植物病原真菌中DNA分子鉴定技术

就基因组ＤＮＡ中Ｇ＋Ｃ含量、分子杂交、聚合酶链式反应（ＰＣＲ）、限制性片段长度多态性（ＲＦＬＰ）、随机扩增多态性（ＲＡＰＤ）,以及扩增片段长度多态性（ＡＦＬＰ）等分子标记技术,在植物病原真菌鉴定工作中的应用情况和发展趋势作了介绍。     

一种褐飞虱病原真菌的分子生物学鉴定

从田间褐飞虱Nilaparvata lugens( St(a)l)罹病虫体分离得到一株绿僵菌,以该菌为供试菌体,采用氯化苄法、CTAB法以及裂解液法分别提取了该菌的基因组DNA;以ITS1和ITS4为绿僵菌通用引物,对供试菌株的rDNA ITS序列进行PCR扩增、琼脂糖凝胶电泳检测和序列分析,并在核酸序列数据库中进行同...     

实验动物皮肤病原真菌DNA快速少量提取法

PCR技术应用于实验动物皮肤病原真菌检测,方法简单、省时。但是,真菌的DNA提取较为困难。本文推荐一种既简单又经济快速的提取皮肤真菌DNA的方法,并能成功用于实验动物皮肤病原真菌质量检测研究。     

23株海洋真菌的分子鉴定及其抗植物病原真菌和细胞毒活性研究

从南海沉积物中分离得到23株海洋真菌,通过ITS测序进行鉴定。以新月弯孢霉(Curvularia lunata)、柱枝双胞霉(Cylindrocladium scoparium)、链格孢(Alternaria alternata)、胶孢炭疽菌(Colletotrichum gloeosporioides)为受试植物病原真菌,以神经胶质瘤细胞(SF-268)、乳腺癌细胞(MCF-7)、大细胞肺癌细胞(NCI-H460)和肝癌细胞(HepG-2)为受试肿瘤细胞,分别采用生长速率法和SRB法对这些菌株的发酵液粗提物进行抗植物病原真菌和细胞毒活性测试,发现11个菌株的粗提物在浓度为50 mg/mL时,对至少1种受试植物病原真菌的抑制率在50%以上,有9个菌株的粗提物在浓度为100μg/mL时,对至少1种肿瘤细胞株的抑制率在80%以上,其中菌株Eupenicillium sp.FS100、Penicillium sp.FS105、Dichotomomyces cejpii FS110、Acaromyces ingoldii FS121对植物病原真菌和(或)肿瘤细胞具有明显的抑制活性。     

rDNA ITS序列在ACCC真菌鉴定中的应用

【目的】真菌无处不在,并与人类生活紧密相关。真菌的鉴定是科学研究和资源开发利用的基础。本研究从中国农业微生物菌种保藏管理中心(ACCC)随机选取已经定名的112株库藏真菌菌株作为实验材料,通过DNA测序,评估核糖体DNA内转录间隔区(rDNA ITS)序列在真菌属级鉴定上的应用。【方法】采用真菌DNA条形码rDNA ITS的序列测定和在GenBank中查寻比对的方法,对这些菌株进行属水平的鉴定复核。【结果】通过研究,供试菌株中有80株的属名与原鉴定相符,同时表明序列中套峰的情况降低与Gen Bank中序列比对的相似性。【结论】rDNA ITS序列测定法可以用于真菌菌株进行属水平的鉴定复核,国家菌种保藏机构应对已入库保藏和即将入库的所有真菌菌株都进行属水平的鉴定复核,并对菌株鉴定结果作审慎处理,原定名的名称及其变更历史应以"曾用名"在数据库中保留。     

一种快速高效提取病原真菌DNA作为PCR模板的方法

真菌rDNA-ITS序列分析适合于较高等级水平的生物群体间的系统分析。真菌DNA的提取采用传统的方法,步骤繁琐,需要较长时间。采用Chelex-100法提取真菌DNA,使用PCR扩增rDNA-ITS序列评价提取核酸的质量。结果显示,该方法具有经济、简便、快速、高效的特点,是一种比较理想的提取真菌基因组DNA作为PCR模板的方法。     

适于RAPD分析的真菌DNA提取方法

报道一种高纯度、高分子量真菌基因组DNA的快速小量提取方法。该法制备的DNA降解少,分子量均在48.5kb以上;纯度高,所有样品的A260/280都在1.7-2.0之间;产率也很高,一般从500mg干菌丝可稳定获得530μg的DNA。所获得的DNA适用于RAPD分析。     

白木香内生真菌的分离及分子鉴定

对采自广东省信宜市的白木香进行了内生真菌分离培养,共获得50个菌株,通过rDNA中内转录间隔区(ITS)序列鉴定其为20个种,其中确定至种名的有7属8种,仅确定至属名的有8种,不能确定种属的有4种,其中A20菌株(Fimetariella rabenhorstii)为国内首次报道。刺盘孢菌(Colletotrichum)共分离到17株,占分离总数的34%,为白木香优势种群;镰刀菌(Fusarium)共分离到11株,是结香部位的优势种群。白木香内生真菌分布部位的专一性不明显,茎中分离的数量及种类最多,叶中最少;5年龄内生真菌的多样性较好,10月龄的多样性较低。     

抗植物病原真菌紫叶小檗内生真菌的筛选和鉴定

对紫叶小檗根、茎、叶和果实中分离纯化得到的28株内生真菌进行液体培养,培养物烘干研磨后用丙酮浸提,测定各提取物对5种供试植物病原真菌的抑菌活性,对抗菌谱较广的菌株进行分子鉴定,并分别测定其胞内、胞外代谢产物的抑菌活性.结果显示:(1)紫叶小檗25株内生真菌中有5株菌(R3、S4、L6、F2、F6)的抗菌谱较广,其中,茎中的内生菌S4抑菌活性最强,对5种植物病原真菌的抑菌活性均大于90％,对马铃薯干腐病菌的抑菌率最高达93.06％.(2)经鉴定S4为子囊菌门的Para phaeos phaeria属真菌.(3)S4菌丝体丙酮提取液对马铃薯干腐病菌的抑菌率随其浓度(加入体积)的增加而增大,呈正相关线性关系(y=15.334x+14.618,r=0.99),而S4发酵液对马铃薯干腐病菌的抑菌率随其浓度(加入体积)的增加而减小,呈负相关线性关系(y=-20.196x+64.984,r=0.99),即在较高浓度时促进病原菌生长.研究表明,紫叶小檗内生真菌S4菌株的抑菌活性成分主要为胞内代谢产物.     

DNA序列分析用于常见致病真菌鉴定和分型

随着真菌感染的增多,仅用表型方法鉴定环境中或临床上的致病真菌不足以快速准确地诊断真菌感染疾病,近年来,分子生物学方法因快速、准确而逐步得到应用,其中DNA序列分析已成为鉴定致病真菌到种水平的重要方法。现就DNA序列分析在常见致病真菌分类鉴定及基因分型的应用加以综述。     

一种快速提取丝状真菌染色体DNA的方法

介绍了一种适用于丝状真菌染色体DNA大片段的快速提取方法,该方法以(100mM Tris,100mM NaGl,50mM EDTA-Na2 2%SDS,pH值9.0)为提取液,经石英砂研磨破壁.应用该方法成功地提取了粗糙脉胞菌(Neurospora crassa)、米曲霉(Aspergillus oryzae)、产黄青霉(Penicillium chrysogenum)和头孢霉菌(Cep- halosporium sp.)等4种不同丝状真菌的染色体DNA大片段,且所提DNA片段均大于20kb,可直接用于限制性酶切、PCR等分子生物学研究.     

A rapid mini-prep method for isolation of ectomycorrhizal DNA from Tuber species

A rapid procedure has been developed to isolate DNA from the ectomycorrhizae of Tuber spp. for use in PCR experiments. The method described is fast and sensitive and can overcome the amplification problems that can arise in the presence of inhibitors. For this reason it can be used to type ectomycorrhizae even starting from a single root tip and make mycorrhizae identification much more rapid.     

一种适用于PCR反应的酵母菌、无绿藻及丝状真菌DNA提取方法

目的 介绍一种从酵母、无绿藻及丝状真菌中提取DNA以用于PCR反应的方法。方法 所用菌种包括临床分离的未知菌株和保藏菌株共23株：未知酵母菌（5株）、真皮毛孢子菌（1株）、糠秕马拉色菌（1株）、季也蒙念珠菌（5株）、未知丝状真菌（6株）、无绿藻（1株）、烟曲霉（2株）、拟青霉菌（1株）、茎点霉（1株）。用溶细胞酶（lyticase）结合Biospin真菌基因组DNA提取试剂盒提取基因组DNA,A260／A280检测纯度并计算质量浓度,用真菌通用引物ITS1／ITS4扩增真菌核糖体基因（rDNA）内转录间区ITS基因,经PCR扩增检验所提取的DNA质量。结果 成功提取所有23株真菌基因组DNA,其纯度及质量浓度能满足PCR反应的要求。结论 用溶细胞酶结合Biospin真菌基因组DNA提取试剂盒从酵母菌、无绿藻及丝状真菌提取的DNA可用于PCR反应。     

A modified mini-prep method for economical and rapid extraction of genomic DNA in plants

Molecular markers for map-based cloning, marker-assisted selection in crop breeding, and genetic studies require DNA isolation from a large number of plants in a short span of time. Here we describe a modified DNA extraction method that is economical in terms of cost, time and labour. The method allows DNA extraction from as little as 0.2–0.3 g of leaves that are homogenized in zipper plastic bags, followed by DNA isolation in 1.5-mL Eppendorf tubes. By using the modified method, a DNA yield of 700–800 μg/300 mg leaf tissue was obtained from cotton and wheat samples. The quality of the DNA was quite suitable for PCR-based markers.     

DNA extraction and PCR amplification method suitable for fresh, herbarium-stored, lichenized, and other fungi

This paper presents a DNA extraction method suitable for fresh, herbarium-stored, lichenized and other fungal specimens. The method is fast and reliable, comparatively inexpensive and is suitable for obtaining PCR amplification quality DNA from large numbers of samples in a short time. The method has been tested with over 300 samples ofAscochyta, Phyllosticta, Ramalina, Parmelia andPhysconia. Amplifiable fungal DNA was extracted from pure cultures, leaf lesions, whole thalli and dissected only-fungal sections of lichenized fungi. In addition, the method has proved suitable for use with herbarium specimens of both lichenized and non-lichenized fungi, stored as dried pure cultures or dried infected plant material.     

UNITE: a database providing web-based methods for the molecular identification of ectomycorrhizal fungi

Identification of ectomycorrhizal (ECM) fungi is often achieved through comparisons of ribosomal DNA internal transcribed spacer (ITS) sequences with accessioned sequences deposited in public databases. A major problem encountered is that annotation of the sequences in these databases is not always complete or trustworthy. In order to overcome this deficiency, we report on UNITE, an open-access database. UNITE comprises well annotated fungal ITS sequences from well defined herbarium specimens that include full herbarium reference identification data, collector/source and ecological data. At present UNITE contains 758 ITS sequences from 455 species and 67 genera of ECM fungi. UNITE can be searched by taxon name, via sequence similarity using blastn, and via phylogenetic sequence identification using galaxie. Following implementation, galaxie performs a phylogenetic analysis of the query sequence after alignment either to pre-existing generic alignments, or to matches retrieved from a blast search on the UNITE data. It should be noted that the current version of UNITE is dedicated to the reliable identification of ECM fungi. The UNITE database is accessible through the URL http://unite.zbi.ee     

A rapid and simple method for DNA extraction from yeasts and fungi isolated from Agave fourcroydes

A simple and easy protocol for extracting high-quality DNA from different yeast and filamentous fungal species is described. This method involves two important steps: first, the disruption of cell walls by mechanical means and freezing; and second, the extraction, isolation, and precipitation of genomic DNA. The absorbance ratios (A₂₆₀/A₂₈₀) obtained ranged from 1.6 to 2.0. The main objective of this procedure is to extract pure DNA from yeast and filamentous fungi, including those with high contents of proteins, polysaccharides, and other complex compounds in their cell walls. The yield and quality of the DNAs obtained were suitable for micro/minisatellite primer-polymerase chain reaction (MSP-PCR) fingerprinting as well as for the sequence of the D1/D2 domain of the 26S rDNA.     

A rapid column-based ancient DNA extraction method for increased sample throughput

Genetic analyses using museum specimens and ancient DNA from fossil samples are becoming increasingly important in phylogenetic and especially population genetic studies. Recent progress in ancient DNA sequencing technologies has substantially increased DNA sequence yields and, in combination with barcoding methods, has enabled large-scale studies using any type of DNA. Moreover, more and more studies now use nuclear DNA sequences in addition to mitochondrial ones. Unfortunately, nuclear DNA is, due to its much lower copy number in living cells compared to mitochondrial DNA, much more difficult to obtain from low-quality samples. Therefore, a DNA extraction method that optimizes DNA yields from low-quality samples and at the same time allows processing many samples within a short time frame is immediately required. In fact, the major bottleneck in the analysis process using samples containing low amounts of degraded DNA now lies in the extraction of samples, as column-based methods using commercial kits are fast but have proven to give very low yields, while more efficient methods are generally very time-consuming. Here, we present a method that combines the high DNA yield of batch-based silica extraction with the time-efficiency of column-based methods. Our results on Pleistocene cave bear samples show that DNA yields are quantitatively comparable, and in fact even slightly better than with silica batch extraction, while at the same time the number of samples that can conveniently be processed in parallel increases and both bench time and costs decrease using this method. Thus, this method is suited for harvesting the power of high-throughput sequencing using the DNA preserved in the millions of paleontological and museums specimens.