Evaluation of the Use of SCAR Markers for Screening Genetic Diversity of Lentinula edodes Strains

In this study, three molecular marker systems including sequence related amplified polymorphism (SRAP), random amplified polymorphic DNA (RAPD), and inter-simple sequence repeats (ISSR) were screened to select polymorphisms of 24 main commercial strains of Lentinula edodes cultivated widely in China. Twenty-nine sequence characterized amplified region (SCAR) markers were developed to set up a dendrogram using UPMGA based on nucleotide sequences of some SRAP, RAPD, and ISSR polymorphic fragments. The grouping showed that the 24 strains were apparently clustered into five groups at a level of 0.68 similarity coefficient, and those that have similar breeding background clustered preferentially into the same subgroup. Results also revealed that the 24 strains had a low level of genetic diversity, and the breeding source of L. edodes should be broadened by exploiting wild types and introducing exotic strains. In addition, the tested strains of L. edodes could be clearly distinguished and identified from others by using different combinations of SCAR primers. Thus, results of this work demonstrated that SCAR was an excellent genetic marker system to characterize and investigate genetic diversity of L. edodes. Furthermore, this provided an alternative method to identify the genetic relationship of different strains of other fungi.     

Sequence-related amplified polymorphism (SRAP) marker as a new method for identification of endophytic fungi from Taxus

A total of 20 endophytic fungi stains were classified into four groups using traditional morphological identification method, and were studied for genetic diversity by sequence-related amplified polymorphism (SRAP) technique. Genomic DNA (deoxyribonucleic acid) of these strains was extracted with CTAB method. SRAP analysis was done with 24 pairs of primers. All strains could be uniquely distinguished with 584 bands and 446 polymorphism bands which generated 76.4% of polymorphic ratio. Unweighted pair-group method with arithmetical averages cluster analysis enabled construction of a dendrogram for estimating genetic distances between different strains. All strains, which were just divided into four groups by traditional morphology identification, were clustered into four major groups at GS = 0.603 and further separated into eight sub-groups at GS = 0.921. Dendrogram also revealed a large genetic variation in 20 strains; different primer combinations allowed them distinctly distinguished one from others with relatively low genetic similarity. The results show that the SRAP technology is more efficient than traditional morphology identification. It is found that SRAP markers could more really reflect the genetic diversity of endophytic fungi strains from Taxus, and also could be used as a method for identification of endophytic fungi from Taxus. It also suggests that SRAP can be used to establish foundation for further screening of taxol-producing endophytic fungi strains which can produce high levels of paclitaxel.     

Zur Kenntnis der cellulolytischen Aktivität in der Gattung Ganoderma (Lackporlinge)

Zusammenfassung Ganoderma resinaceum und Ganoderma pfeifferi verfügen über ein Enzymsystem, das Carboxymethylcellulose und Cellulosepulver anzugreifen vermag; beide Pilze dürfen danach als cellulolytisch aktiv bezeichnet werden. Ganoderma lucidum erweist sich dagegen als cellulolytisch inaktiv. Carboxymethylcellulose wird nur in verschwindend geringer Menge abgebaut und dies nur in Verbindung mit einer organischen N-Quelle; Cellulosepulver wird überhaupt nicht angegriffen.

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On the cellulolytic activity of some species of the genus Ganoderma

Summary Three wood-destroying fungi of the white-root type, Ganoderma resinaceum, Ganoderma pfeifferi and Ganoderma lucidum are tested in their cellulolytic activity. Ganoderma resinaceum and Ganoderma pfeifferi produce an extracellular enzyme system, that degrade Carboxymethylcellulose and insoluble cellulose powder. Ganoderma lucidum degrades Carboxymethylcellulose in a very small extent and only in presence of organic nitrogen sources; cellulose powder was not attacked.

     

Molecular Diversity of Auricularia polytricha Revealed by Inter-Simple Sequence Repeat and Sequence-Related Amplified Polymorphism Markers

Due to unsatisfying attempts to fingerprint Auricularia polytricha, two different molecular maker systems—Inter-Simple Sequence Repeats (ISSR) and Sequence-related amplified polymorphism (SRAP)—were established and tested to quantify molecular diversity among 19 strains of this fungus. A total of 202 (99.0%) and 459 (95.9%) polymorphic bands were detected by 13 ISSR primers and 14 SRAP primer combinations, respectively. By parsimony method, a phylogenetic tree was constructed based on each analysis; the two trees show that 19 A. polytricha strains were distributed into five or four groups. These results demonstrated that both methods were suitable for discriminating among strains of A. polytricha, and the novel SRAP markers are more efficient and preferable. The result also indicated the high level of genetic diversity of A. polytricha and their relationship between each other. These findings would benefit future research in A. polytricha, especially in breeding and medicine development. It also gives a useful method for fingerprinting of other fungi.     

Pathogenicity Confirmation of Ganoderma Disease of Coconut Using Early Diagnosis Technique

The pathogenicity and diagnostic methods were standardized for Ganoderma disease of coconut. The pathogenicity of Ganoderma lucidum isolated from coconut was tested using six types of inoculation techniques. Two diagnostic methods, viz. indirect enzyme‐linked immunosorbent assay (ELISA) and polymerase chain reactions (PCR) were applied for the confirmation of pathogenicity in coconut seedlings. Polyclonal antibodies (PAbs) were raised against mycelial, basidiocarp and specific proteins of Ganoderma and used for detection of Ganoderma in inoculated seedlings through indirect ELISA technique. All the three PAbs could detect Ganoderma in diseased coconut root tissues in early stage of the disease before symptom expression by indirect – ELISA at the antiserum dilution of 1 : 1000 for mycelial protein, 1 : 700 for Ganoderma specific protein and 1 : 3000 for basidiocarp protein. Low cross‐reactions were observed with saprophytic fungi occurring in coconut roots and also with other basidiomycetous fungi. In PCR, primers Gan1 and Gan2 generated from internal transcribed spacer region of rDNA were used the detection that produced a product of 167‐bp size in Ganoderma infected plants. In the present investigation, spawn inoculum responded earlier within 8 weeks compared with other methods of inoculation as expressed by OD value in ELISA test. This was also confirmed by PCR technique. The combination of these two diagnostic methods for detection of Ganoderma infection was highly reliable, rapid and sensitive.     

Nucleic acid based detection technique for Ganoderma lucidum in coconut

Basal stem rot caused by Ganoderma lucidum is the most serious disease in coconut and arecanut gardens. Twenty-five Ganoderma isolates were collected from different parts of India and the pathogenicity of Ganoderma was proved on coconut seedlings. Mature sporophores developed within 10–13?weeks after inoculation of pathogen under in vivo. To detect the pathogen at early stage, DNA-based technology, polymerase chain reaction was used. In this, the primers Gan1 and Gan2 produced a product of 167?bp in size for all the Ganoderma isolates tested. Simultaneously, ITS 1 and ITS 4 primers amplified a fragment of 680?bp in the Ganoderma isolates. In addition, Ganoderma isolates showed polymorphism in the random amplified polymorphic DNA analysis.     

Development of a simple and efficient transformation system for the basidiomycetous medicinal fungus Ganoderma lucidum

In this study, we report the development of a simple and efficient system for genetic transformation of the medicinal fungus Ganoderma lucidum. Various parameters were optimized to obtain successful Agrobacterium tumefaciens-mediated transformation. Co-cultivation of bacteria and protoplast at a ratio of 1,000:1 at 25°C in medium containing 0.2 mM acetosyringone was found to be the optimum condition for high efficiency transformation. Four plasmids, each carrying a different promoter driving the expression of an antibiotic resistance marker, were tested. The construct carrying the Ganoderma lucidum glyceraldehyde-3-phosphate dehydrogenase (GPD) promoter showed good transformation efficiency, whereas constructs with the GPD promoter from ascomycetes were ineffective. Our analysis showed that over 70% of the transformants tested remained mitotically stable even after five successive rounds of subculturing. We were able to detect the expression of EGFP and GUS reporter genes in the Ganoderma lucidum transformants by fluorescence imaging and histochemical staining assays respectively. Our results demonstrate a new transgenic approach that will facilitate Ganoderma lucidum research.     

Tea waste as a supplement for the cultivation of <Emphasis Type="Italic">Ganoderma</Emphasis> <Emphasis Type="Italic">lucidum</Emphasis>

Tea waste (TW) was investigated as a new supplement for substrate mixtures in Ganoderma lucidum cultivation. The effects of sawdust (S) based substrates supplemented with TW at the various levels (75S:25TW, 80S:20TW, 85S:15TW, and 90S:10TW) and Ganoderma lucidum strains on yield, biological efficiency (BE) and the chemical composition of fruiting bodies were determined in solid-state fermentation. Significant differences were found among substrates regarding yield and BE, while yield and BE of the strains were not different. The substrate formulations producing highest yield and BE were 80S:20TW (87.98 g/kg substrate and 34.90%) and 75S:25TW (82.30 g/kg substrate and 31%). Yield and BE of substrates containing TW were generally higher than that of the control (80sawdust:18wheat bran:1sucrose:1 CaCO₃). Nitrogen, potassium, iron, and manganese contents and C:N ratios of substrates were strongly correlated with yield. BE showed positive and significant correlations with potassium, iron and manganese. Moisture content, potassium, magnesium, calcium, iron, and zinc contents of the fruiting bodies were affected by both strain and substrate. It was concluded that TW can be used as a supplement for substrate preparation in G. lucidum cultivation.     

Analysis of genetic diversity among Chinese <Emphasis Type="Italic">Pleurotus citrinopileatus</Emphasis> Singer cultivars using two molecular marker systems (ISSRs and SRAPs) and morphological traits

To evaluate the genetic diversity of Pleurotus citrinopileatus Singer cultivars in China, 20 P. citrinopileatus strains were analyzed using morphological traits, inter-simple sequence repeat (ISSR) and sequence-related amplified polymorphism (SRAP) molecular markers. Eleven ISSR primers amplified a total of 116 DNA fragments of which 96 (82.91%) were polymorphic, whereas 8 SRAP primer pairs amplified 69 fragments of which 65 (93.47%) were polymorphic. Phylogenetic trees constructed on the basis of ISSR, SRAP, and combined ISSR/SRAP analyses using the Unweighted Pair-group Method with Arithmetic Averages method distributed the 20 strains into three or six major groups. The grouping exhibited great similarity and was generally consistent with their morphological characters and antagonism test, which indicated a high level of genetic diversity among P. citrinopileatus Singer and relationship between each other. Based on the genetic analysis, the primary mini-core strains were constructed with progressive sampling method of the smallest genetic distance. The mini-core germplasm collection included 4 strains (strain 2, 5, 7 and 11). Our findings will provide a scientific fundament for facilitating parent selection for broadening genetic base, accelerating the genetic breeding, identification of cultivated strains and the development of bioactive products from this commercially important medicinal mushroom.     

Hydrogen‐rich water regulates effects of ROS balance on morphology,growth and secondary metabolism via glutathione peroxidase in Ganoderma lucidum

Ganoderma lucidum is one of the most important medicinal fungi, but the lack of basic study on the fungus has hindered the further development of its value. To investigate the roles of the redox system in G. lucidum, acetic acid (HAc) was applied as a reactive oxygen species (ROS) stress inducer, and hydrogen‐rich water (HRW) was used to relieve the ROS stress in this study. Our results demonstrate that the treatment of 5% HRW significantly decreased the ROS content, maintained biomass and polar growth morphology of mycelium, and decreased secondary metabolism under HAc‐induced oxidative stress. Furthermore, the roles of HRW were largely dependent on restoring the glutathione system under HAc stress in G. lucidum. To provide further evidence, we used two glutathione peroxidase (GPX)‐defective strains, the gpxi strain, the mercaptosuccinic acid (MS, a GPX inhibitor)‐treated wide‐type (WT) strain, and gpx overexpression strains for further research. The results show that HRW was unable to relieve the HAc‐induced ROS overproduction, decreased biomass, mycelium morphology change and increased secondary metabolism biosynthesis in the absence of GPX function. The gpx overexpression strains exhibited resistance to HAc‐induced oxidative stress. Thus, we propose that HRW regulates morphology, growth and secondary metabolism via glutathione peroxidase under HAc stress in the fungus G. lucidum. Furthermore, our research also provides a method to study the ROS system in other fungi.     

Dual sgRNA-directed gene deletion in basidiomycete Ganoderma lucidum using the CRISPR/Cas9 system

Ganoderma lucidum is an important medicinal mushroom in traditional Chinese medicine. However, the lack of adequate genetic tools has hindered molecular genetic research in and the genetic modification of this species. Here, we report that the presence of an intron is necessary for the efficient expression of the heterologous phosphinothricin-resistance and green fluorescent protein genes in G. lucidum. Moreover, we improved the CRISPR/Cas9-mediated gene disruption frequency in G. lucidum by adding an intron upstream of the Cas9 gene. Our results showed that the disruption frequency of the orotidine 5’-monophosphate decarboxylase gene (ura3) in transformants containing the glyceraldehyde-3-phosphate dehydrogenase gene intron in the Cas9 plasmid is 14–18 in 10⁷ protoplasts, which is 10.6 times higher than that in transformants without any intron sequence. Furthermore, genomic fragment deletions in the ura3 and GL17624 genes were achieved via a dual sgRNA-directed CRISPR/Cas9 system in G. lucidum. We achieved a ura3 deletion frequency of 36.7% in G. lucidum. The developed method provides a powerful platform to generate gene deletion mutants and will facilitate functional genomic studies in G. lucidum.     

Fingerprint analysis of Lingzhi (<Emphasis Type="Italic">Ganoderma</Emphasis>) strains by high-performance liquid chromatography coupled with chemometric methods

A high-performance liquid chromatography (HPLC)-based system has been developed for generating chemical fingerprints of Lingzhi (Ganoderma). Data were evaluated statistically using hierarchical cluster analysis (HCA) and discriminant analysis (DA) in order to classify the samples and to identify key categorizing parameters. Fifteen representative Lingzhi strains (13 Ganoderma lucidum strains and one strain each of G. sinense and G. resinaceum), were separated into three groups using HCA at a rescaled distance of 10, thereby confirming divisions based on morphological characteristics. Furthermore, the 13 G. lucidum strains were separated into three groups at a rescaled distance of 5, which was consistent with previous results based on antagonism tests. Two types of discriminant functions were generated using six selected predictor variables. To our knowledge, this is the first demonstration of the feasibility and advantages of employing chromatographic fingerprinting, combined with HCA and DA, for the accurate identification and validation of feedstock strains used in the production of Lingzhi-based health foods and supplements.     

<Emphasis Type="Italic">Ganoderma </Emphasis>diseases of perennial crops in India – an overview

The species of Ganoderma recorded from India as causing diseases of perennial crops are listed, and their host range and taxonomy discussed. Four new hosts of G. lucidum are also reported. A decline in productivity and the death of trees are the main economic impacts due to Ganoderma diseases, and the fungus is identified as a serious pathogen of cash crops, forest plantations and trees in natural forests in the country. Ganoderma diseases have been recorded on 144 hosts in India, the major pathogens being G. lucidum and G. applanatum. G. lucidum has been recorded on 91 hosts, and appears to cause the most widespread diseases. Identification has largely been made from morphological and cultural characters, and the names currently in use should therefore be treated with caution. Cultural methods of disease control are largely inefficient in minimising inoculum pressure and in reducing the disease incidence. Chemical methods in combination with soil amendments form short-term solutions for managing the disease and improving productivity. The immediate priorities for developing an efficient management system for Ganoderma diseases in India are: (1) a thorough understanding of the etiology and epidemiology of the diseases on different hosts, (2) clarifying current ambiguity in species names, (3) assessing the inter-relationships between populations of Ganoderma on different hosts and (4) developing tools for early detection of diseases in important crops.     

Development of strain-specific SCAR markers for authentication of Ganoderma lucidum

In this study we report the application of sequence-characterized amplified region (SCAR) markers in Ganoderma lucidum for strain identification, the first such study in this medicinal mushroom. One fragment unique to strain No. 9 was identified by inter-simple sequence repeats (ISSR), and then sequenced. Based on the specific fragment, one SCAR primer pair designated as GL₆₁₂F and GL₆₁₂R was designed to amplify a 612-bp DNA fragment within the sequenced region. Diagnostic PCR was performed using the primer pair. The results showed that this SCAR marker can clearly distinguish strain No. 9 from other related Ganoderma lucidum strains. Our data provided the foundation for a precise and rapid PCR-based strain-diagnostic system for Ganoderma lucidum.     

Elucidating wood decomposition by four species of Ganoderma from the United States

The laccate (shiny or varnished) Ganoderma contain fungi that are important wood decay fungi of living trees and decomposers of woody debris. They are also an important group of fungi for their degradative enzymes and bioprocessing potential. Laboratory decay microcosms (LDMs) were used to study the relative decay ability of G anoderma curtisii, Ganoderma meredithiae, Ganoderma sessile, and G anoderma zonatum, which are four commonly encountered Ganoderma species in the U.S., across four wood types (Pinus taeda, Quercus nigra, Q uercus virginiana, and Sabal palmetto). Generally, all Ganoderma species were able to decay all types of wood tested despite not being associated with only certain wood types in nature. G. sessile, on average caused the most decay across all wood types. Among the wood types tested, water oak (Q. nigra) had the most mass loss by all species of Ganoderma. Scanning electron microscopy was used to assess micromorphological decay patterns across all treatments. All Ganoderma species simultaneously decayed wood cells of all wood types demonstrating their ability to attack all cell wall components. However, G. zonatum caused selective delignification in some sclerenchyma fibers of the vascular bundles in palm (S. palmetto) as well as in fibers of water oak. In addition, G. zonatum hyphae penetrated fibers of palm and oak wood causing an unusual decay not often observed in basidiomycetes resulting in cavity formation in secondary walls. Cavities within the secondary walls of fibers gradually expanded and coalesced resulting in degradation of the S2 layer. Differences in colony growth rates were observed when Ganoderma species were grown on medium amended with water soluble sapwood extracts from each wood type. G. meredithiae had enhanced growth on all media amended with sapwood extracts, while G. curtisii, G. sessile and G. zonatum had slower growth on loblolly pine extract amended medium.     

Efficient biosynthesis of antitumor ganoderic acid HLDOA using a dual tunable system for optimizing the expression of CYP5150L8 and a Ganoderma P450 reductase

Ganoderic acid 3-hydroxy-lanosta-8,24-dien-26-oic acid (GA-HLDOA), an antitumor triterpenoid from the traditional Chinese medicinal higher fungus Ganoderma lucidum, is considered as a key precursor for biosynthesizing other ganoderic acids (GAs) with superior antitumor activities. Our previous study identified CYP5150L8 from G. lucidum as a lanosterol oxidase, and achieved heterologous biosynthesis of GA-HLDOA in Saccharomyces cerevisiae. However, low production of GA-HLDOA in either G. lucidum or heterologous host hindered its further investigation and application. In this study, we constructed a dual tunable system for balancing the expression of CYP5150L8 and a Ganoderma P450 reductase iGLCPR, and performed a comprehensive optimization of CYP5150L8 expression, iGLCPR expression, and glycerol usage. Then, we investigated the fermentation behavior of the best strain in optimized condition in flask and achieved 154.45 mg/L GA-HLDOA production, which was 10.7-fold higher compared with previous report. This study may facilitate the wide-spread application of GA-HLDOA and the discovery of unknown cytochrome P450s in downstream GAs biosynthesis.     

Distribution of free and esterified ergosterols in the medicinal fungus <Emphasis Type="Italic">Ganoderma lucidum</Emphasis>

The fruiting bodies, spores, and lipid from the spores of Ganoderma lucidum have been widely used for medicinal purpose in China. Ergosterol content may be a suitable marker for evaluating the quality of ganoderma spore and ganoderma spore lipid (GSL) products. A gradient reversed-phase high-performance liquid chromatography method was developed for the simultaneous determination of free and esterified ergosterols in G. lucidum. The contents of free and esterified ergosterols in the different parts (the stipe, pileus, tubes, and spores) of G. lucidum and GSL were determined. The results showed that total ergosterol levels in the stipe, pileus, tubes, and spores of G. lucidum were between 0.8 and 1.6 mg/g. The relative abundances of free to esterified ergosterol were different in the different parts of G. lucidum. The spores and the tubes, the hymenophore tissue that contains the spore-producing cells, have a considerably higher percentage of ergosteryl esters (41.9 and 39.7% of total ergosterol) in comparison with the pileus and stipe tissues (3.6 and 6.2%).     

Molecular Phylogeny Analysis and Species Identification of Dendrobium (Orchidaceae) in China

Dendrobium plants are important commercial herbs in China, widely used in traditional medicine and ornamental horticulture. In this study, sequence-related amplified polymorphism (SRAP) markers were applied to molecular phylogeny analysis and species identification of 31 Chinese Dendrobium species. Fourteen SRAP primer pairs produced 727 loci, 97% of which (706) showed polymorphism. Average polymorphism information content of the SRAP pairs was 0.987 (0.982–0.991), showing that plenty of genetic diversity exists at the interspecies level of Chinese Dendrobium. The molecular phylogeny analysis (UPGMA) grouped the 31 Dendrobium species into six clusters. We obtained 18 species-specific markers, which can be used to identify 10 of the 31 species. Our results indicate the SRAP marker system is informative and would facilitate further application in germplasm appraisal, evolution, and genetic diversity studies in the genus Dendrobium.     

Genetic diversity analysis of <Emphasis Type="Italic">Monascus</Emphasis> strains using SRAP and ISSR markers

In this study, sequence-related amplification polymorphism (SRAP) and inter-simple sequence repeat (ISSR) were analyzed for accessing the genetic diversity of 37 Monascus isolates and 14 control strains. According to the dendrogram produced by SRAP data, all the tested strains were grouped into four clusters at a 78% similarity level. Comparatively, 51 tested strains were divided into four major groups at a similarity level of 74% based on the dendrogram generated via ISSR marker analysis. Based on the two sets of dendrograms, Monascus aurantiacus, M. purpureus, M. serorubescens, M. anka, and M. ruber were clustered in the same clade; M. albidus, M. fuliginosus, and M. barkeri were clustered with M. pilosus in a second clade; and M. lunisporas and M. argentinensis occurred together in a third cluster distinct from the other Monascus species. The cluster result produced by SRAP data shared great similarity with that by ISSR data with minor differences in the subgroups, which is basically in agreement with morphological observations. In general, SRAP and ISSR are more simple, rapid, and efficient, which may provide alternative molecular approaches to studying genetic diversity, classification, and identification of Monascus strains.     

A comparison of in vitro anticancerous activity and mechanism of ethanolic extracts from different Ganoderma genus

Five ethanolic extracts from the mycelia of Ganoderma lucidum, G. tsugae, G. oerstedii, G. subamboinense, and G. resinaceum were respectively studied on their anticancerous activities against leukemic HL-60 cell line in vitro. Results showed that all five extracts potently inhibited HL-60 proliferation. The extract from G. lucidum mycelia exerted the highest activity. Annexin V/PI bivariate flow cytometric analysis further revealed that the five extracts significantly induced early apoptosis in HL-60 cells. The results illustrate that not only G. lucidum but also other Ganoderma species can inhibit cancer cells, and their mechanisms are related to induction of apoptosis. __________ Translated from Journal of Shanghai Normal University (Natural Sciences), 2005, 34(2): 77–81 [译自: 上海师范大学学报 (自然科学版), 2005, 34(2): 77–81]