Molecular characterization of the Cassava brown streak virus coat protein

A partial sequence of 1114 nucleotides of a virus from cassava brown streak diseased (CBSD) material was obtained. Alignment of the predicted amino acid sequence with those of other members of the Potyviridae showed closest identity with the coat protein of Sweet potato mild mottle virus (genus Ipomovirus ). The predicted amino acid sequence has one open reading frame with a 3' untranslated region of 144 nucleotides and a poly(A) tail. The expressed protein was shown to cross-react with an antiserum raised previously to a virus isolated from CBSD material. Evidence presented suggests that CBSD is caused by Cassava brown streak virus , a tentative member of the genus Ipomovirus , as this virus is consistently found associated with CBSD.     

马铃薯Y病毒科分子进化研究进展

马铃薯Y病毒科Potyviridae包括许多重要的植物病毒。本文综述了近年来该科马铃薯Y病毒属Potyvirus、甘薯病毒属Ipomovirus和禾草病毒属Poacevirus内20余种病毒的分子进化研究现状,从突变、重组、漂移、选择和迁移5个方面探讨了影响该科一些病毒分子进化的因素,并展望了未来的研究方向,以期为该科病毒的有效防控提供理论依据。     

Virus impact at the interface of an ancient ecosystem and a recent agroecosystem: studies on three legume-infecting potyviruses in the southwest Australian floristic region

The southwest Australian floristic region (SWAFR) is an internationally recognized 'hot spot' of global biodiversity and has an endangered flora. It represents a unique interface between an ancient ecosystem and a recent agroecosystem, providing the opportunity to investigate encounters where the recipient of the virus is an introduced crop and the donor a native plant and vice versa. Phylogenetic analysis of the virus coat-protein genes was used to study isolates of three potyviruses representing different 'new encounter' scenarios at this interface. The incidence, symptomatology, host range, non-persistent aphid transmission and considerable genetic diversity of the first indigenous virus described from the SWAFR, where it infects the native legume Hardenbergia comptoniana , and its potential to damage lupin, a locally important, newly introduced cultivated grain legume, was studied. The name Hardenbergia mosaic virus is proposed for this virus. Two other examples of 'new encounter' scenarios involving other legume-infecting potyviruses studied were: Passion fruit woodiness virus , which has been found only in Australasia, where it damages recently introduced species of Passiflora and legumes; and Bean yellow mosaic virus, which is not indigenous to Australia and was introduced recently to the SWAFR, where it infects a number of introduced legumes, but also damages the local native legume Kennedia prostrata . Isolates of the former had considerable genetic diversity consistent with the virus being indigenous, while isolates of the latter virus from K. prostrata had a low genetic diversity consistent with recent arrival. This research illustrates how introduced viruses can damage indigenous plants and indigenous viruses can damage introduced cultivated plants within this unique ecosystem, and how human activities can facilitate damaging 'new encounters' between plants and viruses.     

Identification of different isolates of Cassava brown streak virus and development of a diagnostic test

An RT-PCR based detection method for Cassava brown streak virus (CBSV)-infected cassava has been developed. The RT-PCR detection method described includes RNA extraction methods for cassava leaves, a distinct primer set for the virus and RT-PCR conditions. The primers were designed to the virus coat protein gene and generate a virus-specific product of 231 bp from infected cassava. The test can detect the virus in the new growth of cassava sticks before any disease symptoms are visible. This test was used successfully with infected cassava from both Tanzania and Mozambique. Three isolates from Tanzania were found to exhibit different symptoms on the secondary host plants Nicotiana benthamiana and N. tabacum SR1. They have nucleotide sequence variation within the coat protein region of up to 8% and amino acid differences of up to 6%.     

Complete genome sequences and properties of Spartina mottle virus isolates from hybrid Bermuda grass (Cynodon dactylon × Cynodon transvaalensis)

Full genome sequences are presented for two isolates of Spartina mottle virus (SpMoV) from two accessions of the hybrid turf grass Cynodon dactylon × C. transvaalensis (Bermuda grass, green couch), originally from the USA but detected during post-entry quarantine in Australia. Both isolates had a genome of 9,346 nucleotides, encoding a single polyprotein of 3,029 amino acids and predicted to be cleaved into 10 mature proteins. Phylogenetic analysis strongly supported placement in a new genus within the family Potyviridae. The isolates possess 715–780 × 11–12 nm flexuous virions and produce cylindrical (pinwheel) inclusions in infected cells. They were mechanically transmitted to several species in the Poaceae including Zea mays (maize, sweet corn), Chloris gayana (Rhodes grass), and Echinochloa colona (awnless barnyard grass).     

Taxonomy of Wisteria vein mosaic virus and extensions to its host range and geographical distribution

Wisteria mosaic, a serious disease of Wisteria spp. in horticultural production in many parts of the world, is caused by a virus, Wisteria vein mosaic virus (WVMV). This paper reports the presence of the virus in a new host, Wisteria venusta , and a new geographical distribution, New South Wales, Australia. A partial sequence (1329 nucleotides) of this isolate of WVMV was obtained, which represents the first available sequence data for the virus. Alignment of the nucleotide and predicted amino acid sequences with those of members of the Potyviridae showed closest identity with viruses of the Potyvirus genus. The predicted amino acid sequence has one open reading frame, open at the 5' end, corresponding to part of the nuclear inclusion b protein and the capsid protein, followed by a 251-nucleotide untranslated region and a polyadenylated tail at the 3' end.     

槟榔坏死环斑病毒轻症型分离物(ANRSV-DAT)的基因组序列克隆及分析

 槟榔坏死环斑病(ANRSD)是近年来海南槟榔主产区发生广泛、危害严重的病毒病害,发病植株叶片表现严重坏死环斑、树势衰退,疑似与马铃薯Y病毒科(Potyviridae)槟榔坏死环斑病毒(areca palm necrotic ringspot virus, ANRSV)相关。本研究从海南定安槟榔种植区发现感病植株叶部表现轻微稀疏褪绿斑的病毒分离物(ANRSV-DAT),对其基因组序列全长克隆和分析。ANRSV-DAT与先前报道的强毒分离物ANRSV-XC1基因组核苷酸(nt)序列及其编码融合蛋白氨基酸(aa)序列的同源性分别为90.68%和97.91%;两者的融合蛋白之间存在63个aa变异,不同程度地分布在10个顺反子中(HCPro1、HCPro2、P3、7K、CI、9K、NIa-VPg、NIa-Pro、NIb和CP)。与ANRSV-XC1显著不同的是,ANRSV-DAT的5'非翻译区的5'末端缺失95-nt序列。该缺失序列是否导致ANRSV-DAT毒性弱化有待进一步研究。本研究报道的ANRSV轻症型分离株,以期为筛选弱毒株及后续交叉保护防治ANRSV提供重要宝贵材料。     

Host‐range studies,genetic diversity and evolutionary relationships of ACLSV isolates from ornamental,wild and cultivated Rosaceous species

A large‐scale survey was carried out to study the host range and genetic diversity of Apple chlorotic leaf spot virus (ACLSV) in various Rosaceae species, with a special emphasis on ornamentals and wild shrubs. Samples were tested by DAS‐ELISA using two different antisera, and RT‐PCR amplification of part of the CP gene. There was generally a poor correlation between the results obtained with the two sets of serological reagents and between serological and molecular detection assays. Using a nested RT‐PCR assay developed here, ACLSV was found to be widespread among cultivated, ornamental and wild species of the Rosaceae. The virus was detected for the first time in plum, wild cherry, Crataegus monogyna, Prunus spinosa and Prunus cerasifera in Greece. Sequences of a part of the CP encoding gene and the 3′ untranslated region from ACLSV isolates originating from various wild species and ornamentals were compared to those of isolates from cultivated hosts, showing similar divergence levels. Further phylogenetic analysis using the sequenced region indicated that the isolates from wild or ornamental hosts were not more closely related to each other than to isolates from cultivated hosts. The possible role of different factors in the spread of ACLSV on cultivated, ornamental and wild species is discussed.     

Long‐distance dispersal and its influence on adaptation to host resistance in a heterogeneous landscape

Small propagules like pollen or fungal spores may be dispersed by the wind over distances of hundreds or thousands of kilometres, even though the median dispersal may be only a few metres. Such long‐distance dispersal is a stochastic event which may be exceptionally important in shaping a population. It has been found repeatedly in field studies that subpopulations of wind‐dispersed fungal pathogens virulent on cultivars with newly introduced, effective resistance genes are dominated by one or very few genotypes. The role of propagule dispersal distributions with distinct behaviour at long distances in generating this characteristic population structure was studied by computer simulation of dispersal of clonal organisms in a heterogeneous environment with fields of unselective and selective hosts. Power‐law distributions generated founder events in which new, virulent genotypes rapidly colonized fields of resistant crop varieties and subsequently dominated the pathogen population on both selective and unselective varieties, in agreement with data on rust and powdery mildew fungi. An exponential dispersal function, with extremely rare dispersal over long distances, resulted in slower colonization of resistant varieties by virulent pathogens or even no colonization if the distance between susceptible source and resistant target fields was sufficiently large. The founder events resulting from long‐distance dispersal were highly stochastic and exact quantitative prediction of genotype frequencies will therefore always be difficult.     

基于外壳蛋白基因的湖南烟草黄瓜花叶病毒遗传多样性分析

为探明湖南烟草上发生的黄瓜花叶病毒Cucumber mosaic virus(CMV)的遗传多样性及分子进化特征,对来自湖南烟区的303份疑似感染病毒的烟草样品进行检测,分析CMV系统发育、遗传变异和群体结构等特征。结果表明：部分分离物的外壳蛋白(coat protein, CP)基因与NCBI上登录的CMV分离物的一致性为86.34%～98.42%;系统发育分析发现湖南烟草CMV分离物属ⅠB组,不同组间的分离物地理特征不明显,无重组现象,进化的主要驱动力是负选择;组间遗传变异比较明显,基因交流频率较低,受到遗传漂变影响,遗传多样性高,群体趋于扩张。研究结果为烟草抗CMV育种提供了理论依据,对病害防治具有重要意义。     

我国部分地区常见农作物上黄瓜花叶病毒分离物核酸多样性分析

为明确我国黄瓜花叶病毒株系分化及系统进化基本情况,从湖南、新疆、青海和海南4省区采集1 367个样品对其进行酶联免疫和RT-PCR检测,并对分离获得的15个黄瓜花叶病毒(Cucumber mosaic virus,CMV)纯化分离物CP、MP、2b核苷酸序列进行相似性和进化树分析及生物学性状比较。结果表明,辣椒、龙葵和黄瓜的CMV阳性检出率较高,分别为54.13%、29.19%和18.46%。进化树分析显示CMV-Q5与CMV亚组II的亲缘性较高;CMV-N7为新发现的重组株系,其CP、2b基因属于CMV亚组IB,MP基因却属于CMV亚组II;其余13个分离物均属于CMV亚组IB。CMV-N7和CMV-Q5在系统寄主心叶烟和枯斑寄主苋色藜上引发的症状相似,但比对照株系CMV-P3613(IB)的发病时间要晚1~2 d,系统花叶较温和,枯斑较小。表明在以上4省区常见农作物上广泛流行的CMV存在分子变异。     

中国及欧洲各国的苹果蠹蛾种群遗传多样性分析

为研究不同国家和地区苹果蠹蛾Cydia pomonella种群的遗传多样性,对采自我国新疆维吾尔自治区和黑龙江省,以及德国、法国和西班牙等欧洲国家的11个种群共60个苹果蠹蛾个体进行基因组重测序,有效测序样本数为56个,共获得8 455 843个群体单碱基突变（single nucleotide polymorphism,SNP）位点。利用SNP数据进行了苹果蠹蛾群体遗传进化树的构建、主成分分析以及遗传结构分析。结果显示,入侵我国黑龙江省的苹果蠹蛾与德国BD种群更为接近,我国新疆维吾尔自治区与黑龙江省苹果蠹蛾种群有一定的分化,前者种群遗传多样性更低。表明我国东北地区和西北地区的苹果蠹蛾种群具有不同的遗传多样性特征,入侵我国的苹果蠹蛾种群可能来源于欧洲。     

Clonality and long-distance migration of Puccinia striiformis f.sp. tritici in north-west Europe

The biotrophic fungus Puccinia striiformis f.sp. tritici , a basidiomycete that causes yellow rust on wheat, is spread by wind-dispersed spores. Analysis of amplified fragment length polymorphism (AFLP) variation showed that the fungus frequently migrates between the UK, Germany, France and Denmark. There is no biological evidence for sexual or parasexual reproduction under natural conditions, and this was supported by the lack of recombination, as revealed by AFLP, over the time and area represented by the samples in this study. A phylogeographic analysis revealed that there was effectively a single, clonal population in the four countries, up to 1700 km apart, consistent with a 'continent-island' model in which Denmark is the recipient of migrants from other countries. In five cases, specific pathogen clones were dispersed between the UK and Denmark, and on at least two recent occasions clones were also spread from the UK to Germany and France, causing outbreaks of yellow rust on wheat cultivars that were previously resistant to the disease in these countries. The agronomic consequences of migration were enhanced because of the limited genetic diversity for yellow rust resistance in wheat cultivars in the area. These results demonstrate that long-distance migration of pathogen clones, coupled with low diversity in the host species, may cause previously useful resistance genes to become ineffective for disease control on a continental scale.     

北京市湿地入侵植物群落与本地植物群落的生物多样性比较

为明确外来入侵植物对本地湿地植物多样性的影响,在北京市湿地选择23个样地共245个样方进行物种多样性调查,并从不同植物性状数据库获取样方中所有植物的株高、叶长、叶宽、叶面积和比叶面积等10个功能性状数据,对比分析入侵群落与本地群落的物种多样性、系统发育多样性和功能多样性特征。结果显示,在北京市湿地共记录到26种外来入侵草本植物,隶属10科19属,其中,菊科外来入侵植物种类最多,有10种。除比叶面积、叶片碳含量和株高的系统发育信号显著外,其余7种植物功能性状的系统发育信号均不显著,表明大多数功能性状未表现出系统发育保守性。入侵群落所有物种的物种多样性指标Shannon-Wiener多样性指数、物种丰富度指数和Simpson优势度指数以及系统发育多样性指标谱系多样性和平均最近谱系发育距离均显著高于本地群落和入侵群落本地物种,而入侵群落本地物种的功能分散指数和Rao''Q二次熵指数均显著高于本地群落,表明外来物种入侵改变了湿地植物的生物多样性,且外来物种入侵后群落谱系多样性趋于发散,说明与本地植物亲缘关系越远的入侵物种越容易在湿地群落中建立种群,符合达尔文归化假说。     

乌兰布和沙漠东北部几种白刺群落植物多样性研究

根据对乌兰布和沙漠东北部4种白刺植物群落的样地调查数据,采用物种丰富度指数S、Shannon-Wiener指数H'、Simpson指数D、Pielou均匀度指数J、Alatalo均匀度指数Ea、Whittaker指数βw、相异性系数CD、群落共有度Jaccard指数CP、Bray-Curtis指数CN等指标研究了该地区4种白刺群落分层的α多样性和β多样性。结果表明:这些α多样性和β多样性测度指标有效表征了干旱沙漠区同属不同植物群落内部在物种组成方面的差异、生境差异、群落间物种组成差异。四种白刺群落的草本层的物种丰富度指数都明显大于灌木层;唐古特白刺群落的物种丰富度指数最小,泡泡刺群落的物种多样性Shannon-Wiener指数H'和Simpson指数D最大,而且其群落均匀度也最大。唐古特白刺植物群落的Whittaker指数βw要比其它三种白刺群落要大,若仅考虑群落间共有物种数目多少,大白刺与泡泡刺在群落、灌木层与草本层间的相异性系数CD都最小,共有度Jaccard指数CP都最大;而西伯利亚白刺群落、灌木层和草本层与其余三种白刺的相异性系数CD都较大,Jaccard指数CP都较小。而数量数据指标Bray-Curtis指数CN变化与上述有所不同。采用植物盖度和相对盖度进行α多样性和β多样性对比分析,能够合理地说明不同白刺植物多样性特征。