Molecular characterization of benzimidazole-resistant isolates of Cladosporium fulvum

The benzimidazole fungicide thiophanate-methyl is commonly applied to control leaf mould of tomato caused by Cladosporium fulvum in China. In this study, 32 isolates of C. fulvum were examined for their sensitivities to thiophanate-methyl, and two benzimidazole-resistant (BenR) phenotypes BenR1 and BenR2 were identified. The BenR1 isolates were resistant to thiophanate-methyl, but were more sensitive to the phenylcarbamate fungicide diethofencarb than the wild-type isolates. The BenR2 isolates resistant to thiophanate-methyl were insensitive to diethofencarb. All tested isolates were sensitive to the dicarboximide fungicide iprodione. The complete beta-tubulin gene was isolated from this fungus to study its potential role in benzimidazole resistance. Analysis of the DNA sequence of the beta-tubulin gene showed that the BenR1 isolates had a point mutation at codon 198, causing a substitution of glutamic acid to alanine. In the BenR2 isolates, a point mutation at codon 200 causing a substitution of phenylalanine to tyrosine was detected. Based on these point mutations, a multiplex allele-specific PCR method was developed successfully for the first time to detect two point mutations at the beta-tubulin gene simultaneously in single PCR amplifications.     

PCR primers specific for the genus Tuber reveal the presence of several truffle species in a truffle-ground

Truffles are hypogeous Ascomycete fungi belonging to the genus Tuber and forming fruiting bodies highly prized for their taste and aroma. The identification of the genus Tuber and its species is important to investigate their ecology and avoid fraud in the food market. As genus-specific primers are not available, the aims of this work were (1) to assess the usefulness of the β-tubulin gene as a DNA barcoding region for designing Tuber genus-specific primers, (2) to test the primers on a range of fruiting bodies, representing a large part of truffle biodiversity and (3) to check their ecological usefulness, applying them to truffle-ground soil. The new primers designed on the β-tubulin gene were specific to the Tuber genus in nested PCR. When applied to DNA from soils, they gave a positive signal for 23 of 32 soils. Phylogenetic analysis confirmed that the bands corresponded to Tuber and that at least five Tuber species were present in the truffle-ground. β-tubulin was found to be a good barcoding region for designing Tuber genus-specific primers, detecting a high Tuber diversity in a natural environment. These primers will be useful for understanding truffle ecology and for practical needs in plantation management.     

Purification of a β-galactosidase from rice shoots and its involvement in hydrolysis of the natural substrate in cell walls

Several glycosidase and glycanase activities have been detected in homogenates of rice ( Oryza sativa L. cv. Nipponbare) shoots after successive extraction with K-phosphate (pH 7. 0) and buffer containing 3 M LiCl. The major β-D-galactosidase (EC 3. 2. 1. 23) present in the buffer-soluble protein fraction was purified to electrophoretic homogeneity by a combination of chromatographic techniques including DEAE-Sepharose CL-6B, Sephacryl S-200HR and p -aminophcnyl-β-D-thiogalactopyranoside–Sepharose 4B. Analysis by denaturing gel electrophoresis revealed a single polypeptide chain with an apparent molecular mass of 42 kDa. Similar to the value of 40 kDa estimated for the native protein by gel-permeation. The isoelectric point was pH 6. 0. The K_m and V_max values for p -nitrophenyl (PNP)-β-D-galactopyra-noside were 0. 63 m M and 0. 32 mmol (mg protein)⁻¹ h⁻¹, respectively. Maximum activity in McIlvaine buffer occurred at pH 3. 4, and the activity was inhibited by Ag²⁺, Cu²⁺. Hg²⁺, p -chloromercuribenzoate (PCMB) and D-galactono-l,4-lactone. The enzyme hydrolyzed larchwood arabinogalactan in an exo-fashion, and acted weakly on arabinosyl and galactosyl residue-rich polymer of pectic polysaccharides and cell walls from rice shoots.     

Soil analysis reveals the presence of an extended mycelial network in a Tuber magnatum truffle-ground

Truffles are hypogeous ectomycorrhizal fungi. They belong to the genus Tuber and are currently considered a hot spot in fungal biology due to their ecological and economic relevance. Among all the species, Tuber magnatum is the most appreciated because of its special taste and aroma. The aim of this work was to set up a protocol to detect T. magnatum in soil and to assess its distribution in a natural truffle-ground. We used the β-tubulin gene as a marker to identify T. magnatum in the soil. This gene allowed us to trace the distribution of the fungus over the entire truffle-ground. Tuber magnatum was found, in one case, 100 m from the productive host plant. This study highlights that T. magnatum mycelium is more widespread than can be inferred from the distribution of truffles and ectomycorrhizas. Interestingly, a new haplotype – never described from fruiting body material – was identified. The specific detection of T. magnatum in the soil will allow to unravel the ecology of this fungus, following its mycelial network. Moreover, this new tool may have practical importance in projects aimed to increase large-scale truffle production, checking for T. magnatum persistence in plantations.     

一种使用混合PCR筛选技术高效延伸水稻BAC—重叠群的方法

使用“克隆连克隆 (clonebyclone)”战略进行水稻基因组测序需要依赖于构建好的基因组物理图。工作着眼于水稻籼稻广陆矮 4号 (OryzasativaindicaGuangLuAi4)第四号染色体长臂上 5 6 .1～ 6 8cM的区域 ,采用PCR方法筛选BAC全库来延伸重叠群 ,构建物理图。通过参照特异遗传探针定位的BAC克隆 (seedBAC)末端序列设计了 14对引物 ,按特定规则分成 3组 ,分别以代表水稻BAC库 (共 2 2 36 8个BAC )的 2 33个BACpool为模板进行PCR反应 ,一共获得了 6 5个阳性BAC克隆 ,通过末端测序、酶切杂交等方法确定了其中 2 9个BAC克隆作为有效延伸的克隆 ,延伸了 8个重叠群。通过酶切杂交、末端测序等方法还获知阳性BAC的延伸方向、延伸长度以及与seedBAC之间的重叠长度。8个重叠群总的延伸长度达到5 10kb。与实验室原用于作物理图的其他方法如指纹图、点杂交等相比 ,该方法有高效率、高灵敏度、专一性好、可重复使用等优点。创新之处在于通过引物的合理分组和PCR实验条件的改进降低了假阳性和假阴性率     

Localisation of β-oxidation enzymes in peroxisomes of rice coleoptiles

Enzymes of the β-oxidation pathway in rice ( Oryza sativa L., cv. Arborio) coleoptiles were investigated. The coleoptiles contain acyl-CoA oxidase (EC 1.3.99.3), 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35), enoyl-CoA hydratase (EC 4.2.1.17) and thiolase (EC 2.3.1.9). Analysis of coleoptile homogenates by sucrose density fractionation showed a preferential distribution of these enzymes in the unspecialized peroxisomes. The enzymatic activity found in the mitochondrial fraction was due to peroxisomal contamination since electron micrographs show the peroxisomes to be intact and pure whereas the mitochondrial fraction was contaminated by other organelles. It appears that the β-oxidation pathway is localized in the unspecialized peroxisomes of rice coleoptiles, extending the number of plant species in which such a localization has been observed.     

β-Glucosidase activities and HCN liberation in unimbibed and imbibed seeds, and the induction of cocklebur seed germination by cyanogenic glycosides

In many seed species, the major source of HCN evolved during water imbibition is cyanogenic glycosides. The present investigation was performed to elucidate the role of endogenous cyanogenic glycosides in the control of seed germination and to examine the involvment of β-glucosidase in this process. All seed species used here contained some activities of β-glucosidase already in the dry state before imbibition. in the decreasing order of Malus pumila, Daucus carota, Hordeum vulgare, Chenopodium album and so on. β-Gluosidase activity in upper and lower seeds of cocklebur (Xanthium pennsylvanicum Wallr.) decreased with imbibition, and in lower seeds the activity disappeared when they germinated. On the contrary, in caryopses of rice (Oryza sativa L. cv. Sasanishiki) β-glucosidase increased during imbibition, and this increase continued even after germination. β-Glucosidase in cocklebur seeds was more active in the axial than in the cotyledonary tissue. Amygdalin, prunasin and linamarin could all serve as substrattes for the β-glucosidase(s) from both cocklebur and rice. Amygdalin, prunasin and linamarin as well as KCN, were effective in stimulating the germination of upper cocklebur seeds. The seeds evolved much more free HCN gas when they were exposed to the cyanogenic glycosides than when the glycosides were absent. Moreover, the application of the cyanogenic glycosides or of KCN caused accumulation of bound HCN in the seeds. Carbon monoxide, which stimulated cocklebur seed germination only slightly, did not cause accumulation of bound HCN. We suggest that a balance between the cytochrome and the alternative respiration pathways, which is adequate for germination (Esashi et al. 1987. Plant Cell Physiol. 28: 141–150), may be brought about by the action of endogenous HCN; a large portion of which is liberated from cyanogenic glycosides via the action of β-glucosidase. In addition to the partial suppression of the cytochrome path and unlike carbon monoxide, the HCN thus produced may act to supply cyanide group(s) to unknown compounds necessary for germination.     

Simultaneous detection of Fusarium asiaticum and Fusarium graminearum in wheat seeds using a real-time PCR method

Aims:  To develop a PCR-based method for quantitative detection of Fusarium asiaticum ( Fa ) and Fusarium graminearum ( Fg ) in wheat seeds.
Methods and Results:  Based on the sequences of the cyp51A gene, two primer pairs FaF + FaR and FgF + FgR were developed for the species-specific detection of Fa and Fg , respectively. To simultaneously detect these two phylogenetic species, a pair of primers FgaF + FgaR was developed based on the first and the second introns of β -tubulin gene. This primer pair amplified a 228-bp fragment only from Fa and Fg isolates, but not from 22 other Fusarium spp. and 13 other fungal species. A real-time PCR with this primer pair was able to quantify minute amounts of Fa and Fg DNA in wheat seeds rapidly.
Conclusions:  PCR primers designed based on the sequence of cyp51A or intron region of β -tubulin gene could allow differentiation of genetically related fungal species.
Significance and Impact of the Study:  The sensitive and quantitative detection method can be readily used in epidemiological studies and in assessing risk of Fusarium mycotoxin contamination in wheat samples.     

两个水稻胚乳启动子的克隆及表达分析

启动子的克隆对基因表达及基因工程研究有重要意义。根据数据库中EST丰度,从水稻中克隆了两个预测在水稻胚乳中高效表达的启动子Os772和Os359,并将启动子片段与GUS报告基因融合,构建了重组表达载体。通过农杆菌介导方法将其导入水稻愈伤组织细胞。转基因水稻经GUS组织化学分析显示,Os772和Os359能启动GUS基因在水稻胚乳中表达但不能在根、茎、叶和花中表达。该结果表明Os772和Os359为两个水稻胚乳特异性启动子。     

水稻幼苗特异应答H2O2的miRNA169b启动子表达载体的构建

目的:研究microRNA169b(miRNA169b)启动子不同长度片段的活性及自身调控。方法:用生物信息学方法分析水稻中miRNA169b前体上游1500 bp序列,并从水稻幼苗基因组DNA中扩增miRNA169b前体上游500、1000和1500 bp启动子片段,分别将3个片段克隆至萤光素酶报告基因载体p5XGal4-LUC上。结果:构建了miRNA169b启动子重组载体,序列分析表明与预期结果一致。结论:miRNA169b启动子调控的萤光素酶报告基因表达载体的构建,为研究水稻中miRNA基因自身的转录奠定了基础。     

A new integrative reporter plasmid for Streptococcus pneumoniae

A new promoter probe system for Streptococcus pneumoniae has been developed that allows stable genomic integration of promoters cloned in front of a promoterless hybrid beta-galactosidase gene consisting of translation initiation signals of the protease gene htrA of S. pneumoniae fused to a truncated Escherichia colibeta-galactosidase gene lacZ. Chromosomal insertions of promoter-lacZ fusions are directed to the endogenous beta-galactosidase gene bgaA, thereby abolishing background beta-galactosidase activity. The new system was tested by measuring beta-galactosidase activity directed by the two promoters of the early competence genes comA and comC. The new integrative plasmid offers several advantages compared with existing systems and is especially suited for stable integration of small promoter fragments to conduct mutagenesis or deletion studies.     

Agrobacterium-mediated transformation of indica rice with chitinase gene for enhanced sheath blight resistance

Four rice indica genotypes of local importance were transformed with RC7, rice chitinase cDNA clone through Agrobacterium-mediated gene transfer method using mature seed derived calli as explants. The putative hygromycin resistant calli showed varied level of regeneration efficiency ranging from 2.0 to 7.6 %. The stable integration and expression of RC7 was confirmed through polymerase chain reaction (PCR) and Western analysis. Transformation efficiency ranged from 0.9 to 5.2 %. The expression of RC7 (35 kDa chitinase) in different tissues of transgenic plant (root, sheath and leaf) was proved through Western analysis and in terms of increased chitinase activity. The inheritance of transgene was studied through PCR and Western analysis in transgenic plants of Pusa Basmati 1. Bioassays with transgenic plants of local cultivars exhibited enhanced resistance up to 33.3 % to rice sheath blight pathogen Rhizoctonia solani under glasshouse conditions. Enhanced expression or 3-to 4-fold increased activity of chitinase in transgenic plants was correlated with sheath blight resistance.     

一个水稻高效表达启动子Os252的分离

植物基因的表达受启动子的控制,高效表达启动子的分离及功能分析不仅是植物基因工程研究的重要研究方面,也是表达调控研究的重要内容。根据EST数据克隆了一个预测在水稻茎中高效表达的启动子Os252。将该启动子与GUS基因构建成表达载体并转入水稻。转基因水稻PCR分析表明,GUS基因已经成功地整合进水稻基因组中。GUS组织化学分析表明,Os252能启动GUS基因在水稻叶、茎以及胚乳中表达。进一步GUS酶活性的测定表明,叶和胚乳中Os252启动子活性分别是35S启动子的1.9和2.5倍。由于Os252来自于水稻,在叶和胚乳中活性高于35S启动子,因此该启动子可望用于水稻基因工程研究。     

Rapid β-lactoglobulin genotyping of cattle using the polymerase chain reaction

A polymerase chain reaction (PCR) assay has been developed for genotyping beta-lactoglobulin A and B variants in dairy cattle. Either blood or semen samples can be used as a source of DNA. The method is accurate, faster than Southern blot analyses and should prove a useful tool in breeding programmes.     

An Efficient Rice Transformation System Utilizing Mature Seed-derived Explants and a Portable,Inexpensive Particle Bombardment Device

We developed a practical and efficient gene transfer system for indica rice utilizing mature-seed derived explants and a simple bombardment device which uses compressed helium for accelerating DNA-coated metal particles. Unlike instruments which have been described in the literature previously, this new bombardment device, which is an improvement of the particle inflow concept, does not require vacuum. This attribute simplifies the transformation procedure significantly and it makes rice transformation technology accessible to laboratories which may not have the resources to invest in more expensive particle bombardment instruments. We determined experimentally that we could recover transgenic rice plants utilizing three different particle bombardment instruments at comparable frequencies.