A Bromodomain-Containing Host Protein Mediates the Nuclear Importation of a Satellite RNA of Cucumber Mosaic Virus

Replication of the satellite RNA (satRNA) of Cucumber Mosaic Virus is dependent on replicase proteins of helper virus (HV). However, we recently demonstrated that like with Potato spindle tuber viroid (PSTVd), a satRNA associated with Cucumber Mosaic Virus strain Q (Q-satRNA) has the propensity to localize in the nucleus and generate multimers that subsequently serve as templates for HV-dependent replication. But the mechanism regulating the nuclear importation of Q-satRNA is unknown. Here we show that the nuclear importation of Q-satRNA is mediated by a bromodomain-containing host protein (BRP1), which is also apparently involved in the nuclear localization of PSTVd. A comparative analysis of nuclear and cytoplasmic fractions from Nicotiana benthamiana plants coinfected with Q-satRNA and its HV confirmed the association of Q-satRNA but not HV with the nuclear compartment. A combination of the MS2-capsid protein-based RNA tagging assay and confocal microscopy demonstrated that the nuclear localization of Q-satRNA was completely blocked in transgenic lines of Nicotiana benthamiana (ph5.2nb) that are defective in BRP1 expression. This defect, however, was restored when the ph5.2nb lines of N. benthamiana were trans-complemented by ectopically expressed BRP1. The binding specificity of BRP1 with Q-satRNA was confirmed in vivo and in vitro by coimmunoprecipitation and electrophoretic mobility shift assays, respectively. Finally, infectivity assays involving coexpression of Q-satRNA and its HV in wild-type and ph5.2nb lines of N. benthamiana accentuated a biological role for BRP1 in the Q-satRNA infection cycle. The significance of these results in relation to a possible evolutionary relationship to viroids is discussed.     

A Novel Satellite RNA of Cucumber Mosaic Virus Induces Unique Line-pattern Mosaic Symptoms in Tobacco

The CMV(YW) isolate of cucumber mosaic virus (CMV) induced unique line‐pattern mosaic symptoms in systemically infected leaves of tobacco (Nicotiana tabacum cv. Ky57). By northern hybridization analysis using cDNA to CMV(Y) satellite RNA as a probe, it was confirmed that CMV(YW) contained a satellite RNA. which was designated sat‐YW RNA; this was 388 nucleotides in length and did not have either a conserved domain that induces necrosis in tomato or chlorosis in tobacco. CMV(YW) free of sat‐YW RNA. which was isolated by the single lesion isolation method using Chenopodium amaranticolor, did not induce the unique line‐pattern mosaic symptom. Furthermore, the sat‐YW RNA‐mediated line‐pattern mosaic symptom was also induced by in vitro transcribed infectious sat‐YW RNA in tobaccos infected with either CMV(YW) or CMV(Y) genomic RNA. These results clearly demonstrated that sat‐YW RNA induces the unique line‐pattern mosaic symptom on CMV‐infected tobaccos.     

系统侵染寄主中黄瓜花叶病毒及其卫星RNA的动态变化

以³²P标记的黄瓜花叶病毒（CMV）RNA3 cDNA片段和卫星RNA全长cDNA作为探针,定量测定CMV基因组RNA和卫星RNA的含量变化,结果显示：二者均具有明显的寄主效应和时间效应.在16～20℃条件下,接种不携带卫星RNA的分离物CMV-R3,15天、30天和75天时,CMV基因组RNA负荷量呈显著下降的趋势.在第15天,RNA3的负荷量以烟草>心叶烟>克里夫兰烟>番茄的顺序表现为不同寄主的显著性差异.相同条件下接种携带高拷贝卫星RNA的分离物CMV-RS,在5天和15天之间基因组RNA和卫星RNA负荷量均呈现上升的趋势,同时测得其基因组RNA和卫星的负荷量具有相似的寄主效应和时间效应,但程度不同.第15天时,二者负荷量以烟草＞心叶烟＞番茄的顺序表现寄主效应的显著性差异.在18～21℃条件下,接种携带坏死卫星RNA的CMV强毒株HC4,第5天、第10天和第15天时,基因组RNA和卫星RNA的负荷量均以番茄＞心叶烟＞烟草的顺序表现出显著性差异,并表现出明显的时间效应.不同来源CMV分离物还存在寄主选择性差异.     

Dynamics of Small RNA Profiles of Virus and Host Origin in Wheat Cultivars Synergistically Infected by Wheat Streak Mosaic Virus and Triticum Mosaic Virus: Virus Infection Caused a Drastic Shift in the Endogenous Small RNA Profile

Co-infection of wheat (Triticum aestivum L.) by Wheat streak mosaic virus (WSMV, a Tritimovirus) and Triticum mosaic virus (TriMV, a Poacevirus) of the family Potyviridae causes synergistic interaction. In this study, the effects of the synergistic interaction between WSMV and TriMV on endogenous and virus-derived small interfering RNAs (vsiRNAs) were examined in susceptible (‘Arapahoe’) and temperature-sensitive resistant (‘Mace’) wheat cultivars at 18°C and 27°C. Single and double infections in wheat caused a shift in the profile of endogenous small RNAs from 24 nt being the most predominant in healthy plants to 21 nt in infected wheat. Massive amounts of 21 and 22 nt vsiRNAs accumulated in singly and doubly infected Arapahoe at both temperatures and in Mace at 27°C but not 18°C. The plus- and minus-sense vsiRNAs were distributed throughout the genomic RNAs in Arapahoe at both temperature regimens and in Mace at 27°C, although some regions served as hot-spots, spawning an excessive number of vsiRNAs. The vsiRNA peaks were conserved among cultivars, suggesting that the Dicer-like enzymes in susceptible and resistant cultivars similarly accessed the genomic RNAs of WSMV or TriMV. Accumulation of large amounts of vsiRNAs in doubly infected plants suggests that the silencing suppressor proteins encoded by TriMV and WSMV do not prevent the formation of vsiRNAs; thus, the synergistic effect observed is independent from RNA-silencing mediated vsiRNA biogenesis. The high-resolution map of endogenous and vsiRNAs from WSMV- and/or TriMV-infected wheat cultivars may form a foundation for understanding the virus-host interactions, the effect of synergistic interactions on host defense, and virus resistance mechanisms in wheat.     

黄瓜花叶病毒卫星RNA与马铃薯纺锤形块茎类病毒间序列同源性与碱基配对

黄瓜花叶病毒卫星ＲＮＡ与马铃薯纺锤形块茎类病毒间序列同源性与碱基配对田波（中国科学院微生物研究所,北京１０００８０）Ｇ．ＳｔｅｇｅｒＤ．Ｒｉｅｓｎｅｒ（ＩｎｓｔｉｔｕｔｆｕｒＰｈｙｓｉｋａｌｉｓｃｈｅＢｉｏｌｏｇｉｅ,ＵｎｉｖｒｓｉｔａｔＤｕｓｓｅｌ...     

不同CMV分离物侵染寄主的超微结构变化

应用电镜观察了黄瓜花叶病毒ＣＭＶ不同分离物侵染寄主的细胞超微结构变化。来自一患红（Ｓａｌｖｉａｓｐｌｅｎｄｅｎｓ）的不含卫星ＲＮＡ分离物Ｍ－２２侵染心叶烟,病毒粒子散布于细胞质,在液泡中形成大片病毒粒子结果,液泡膜边缘产生小泡结构,完整的病毒粒子穿过胞间连丝在细胞间运转,胞间连丝中央部分有扩张现象。     

不同CMV分离物侵染寄主的超微结构变化

应用电镜观察了黄瓜花叶病毒CMV不同分离物侵染寄主的细胞 超微结构变化。来自一串红(Salvia splendens)的不含卫星RNA分离物M-22侵染心叶烟,病毒粒子散布于细胞质,在液泡中形成大片病毒粒子结晶,液泡膜边缘产生小泡结构,完整的病毒粒子穿过胞间连丝在细胞间运转,胞间连丝中央部分有扩张现象。自然感染三生烟的含坏死卫星RNA分离物8-S1侵染普通烟,病毒粒子分散于细胞质,在液泡中未观察到结晶体,叶绿体产生囊泡结构,部分病毒粒子处在叶绿体空泡中。田间寄主上受8-S1侵染的三生烟细胞质中分布着大量球形病毒粒子,叶绿体也产生含有病毒粒子的囊泡结构。表明含有卫星RNA和不含卫星RNA的CMV分离物引起的细胞病变特征存在差别,可能是CMV卫星RNA参与病理变化的依据之一。     

Template-Independent Repair of the 3′ End of Cucumber Mosaic Virus Satellite RNA Controlled by RNAs 1 and 2 of Helper Virus

RNA viruses which do not have a poly(A) tail or a tRNA-like structure for the protection of their vulnerable 3′ termini may have developed a different strategy to maintain their genome integrity. We provide evidence that deletions of up to 7 nucleotides from the 3′ terminus of cucumber mosaic cucumovirus (CMV) satellite RNA (satRNA) were repaired in planta in the presence of the helper virus (HV) CMV. Sequence comparison of 3′-end-repaired satRNA progenies, and of satRNA and HV RNA, suggested that the repair was not dependent on a viral template. The 3′ end of CMV satRNA lacking the last three cytosines was not repaired in planta in the presence of tomato aspermy cucumovirus (TAV), although TAV is an efficient helper for the replication of CMV satRNA. With use of pseudorecombinants constructed by the interchange of RNAs 1 and 2 of TAV and CMV, evidence was provided that the 3′-end repair was controlled by RNAs 1 and 2 of CMV, which encode subunits of the viral RNA replicase. These results, and the observation of short repeated sequences close to the 3′ terminus of repaired molecules, suggest that the HV replicase maintains the integrity of the satRNA genome, playing a role analogous to that of cellular telomerases.     

Effects of Light Quality on the Interaction between Cucumber Mosaic Virus and Nicotiana tabacum

Light is an important environment factor controlling plant growth, development, and nutritional quality and is also one of the most important factors inducing plant defence. In this study, we assayed the potential effects of light quality on the interaction between Nicotiana tabacum and cucumber mosaic virus (CMV). Our results indicated that white light‐treated N. tabacum plants displayed obvious symptoms at early stage postinoculation, while the symptoms were significantly inhibited under red light and blue light. Western blotting and quantitative real‐time PCR (qRT‐PCR) analyses showed that blue light and red light can effectively delay the replication of CMV compared with white light. The activities of various reactive oxygen species (ROS)‐scavenging enzymes and reducing substances [reduced glutathione (GSH) and ascorbic acid (ASA)] were increased under blue light and red light. In addition, hormone measurements and qRT‐PCR analyses revealed that salicylic acid (SA)‐mediated signalling pathway plays positive role in the related regulation, and cytokinin (CTK) may also participate in them. Furthermore, we found that the formation of dark green islands (DGIs) was significantly suppressed in plants under red light and blue light at 30 days postinoculation (Dpi). However, the accumulation of virus in plants under different light conditions had no notable differences at later stage of postinoculation. Taken together, these results indicated that red light and blue light could effectively delay symptom expression and replication of CMV on N. tabacum at the relatively earlier stage postinoculation.     

竹花叶病毒卫星RNA及其编码卫星蛋白的结构与功能

竹花叶病毒(Bamboo mosaic virus,BaMV)是目前为止被发现感染竹类惟一的病毒,除了巴西、夏威夷及琉球有过零星报道外,台湾对此病毒有较深入的研究[1~13]。BaMV在台湾地区的竹类栽培区普遍发生,可危害4个属、14个种、3个变种和3个栽培种[14,15],其中麻竹(Dendrocalamuslatifloru     

竹花叶病毒卫星RNA及其编码卫星蛋白的结构与功能

竹花叶病毒(Bamboo mosaic virus,BaMV)是目前为止被发现感染竹类惟一的病毒,除了巴西、夏威夷及琉球有过零星报道外,台湾对此病毒有较深入的研究[1～13].BaMV在台湾地区的竹类栽培区普遍发生,可危害4个属、14个种、3个变种和3个栽培种[14,15],其中麻竹(Dendrocalamus latiflorus Munro)和绿竹(Bambusa oldhamii Munro)遭受危害最为严重,主要竹产地染病率可高达90%以上,给台湾的竹产业造成了严重危害[16].     

Plasmodium knowlesi Genome Sequences from Clinical Isolates Reveal Extensive Genomic Dimorphism

Plasmodium knowlesi is a newly described zoonosis that causes malaria in the human population that can be severe and fatal. The study of P. knowlesi parasites from human clinical isolates is relatively new and, in order to obtain maximum information from patient sample collections, we explored the possibility of generating P. knowlesi genome sequences from archived clinical isolates. Our patient sample collection consisted of frozen whole blood samples that contained excessive human DNA contamination and, in that form, were not suitable for parasite genome sequencing. We developed a method to reduce the amount of human DNA in the thawed blood samples in preparation for high throughput parasite genome sequencing using Illumina HiSeq and MiSeq sequencing platforms. Seven of fifteen samples processed had sufficiently pure P. knowlesi DNA for whole genome sequencing. The reads were mapped to the P. knowlesi H strain reference genome and an average mapping of 90% was obtained. Genes with low coverage were removed leaving 4623 genes for subsequent analyses. Previously we identified a DNA sequence dimorphism on a small fragment of the P. knowlesi normocyte binding protein xa gene on chromosome 14. We used the genome data to assemble full-length Pknbpxa sequences and discovered that the dimorphism extended along the gene. An in-house algorithm was developed to detect SNP sites co-associating with the dimorphism. More than half of the P. knowlesi genome was dimorphic, involving genes on all chromosomes and suggesting that two distinct types of P. knowlesi infect the human population in Sarawak, Malaysian Borneo. We use P. knowlesi clinical samples to demonstrate that Plasmodium DNA from archived patient samples can produce high quality genome data. We show that analyses, of even small numbers of difficult clinical malaria isolates, can generate comprehensive genomic information that will improve our understanding of malaria parasite diversity and pathobiology.     

小RNA深度测序技术分析西瓜花叶病毒蜀葵分离物

蜀葵病毒病害的发生对其生长造成严重影响,明确蜀葵病毒病害的种类及变异进化对蜀葵病毒病害的防治具有重要意义。利用小RNA深度测序技术对具有明显脉明、花叶症状的蜀葵叶片进行鉴定。结果发现,感病蜀葵被西瓜花叶病毒(Watermelon mosaic virus, WMV)、锦葵脉明病毒(Mala vein cleaning virus, MVCV)和一种新的RNA病毒[暂命名为蜀葵病毒1号(Althaea rosea virus1, ArV1)]所侵染。为进一步明确WMV蜀葵分离物(WMV-Tg)的进化关系,对病毒WMV-Tg全基因组进行扩增,获得全长为10 046个核苷酸序列(nt)。序列分析结果显示,WMV-Tg与已报道的WMV分离物基因组核苷酸序列的同源性为83.3%～90.2%。系统进化关系表明,WMV-Tg与WMV-Pg聚为一簇,亲缘关系最近。对蜀葵WMV-Tg来源的小RNA(WMV-derived small interfering RNAs, WMV-vsiRNAs)的长度分布、5′碱基偏好性、极性分布以及热点区分布的分析,有助于加深对WMV-vsiRNAs的了解,并为进一步研究病毒来源的小RNA(virus-derived small interfering RNAs, vsiRNAs)在抗病毒防御中的功能,以及为蜀葵病毒病的防治奠定理论基础。     

Detection of the 3a Protein of Cucumber Mosaic Virus in a Cell Wall Fraction from Infected Nicotiana clevelandii Plants

The 3a protein of cucumber mosaic virus was expressed in Escherichia coli and, after purification, used to produce an antiserum. The 3a protein was detected in a cell wall fraction obtained from infected Nicotiana clevelandii leaf tissue by immunoblotting using the 3a antiserum. The 3a protein reached a maximum level 4 days after inoculation and remained at this level for a further 8 days before slowly declining. In contrast, the virus capsid protein, detected in an 80 000 g pellet by immunoblotting using a virus particle antiserum, reached a maximum 5 days after inoculation and remained at this level for at least a further 16 days.     

Detection of the 3a Protein of Cucumber Mosaic Virus in a Cell Wall Fraction from Infected Nicotiana clevelandii Plants

The 3a protein of cucumber mosaic virus was expressed in Escherichia coli and, after purification, used to produce an antiserum. The 3a protein was detected in a cell wall fraction obtained from infected Nicotiana clevelandii leaf tissue by immunoblotting using the 3a antiserum. The 3a protein reached a maximum level 4 days after inoculation and remained at this level for a further 8 days before slowly declining. In contrast, the virus capsid protein, detected in an 80 000 g pellet byimmunoblotting using a virus particle antiserum, reached a maximum 5 days after inoculation and remained at this level for at least a further 16 days.     

卫星RNA对黄瓜花叶病毒基因组RNA体外合成的影响

卫星ＲＮＡ对黄瓜花叶病毒基因组ＲＮＡ体外合成的影响杨海花,康良仪,赵大健,田波（中国科学院微生物研究所,北京１０００８０）关键词卫星ＲＮＡ,黄瓜花叶病毒,依赖ＲＮＡ的ＲＮＡ聚合酶,体外合成利用卫星ＲＮＡ生防制剂控制田间的番茄、青椒、烟草等由黄瓜花叶病...     

Expression and Processing of a Small Nucleolar RNA from the Epstein-Barr Virus Genome

Small nucleolar RNAs (snoRNAs) are localized within the nucleolus, a sub-nuclear compartment, in which they guide ribosomal or spliceosomal RNA modifications, respectively. Up until now, snoRNAs have only been identified in eukaryal and archaeal genomes, but are notably absent in bacteria. By screening B lymphocytes for expression of non-coding RNAs (ncRNAs) induced by the Epstein-Barr virus (EBV), we here report, for the first time, the identification of a snoRNA gene within a viral genome, designated as v-snoRNA1. This genetic element displays all hallmark sequence motifs of a canonical C/D box snoRNA, namely C/C′- as well as D/D′-boxes. The nucleolar localization of v-snoRNA1 was verified by in situ hybridisation of EBV-infected cells. We also confirmed binding of the three canonical snoRNA proteins, fibrillarin, Nop56 and Nop58, to v-snoRNA1. The C-box motif of v-snoRNA1 was shown to be crucial for the stability of the viral snoRNA; its selective deletion in the viral genome led to a complete down-regulation of v-snoRNA1 expression levels within EBV-infected B cells. We further provide evidence that v-snoRNA1 might serve as a miRNA-like precursor, which is processed into 24 nt sized RNA species, designated as v-snoRNA1^24pp. A potential target site of v-snoRNA1^24pp was identified within the 3′-UTR of BALF5 mRNA which encodes the viral DNA polymerase. V-snoRNA1 was found to be expressed in all investigated EBV-positive cell lines, including lymphoblastoid cell lines (LCL). Interestingly, induction of the lytic cycle markedly up-regulated expression levels of v-snoRNA1 up to 30-fold. By a computational approach, we identified a v-snoRNA1 homolog in the rhesus lymphocryptovirus genome. This evolutionary conservation suggests an important role of v-snoRNA1 during γ-herpesvirus infection.     

Polyacrylamide Gel Separation and Molecular Weight Determination of the Components of Cucumber Mosaic Virus RNA

The six principal components of cucumber mosaic virus RNA were eluted from polyacrylamide gels. After reaction with formaldehyde, their molecular weights were determined by means of sedimentation velocity ultracentrifugation. The molecular weights found were 0.91 million Daltons (mixture of components C₂ and C₁); 0.68 million Daltons (component B); 0.33 million Daltons (component A); 0.11 million Daltons (component 0); and 0.01 million Daltons (component 00). Individual molecular weights of components C₂ and C₁ (determined by polyacrylamide electrophoresis) were 1.01 million and 0.89 million Daltons respectively.