same reagent, thereby showing that the loss of reactivity of the ?-amino group of lysine-53 is a consequence of the virus structure. The 4-sulpho-phenylthiocarbamoyl derivative of amino groups shows considerable tautomerism and, as a consequence, it proved possible to prepare a heavy-atom derivative of the intact U2 strain in which methyl mercury nitrate was bound by the modified N-terminal residue of the coat protein.On the other hand, when the intact vulgare strain was treated with 4-sulphophenylisothiocyanate, little or no modification of the ?-amino groups of the two lysine residues (positions 53 and 68) per polypeptide chain was observed. Taking into account previous studies on the reactivity of the amino groups of the coat protein in tobacco mosaic virus vulgare and assuming that all strains and mutants have closely similar three-dimensional structures, these experiments suggest that the N-terminal residue is more exposed (i.e. probably nearer the virus “surface”) than the side-chain of lysine-68, which in turn is more accessible than the side-chain of lysine-53. This interpretation is readily compatible with the results of X-ray diffraction analysis carried out on these chemically modified viruses (Mandelkow &; Holmes, 1974) and lends support to the hope that such methods of preparing heavy-atom derivatives of proteins will be of general use.     

壳寡糖诱导烟草对TMV长距离移动的影响

采用ELISA-DSM法和半叶枯斑法,测定了壳寡糖(50μg/mL)诱导后普通烟(Nicotiana tabacum)植株体内TMV浓度的变化.ELISA-DSM测定显示,在接种后10 d,仅在接种叶的上位叶和新生叶片中检测到病毒,且病毒浓度仅为不诱导对照的52.7%和38.8%,在下位叶中未检测到病毒;同时,接种叶内病毒增殖严重受抑,接种后10 d,病毒浓度仅为不诱导对照的23.52%.半叶枯斑法检测获得了相同结果,以壳寡糖处理植株的不同叶位的叶片为毒源,产生的枯斑数目都大幅度低于不诱导对照.以上结果证明,壳寡糖处理后TMV的上行和下行长距离移动均明显延迟和减少,下行移动受到的影响更大.透射电镜检查发现,处理植株接种叶的下位叶片韧皮部细胞中没有病毒晶体和病毒粒子,在上位叶片筛管伴胞中仅见少量病毒粒子,两者都未发现任何诱导新生物,也未见其他细胞结构变化.结果表明,壳寡糖处理使烟草对TMV病毒侵染产生了诱导抗病性,系统侵染症状明显减弱;壳寡糖处理对病毒长距离移动的不利影响可能是接种叶片病毒增殖减少所造成的.     

Production of a hybrid of Nicotiana repanda willd.× N. tabacum L. by ovule culture

Nicotiana repanda (n = 24) × N. tabacum (n = 24) was obtained by ovule culture following regeneration from the callus. The hybrid showed an aneuploid chromosome number (44) and morphological characteristics intermediate between those of N. repanda and N. tabacum. The resistance of N. repanda to tobacco mosaic virus was incorporated into the hybrid.     

表达黄瓜花叶病毒卫星RNA的转基因烟草耐烟草花叶病毒

表达黄瓜花叶病毒(CMV)的卫星RNA的转基因烟草可以抗CMV的侵染.为了决定这些植物对其它病毒,如烟草花叶病毒(CMV)的安全性,我们对这些植物接种CMV.结果发现 卫星RNA可减弱TMV引起的症状,井降低病情指数,然而却对TMV在植物中的积累没有明显影响.这一发现有助于对卫星RNA抗病机制的理解,有助于含卫星RNA的生防制剂及表达病毒卫星RNA的转基因植物的应用.本文在国际上首次报道卫星RNA可减弱非相关病毒引起的症状.1 材料和方法1.1 病毒及植物烟草花叶病毒(TMV),烟草G140种子及枯班三生烟种子均为中国科学院微生物研究所病毒室保存;含黄瓜花叶病毒卫星RNA-R1基因的烟草G140(烟Sat-G140)为中国科学院微生物研究所病毒室培育,所用材料为第三代种子.     

TMV protein synthesis is not translationally regulated by heat shock

Summary Tobacco mosaic virus (TMV) protein synthesis in tobacco leaf tissue was not translationally regulated under conditions of heat shock as were most of the other proteins that were produced at 25°C. Upon shift from 25°C to 37–40°C, most host protein synthesis was inhibited followed by initiation of synthesis of heat shock proteins. In contrast, TMV protein synthesis continued after the temperature shift. This phenomenon allowed the enhancement of detection of TMV protein synthesis in tobacco leaves. The most prominent proteins labeled were viral when tissue was labeled during the first hr following the shift to 40°C, a period after heat shock repression of host protein synthesis, but before the onset of most heat shock protein synthesis. Another method to predominately label viral proteins was to incubate infected leaves for periods at 35°C which induced repression of preexisting host protein synthesis without inducing synthesis of heat shock proteins.     

The positions of the N-terminus and residue 68 in tobacco mosaic virus

Specific chemical modifications of the tobacco mosaic virus coat protein lead to new heavy-atom derivatives. They can be used for the determination of phases in the isomorphous replacement method, but more important they are necessary as markers if one wants to trace the polypeptide chain through an electron density map of limited resolution (10 Å). In addition to the positions of two residues known from previous work, two more residues out of the 158 have now been located in three dimensions. The N-terminus is at the outside of the particle (r = 88 Å), and Lys-68 lies at a radius of 72 Å.     

Universal and strain specific structure features of segment 8 genomic RNA of influenza A virus—application of 4-thiouridine photocrosslinking

RNA structure in the influenza A virus (IAV) has been the focus of several studies that have shown connections between conserved secondary structure motifs and their biological function in the virus replication cycle. Questions have arisen on how to best recognize and understand the pandemic properties of IAV strains from an RNA perspective, but determination of the RNA secondary structure has been challenging. Herein, we used chemical mapping to determine the secondary structure of segment 8 viral RNA (vRNA) of the pandemic A/California/04/2009 (H1N1) strain of IAV. Additionally, this long, naturally occurring RNA served as a model to evaluate RNA mapping with 4-thiouridine (4sU) crosslinking. We explored 4-thiouridine as a probe of nucleotides in close proximity, through its incorporation into newly transcribed RNA and subsequent photoactivation. RNA secondary structural features both universal to type A strains and unique to the A/California/04/2009 (H1N1) strain were recognized. 4sU mapping confirmed and facilitated RNA structure prediction, according to several rules: 4sU photocross-linking forms efficiently in the double-stranded region of RNA with some flexibility, in the ends of helices, and across bulges and loops when their structural mobility is permitted. This method highlighted three-dimensional properties of segment 8 vRNA secondary structure motifs and allowed to propose several long-range three-dimensional interactions. 4sU mapping combined with chemical mapping and bioinformatic analysis could be used to enhance the RNA structure determination as well as recognition of target regions for antisense strategies or viral RNA detection.