棉花黄萎病菌ISSR反应体系优化及其遗传多样性分析

为给棉花黄萎病菌分子变异及遗传多样性研究提供可靠的检测方法,以棉花黄萎病菌基因组DNA为模板,采用正交优化方法对PCR体系中DNA聚合酶、引物、dNTPs、DNA模板、Mg2+及10×Buffer等重要参数进行6因素4水平优化,建立了棉花黄萎病菌ISSR-PCR优化反应体系,并从20条ISSR通用引物中筛选出多态性较好的10条引物。采用该优化反应体系和10条ISSR引物对采自陕西棉花主产区的21个棉花黄萎病菌菌株和3个参照菌株进行ISSR分析。结果显示,10条ISSR引物共扩增出87条谱带,条带分子量均在250~2 000 bp之间,平均每条引物扩增出8.7个条带,其中58条为多态性条带,占65.2%。聚类分析结果显示,在相似系数0.59处,供试菌株分为2个遗传类型。表明棉花黄萎病菌菌株间的亲缘关系与地理来源存在一定的相关性,而与其病害症状类型无相关性。     

尖孢镰刀菌及芬芳镰刀菌遗传多样性的ISSR分析

 为了明确镰刀菌属(Fusarium)美丽组（Section Elegans）中尖孢镰刀菌(F. oxysporum)和芬芳镰刀菌（F. redolens）2种菌的遗传差异性和亲缘关系,利用ISSR分子标记技术对这2种菌的35个菌株进行了遗传多样性分析。结果表明,用筛选的15条引物对35个供试菌株共扩增出231条条带,其中多态性条带220条,平均多态性比率为95.2%,平均每条引物产生条带为14.7条。聚类结果和遗传相似系数分析显示,35个菌株间的遗传相似系数范围为0.506~0.935,平均为0.661。在遗传相似系数为0.593时,供试的35株镰刀菌可明显的分成2个ISSR类群（IG）,其中IGⅠ包括1～23号菌株,全部为F. oxysporum;IGⅡ包括24～35号菌株,全部为F. redolens。ISSR类群划分与菌种分类之间存在一定相关性 (IGⅠ中23株F. oxysporum间的平均相似系数为0.720,IGⅡ中12株F. redolens间的平均相似系数为0.717),但与菌株的地理来源不存在相关性。而同一类群中,菌株之间的遗传相似性与菌株的地理来源存在一定的相关性。     

西瓜枯萎病菌遗传多样性的相关序列扩增多态性分析

对30个西瓜枯萎病菌Fusarium oxysporum f.sp.niveum菌株基因组DNA进行相关序列扩增多态性(SRAP)分子标记分析,以探究其遗传多样性与地理来源的关系。采用尖孢镰刀菌西瓜专化型Fusarium oxysporumf.sp.niveum0、1、2号生理小种的基因组DNA为模板,对225对SRAP引物进行筛选,筛选出20对多态性、重复性较好且条带清晰的引物,对30个菌株进行PCR扩增,共扩增出386条带,其中多态性条带有371条,多态性比率为96.11%,平均每对引物扩增出19.3个位点和18.55个多态性位点。UPGMA法聚类分析结果显示,供试菌株两两之间的遗传相似系数范围为0.69~0.90,平均为0.79,说明尖孢镰刀菌西瓜专化型的遗传多样性较为丰富。基于SRAP标记聚类分析表明,30个菌株在遗传相似系数为0.70处被划分为3个类群,I类群包含24个菌株,其中18个来自湖南省,Ⅱ类群只包含1个来自黑龙江省哈尔滨市的菌株,它和另一个来自黑龙江地区的菌株被划分到不同的类群,且遗传距离相对较远;Ⅲ类群包含了5个菌株,其中3个来自海南三亚,其余两个来自湖南省。根据菌株的分布情况来看,菌株的聚集与地理来源没有明显的相关性。     

尖镰孢菌EST-SSR遗传多样性分析及通用性评价

为了解38株尖镰孢菌的遗传多样性并开发可在近缘镰孢菌种中通用的尖镰孢菌EST-SSR标记,利用设计和筛选的18对多态性EST-SSR引物对38株尖镰孢菌和5种近缘镰孢菌进行SSRPCR扩增,经6%非变性聚丙烯酰胺凝胶分离扩增产物,并用NTSYS软件分析供试尖镰孢菌的PCR扩增结果。结果表明,18对EST-SSR标记引物在38株尖镰孢菌中检测到75条多态性条带,多态性比率达92.6%,平均每对引物可扩增4.2条;各菌株间的遗传相似系数介于0.565~0.946之间,平均为0.721;来源于同科寄主植物群体的菌株间的平均遗传相似系数以葫芦科最大,锦葵科最小,依次为葫芦科兰科豆科亚麻科茄科锦葵科。在相似系数为0.756时,供试38株菌有35株按照不同科寄主植物聚为不同的类群,说明尖镰孢菌SSR类群的划分与其寄主来源具有一定的相关性。18对EST-SSR引物在近缘镰孢菌种中均能有效扩增的引物数及通用性比率为10对和55.6%,均显示多态性的引物有2对,占供试引物总数的11.1%。表明尖镰孢菌ESTSSR区域遗传多样性丰富,基于尖镰孢菌EST序列开发镰孢菌通用SSR标记是可行的。     

淡紫拟青霉诱变菌株的RAPD分析

选用6个随机引物对淡紫拟青霉IPC菌株及其15株突变菌株的全基因组DNA进行随机多态性扩增,共扩增出114条250～2500bp的DNA片段,多态检测率为83．3％。利用UPGMA方法对扩增的DNA片段聚类分析,结果表明：供试菌株具有丰富的遗传多样性,应用RAPD技术可以快速准确地鉴定菌株是否突变及突变程度;参照突变菌株表型特性上的改变,该方法可以作为确定其遗传性上是否发生分化的依据。     

稻曲病菌遗传多样性与群体结构的初步分析

 利用随机扩增多态性DNA (random amplified polymorphic DNA,RAPD)初步分析了稻曲病菌(Ustilaginoidea virens)的群体遗传结构。从1 60个随机引物中筛选32个扩增带型清晰、重复性好的引物,对不同年份采自辽宁、云南、湖北和浙江等水稻种植区的5 6个菌株进行扩增。32个引物扩增出2 2 3条带,绝大多数引物对不同年度采自不同稻区的菌株扩增的DNA谱型相同,大多数菌株间相似性系数达0.80以上。根据扩增DNA片段的多态性,从空间分布来看,来源于北方、长江流域和南方的菌株难以划分出明显的地理宗谱;不同年度的菌株DNA多态性也无明显的差异。上述结果初步表明稻曲病菌遗传稳定,寄主选择作用(寄主的基因型及其时空分布)对稻曲病菌变异的影响较小。但是尚需采用其它的分子技术测试更多的菌系,才能较系统地分析我国稻曲病菌系的遗传变异及群体结构特点。     

不同核盘菌菌株及其近缘种的RAPD分析

 本文利用随机引物扩增多态性DNA (RAPD)技术分析了7个生物学性状差异较大核盘菌(Sclerotinia sclerotiorum)的遗传多样性,并同三叶草核盘菌(S.trifoliorum)、小核盘菌(S.minor)的代表性菌株和莴苣上的一种产菌核病原菌的代表菌株Let-19进行了比较。结果表明40个引物中8个引物能稳定地从供试菌株中扩增出多态性DNA片段。通过分析这些多态性片段可以看出7个供试核盘菌菌株之间的遗传相似系数变化幅度为0.505 2~0.793 1,而核盘菌、三叶草核盘菌,小核盘菌和Let-19之间的遗传相似系数的变幅则为0.194 2~0.385 3。莴苣上的菌株Let-19的RA PD图谱同供试其它种的菌株既存在明显差异的DNA片段电泳带,又显示出一些位置一致的DNA片段电泳带。因而Let-19同核盘菌属真菌的亲缘关系较近。供试的引物中OPL14既能介导从供试的7个核盘菌菌株和3个近缘种的3个菌株的DNA样品中扩增出相同的DNA片段,又能扩增出种或菌株特异性DNA片段。因而RAPD技术适于研究核盘菌的遗传多样性及分析核盘菌属真菌的亲缘关系。     

产纳他霉素生防菌A01和A02与已知产生菌的RAPD比较

为了明确自主分离的天然抗真菌活性产物——纳他霉素产生菌A01和A02与已知纳他霉素产生菌的遗传相似性,采用RAPD技术对这2株菌和3个产纳他霉素的标准菌株进行了比较分析。利用筛选出的7个随机引物对5个菌株的PCR扩增共得到154条清晰稳定的DNA条带,其中同源性条带86条,多态性条带68条,分别占总条带数的55.8%和44.2%,平均每个引物扩增出9.7个多态性条带,得到了丰富的DNA指纹图谱。所得数据经NTSYS pc 2.10e软件聚类分析,表明5个菌株间的遗传距离为0.0991~0.4738,其中A02与其它菌株间的遗传距离均较远。结合前期的分类研究结果,确证了菌株A02为新的纳他霉素产生菌。     

陕西省苹果树腐烂病菌基因多态性的ISSR分析

为了从分子水平上揭示苹果树腐烂病菌的群体遗传多样性,采用正交设计对ISSR-PCR体系进行了4因素3水平的筛选,并从47条ISSR引物中筛选出11条多态性较好的引物。对供试的87个分离株进行扩增的结果显示,11条引物在129个位点扩增出稳定的条带,其中多态性位点119个,多态性位点率为92.25%。POPGENE分析显示,病菌种群的遗传多样性和基因多态性丰富,群体间的遗传分化系数(Gst)为0.109,群体内为0.891,群体内多样性大于群体间多样性。两个地理种群间的居群每代迁移数(Nm)为2.046,两者之间存在广泛的基因交流。在遗传相似系数为0.88时,可将21个自然种群划分为9个不同的类群,表明陕西省苹果树腐烂病菌的各个自然种群之间的遗传亲缘关系与其地理来源之间无明显的相关性。     

我国玉米灰斑病菌遗传多样性的ISSR分析

为明确我国发生的玉米灰斑病菌地理差异及遗传结构,利用简单序列重复区间(ISSR)对玉米灰斑病菌遗传多样性进行了分析,并利用尾孢菌特异引物对分离自四川、云南、湖北、贵州等西南地区的16个玉米灰斑病菌菌株进行了分子鉴定。结果显示,通过ISSR标记筛选出10个扩增多态性好且稳定的通用引物,共扩增出81条DNA条带,均为多态性条带,扩增片段大小在200~2 000 bp之间,菌株遗传相似系数为0.19~1.00。在遗传相似系数为0.19时,供试菌株被聚为2大类群,来自西南地区和东北地区的菌株各自聚为一组,在DNA水平上表现出明显差异,认为是2类不同的致病类群。分子鉴定结果显示引起西南各地区玉米灰斑病的主要致病菌均为玉米尾孢菌Cercospora zeina。表明我国玉米灰斑病菌存在丰富的遗传多样性,ISSR标记可揭示出玉米灰斑病菌株间的亲缘关系及遗传差异性,可用于其遗传多样性研究。     

Diversity among isolates ofVerticillium lecanii as expressed by DNA polymorphism and virulence towardsBemisia tabaci

Thirty-six isolates ofVerticillium lecanii andVerticillium sp. were taken from different hosts (both insects and rusts) and geographical locations. The isolates were analyzed for genomic variability, as expressed by random amplified polymorphic DNA (RAPD), in relation to virulence onBemisia tabaci. Virulence on larvae ofB. tabaci within these isolates ranged from 0% to 83%. RAPD analysis was performed employing two different arbitrary decamer primers and the calculated similarity coefficients were subjected to cluster analysis using the unweighted average linkage (UPGMA) algorithm. The dendrograms obtained with each of the two primers were identical. Eight cluster groups and three unclustered isolates were obtained by selecting a similarity level of 80%. The amplification pattern of DNA obtained by RAPD for the various isolates suggested thatV. lecanii is a highly diverse species. No correlation could be established between virulence and either RAPD polymorphism of the fungal isolates or the insect host from which they were isolated. Generally, no correlation could be established between the clustering ofV lecanii strain and geographical location although a limited number of strains obtained from Russia and Georgia were assembled in the same cluster and those from Kazakhstan were clonal.     

中国不同地区致病疫霉遗传多样性的RAPD分析

 本文应用RAPD技术检测了我国主要马铃薯产区致病疫霉的遗传分化情况及不同地区菌株间的亲缘关系。用筛选出的10个随机引物对1997-2001年间采自我国9省市的82株及3株来自日本的致病疫霉DNA进行了PCR扩增,获得了79条谱带,其中多态性标记75条,占95%。根据扩增结果,运用UPGMA分析,获得了表现菌株间亲缘关系的树状图。菌株间的最大遗传距离为0.5,以距离0.3为阈值,可将供试菌株划分为10个组(RG1-10)。结果发现:A1交配型菌株群体内的差异大于A1和A2菌株群体之间的;RAPD分组与菌株的地理来源、交配型及对甲霜灵的敏感性无明显相关性。研究结果显示,来自中国北方甘肃、内蒙、吉林、黑龙江地区的菌株与一些来自云南、四川等西南地区的菌株亲缘关系相近。病原菌随种薯的迁移可能是导致这种现象的原因之一。     

Genetic variation among asexual progeny of Phytophthora infestans detected with RAPD and AFLP markers

Genotypic variation among 32 single-zoospore isolates (SZI) of Phytophthora infestans , derived asexually from two hyphal-tip parental isolates (PI-105 and PI-1) of the US-8 genotype, was assessed with 80 random amplified polymorphic DNA (RAPD) primers and 18 amplified fragment length polymorphic DNA (AFLP) primer pairs. In previous investigations, the SZIs from parental isolate PI-105 showed high levels of virulence variability and were differentiated into 14 races, whereas the SZIs from PI-1 showed identical virulence to the parent. The purpose of this investigation was to determine if phenotypic variation observed among SZIs of P. infestans could be detected at the DNA level in these isolates. Polymorphism was detected with 51 RAPD primers and with all 18 AFLP primer pairs in PI-105 SZIs. In SZIs from PI-1, polymorphism was also detected with 25 RAPD primers and 17 AFLP primer pairs. Cluster analysis using the unweighted pair-group method with arithmetic averages (UPGMA) separated the SZIs from parent PI-105 into six virulence groups, 11 RAPD groups and three AFLP groups. Cluster analysis of PI-1 SZIs, which all belong to the same virulence group, differentiated them into four RAPD groups and six AFLP groups. No close correlation among RAPD, AFLP and virulence groups could be established within the two progenies of SZIs. Results of this study suggest that there is a considerable level of inherent genetic variability among SZIs derived asexually from the same parental isolate. The possible mechanisms and implications of this genetic variation are discussed.     

Genetic Diversity in South American Colletotrichum gloeosporioides Isolates from Stylosanthes guianensis, a Tropical Forage Legume

The degree of genetic diversity of 127 Colletotrichum gloeosporioides isolates from Stylosanthes guianensis genotypes in South America was measured at the molecular level by random amplified polymorphic DNA (RAPD) with nine arbitrary primers of 10 bases, and by restriction fragment length polymorphism (RFLP) with a non-LTR (long terminal repeats) retrotransposon DNA sequence. The RAPD products revealed scorable polymorphism among the isolates, and a total of 80 band positions were scored. Sixty-three of the 127 isolates were clustered into 13 distinct lineages usually correlating with geographic origin. Where isolates from various regions were clustered together, most had identical host genotype origin. The pathogen population sampled from Carimagua, Colombia, a long-time Stylosanthes breeding and selection site, with a savanna ecosystem, was highly diverse. A set of 12 S. guianensis genotype differentials was used to characterize pathogenic variability of 104 isolates and their virulence patterns were grouped into 57 pathotypes. However, when they were tested on four Australian differentials, they grouped into 11 pathotypes. As shown in previous studies, no strict correlations existed between genetic diversity measured by RAPD or RFLP, and pathotype defined by pathogenicity pattern on the differentials. Southern blot analysis of the 127 isolates revealed 23 hybridizing fragments, resulting in 41 fingerprint patterns among the 127 isolates. Relationships between RFLP and RAPD variables were examined using Spearman's Rank Correlation Coefficient, which showed that the two measures of genotypic variation are in agreement.     

Morphological and molecular characterization of Colletotrichum spp. from citrus orchards affected by postbloom fruit drop in Brazil

Brazilian isolates of Colletotrichum spp. from citrus orchards affected by postbloom fruit drop were examined for colony colour, mycelial growth, benomyl-resistance, pathogenicity, and genetic variability by random amplified polymorphic DNA (RAPD) analysis. All isolates were obtained from flowers and persistent calyxes from different citrus hosts from Sao Paulo, Brazil. DNA polymorphisms detected after amplification with random 10-mer primers were used to classify the isolates into two groups. Group I isolates grew rapidly on potato-dextrose agar (PDA) and were sensitive to benomyl, and group II isolates grew slowly on PDA and were benomyl-resistant. Colletotrichum acutatum was analyzed by RAPD and had high genetic similarity with group II isolates of Colletotrichum from citrus. Probably, the group I is C. gloeosporioides and group II is C. acutatum.     

Molecular, physiological and pathological characterization of Corynespora leaf spot fungi from rubber plantations in Sri Lanka

The plant pathogenic fungus Corynespora cassiicola causes a severe leaf spot disease on more than 70 host plant species including Hevea brasiliensis . Genetic variability in 32 isolates of C. cassiicola collected from diverse hosts and locations in Sri Lanka and Australia was assessed using restriction fragment length polymorphism (RFLP) analysis of the internal transcribed spacer (ITS) region of ribosomal DNA and random amplified polymorphic DNA-polymerase chain reaction (RAPD-PCR) analysis of total fungal DNA. Amplified ITS fragments from all 32 C. cassiicola isolates exhibited an identical size, and restriction analysis with seven different restriction endonucleases revealed identity in all of the detected DNA fragments. This finding of high genetic relatedness was further supported by the cloning and DNA sequencing of the ITS2 region from one Sri Lankan and one Australian isolate. However, RAPD-PCR profiles generated by 15 oligonucleotide decamer primers revealed significant polymorphism between groups of organisms. Genetic relationships among the isolates were determined by cluster analysis of the RAPD-PCR data and seven different RAPD groups were identified. Isolates showed strong correlations between the assigned RAPD group and the location and host plant genotype from which the isolate was collected. Correlations were also observed between the RAPD group, growth of the isolate and pathogenicity on different plant hosts.     

Genetic diversity among <Emphasis Type="Italic">Brenneria nigrifluens</Emphasis> strains in Iran

To investigate the variability of Brenneria nigrifluens, the casual agent of shallow bark canker of Persian walnut (Juglans regia L.), a collection of 24 strains isolated from five geographic regions, was analyzed by means of three marker systems, repetitive polymerase chain reaction (rep-PCR), insertion sequence (IS50)-PCR and random amplified polymorphic DNA (RAPD). Cluster analysis was performed using UPGMA. Strains were differentiated into 6 groups at about 80% similarity according to geographic regions. This is possibly due to cultivation of Persian walnut being mainly based on the ecotype and/or local seedlings that have become adapted to particular environments and so have allowed selection of different B. nigrifluens populations. The results of this study showed that the four rep-PCR primers produced 75 products of which 73.3% were polymorphic, eight RAPD primers produced 146 fragments of which 74.6% were polymorphic and IS50 produced 32 fragments of which 93.75% were polymorphic. The usefulness of each system was examined in terms of polymorphism information content (PIC) and marker index (MI). The highest MI was observed for IS50-PCR (21.11) followed by RAPD (7.85), and rep-PCR (6.92). The Mantel test identified significant correlation between the similarity coefficients calculated from them. Among the molecular markers tested, IS50-PCR appears to be a more suitable marker for fingerprinting and assessing genetic relationships among B. nigrifluens strains. This is the first study on genetic diversity of B. nigrifluens. The results can have a bearing on the choice of disease management strategies.     

Intraspecific diversity within avocado field isolates of <Emphasis Type="Italic">Rosellinia necatrix</Emphasis> from south-east Spain

Fifty-five isolates of Rosellinia necatrix, the cause of common avocado white root rot disease, were collected from south-east Spain and characterised according to their virulence behaviour and their molecular patterns to assess broader levels of genetic diversity. Virulence properties were revealed by in vitro inoculation on avocado plants. Differences in reaction types showed variability among these isolates. No sequence differences were observed when the internal transcribed spacer 1 (ITS1) and ITS2 regions and DNA fragments of the β-tubulin, adenosine triphosphatase and translation elongation factor 1 genes were explored in representive isolates from five virulence groups. Random amplified polymorphic DNA (RAPD) amplifications were also performed for each isolate using 19 random primers. Four of these primers revealed polymorphism among isolates and repetitive and discriminative bands were used to build an unweighted pair group with arithmetic mean tree. However, RAPD clustering showed low stability, and no correlation between RAPD and virulence groups was observed, possibly indicating high levels of sexual recombination.     

运用随机扩增多态性DNA标记检测中国东北大豆灰斑病菌株遗传变异

 运用致病力和DNA多态性检测中国东北地区的35个大豆灰斑病菌分离物的遗传变异、根据菌株在9个品种(系)上的致病力反应可将其分为7个组。利用13个随机引物扩增供试菌株共计产生105个RAPD标记,其中78.1%具有多态性。通过聚类分析计算了各菌株间的遗传距离,并产生树状图,发现同一地区内及不同地区间的病菌表现遗传变异、致病性和DNA多态性间具有一定相关性。