Fingerprint Groups Research Articles

Genetic Variability of Phytopathogenic Fusarium proliferatum Associated with Crown Rot in Asparagus officinalis

Abstract Fusarium proliferatum (teleomorph: Gibberella intermedia) is a causal agent of crown rot of Asparagus officinalis and is one potential fumonisin‐producing species within the genus Fusarium. It colonizes roots and crowns of asparagus plants, but could also be isolated from symptomless asparagus spears. Fusarium proliferatum isolates obtained from perennial asparagus plantings from Austria and Germany were included in a study on detectability and variability of two essential genes of the fumonisin‐gene cluster. Genetic fingerprinting of 45 isolates revealed 14 different fingerprint groups, indicating genetic heterogenicity of F. proliferatum. Most isolates differentiated into three main fingerprint clusters, but no association was found between fingerprint group and origin of the isolates. By gene‐specific PCR it was shown that, in 25 isolates tested, both initial genes of the fumonisin biosynthetic pathway –FUM1, encoding a polyketide synthase and FUM8, a gene for a putative aminoacyl transferase – were detectable. This suggests that these isolates were able to produce fumonisins and could contribute to the detected contamination in originating asparagus spears with this mycotoxin. Thus, early detection of FUM‐genes in F. proliferatum‐colonized asparagus may be suited to prevent uptake of fumonisin contaminated food with the human diet. Restriction fragment length polymorphism analysis (PCR‐RFLP) of the amplified FUM gene fragments revealed little sequence variability, suggesting a conserved structure of these genes within this species. However, sequence analysis confirmed intraspecific nucleotide polymorphisms of these genes.

Diversity of Aspergillus oryzae genotypes (RFLP) isolated from traditional soy sauce production within Malaysia and Southeast Asia

DNA fingerprinting was performed on 64 strains of Aspergillus oryzae and 1 strain of Aspergillus sojae isolated from soy sauce factories within Malaysia and Southeast Asia that use traditional methods in producing “tamari-type” Cantonese soy sauce. PstI digests of total genomic DNA from each isolate were probed using the pAF28 repetitive sequence. Strains of A. oryzae were distributed among 32 genotypes (30 DNA fingerprint groups). Ten genotypes were recorded among 17 A. oryzae isolates from a single soy sauce factory. Genotypes Ao-46 and GTAo-47, represented by 8 and 5 strains, respectively, were isolated from a soy sauce factory in Kuala Lumpur and factories in two Malaysian states. Four strains of GTAo-49, isolated from three soy sauce factories in Malaysia; each produced sclerotia. Two strains were found to be naturally occurring color mutants of NRRL 32623 (GTAo-49) and NRRL 32668 (GTAo-52). Only two fingerprint matches were produced with the 43 DNA fingerprint groups in our database, representing A. oryzae genotypes from Japan, China, and Taiwan. Aspergillus sojae NRRL 32650 produced a fingerprint matching GTAo-9, the only known genotype representing koji strains of A. sojae. No aflatoxin was detected in broth cultures of these koji strains as determined by TLC.

Variability of Heparins and Heterogeneity of Low Molecular Weight Heparins

Chemical and physical characteristics, building blocks, constitutive disaccharides, sulfation degree, and biological activities of heparins (UFHs) and of low molecular weight heparins (LMWHs) obtained by different depolymerization processes are examined comparatively in terms of structure characteristics, content of 1,6-anhydro rings, and other fingerprints. The heterogeneity of different LMWHs depends on different manufacturing processes and on particular specifications of pharmacopoeias. The reported examples prove that the variability among samples of LMWHs manufactured by the same process is quite limited. Most of the variability is derived from the parent UFH. In contrast, fingerprint groups and residues are specific to the depolymerization process and their extent can be roughly controlled through the process parameters.

Diversity of <i>Aspergillus oryzae</i> genotypes (RFLP) isolated from traditional soy sauce production within Malaysia and Southeast Asia

DNA fingerprinting was performed on 64 strains of Aspergillus oryzae and 1 strain of Aspergillus sojae isolated from soy sauce factories within Malaysia and Southeast Asia that use traditional methods in producing “tamari-type” Cantonese soy sauce. PstI digests of total genomic DNA from each isolate were probed using the pAF28 repetitive sequence. Strains of A. oryzae were distributed among 32 genotypes (30 DNA fingerprint groups). Ten genotypes were recorded among 17 A. oryzae isolates from a single soy sauce factory. Genotypes Ao-46 and GTAo-47, represented by 8 and 5 strains, respectively, were isolated from a soy sauce factory in Kuala Lumpur and factories in two Malaysian states. Four strains of GTAo-49, isolated from three soy sauce factories in Malaysia; each produced sclerotia. Two strains were found to be naturally occurring color mutants of NRRL 32623 (GTAo-49) and NRRL 32668 (GTAo-52). Only two fingerprint matches were produced with the 43 DNA fingerprint groups in our database, representing A. oryzae genotypes from Japan, China, and Taiwan. Aspergillus sojae NRRL 32650 produced a fingerprint matching GTAo-9, the only known genotype representing koji strains of A. sojae. No aflatoxin was detected in broth cultures of these koji strains as determined by TLC.

Long-Term Field Release of Bioluminescent Sinorhizobium meliloti Strains to Assess the Influence of a recA Mutation on the Strains' Survival

A field release experiment was carried out to study the fate of the isogenic, firefly luciferase (luc) gene-tagged Sinorhizobium meliloti strains L1 (RecA-) and L33 (RecA+) in the environment. Both strains were released at concentrations of approximately 10(6) cfu g(-1) soil in replicate and randomized field plots, which had been sown with alfalfa (Medicago sativa). The survival of both strains during the following 7 years could be subdivided into three phases: a sharp decline for more than two orders of magnitude within the first 4 months (phase I), followed by fluctuations around an average number of 10(4) cfu g(-1) soil for nearly 4 years (phase II), and a further decline to approximately 60 cfu g(-1) (phase III). At most sampling dates, no significant differences in the survival of both strains were detected, indicating that the recA gene function was dispensable under these environmental conditions. During the field inoculation, both strains were dispersed accidentally by wind in small numbers to noninoculated field plots. Strain L33 established at a concentration of more than 10(3) cfu g(-1) soil with subsequent seasonal fluctuations. Although strain L1 must have been disseminated to a similar extent, it could never be recovered from noninoculated field plots, indicating that the recA mutation interfered with the strain's capability to establish there. At the beginning of the field experiment, an indigenous alfalfa-nodulating population was below the limit of detection. In the following years, however, an indigenous population arose, which finally outcompeted both strains for saprophytic growth and alfalfa nodulation. RecA- strain L1 was outcompeted for alfalfa nodulation slightly faster than its RecA+ counterpart L33. The diversity of the indigenous population was characterized by employing the Enterobacterial Repetitive Intergenic Consensus polymerase chain reaction fingerprint method. Typing of 2731 root nodule isolates revealed a total of 38 fingerprint groups. More than 80% of the isolates could be grouped into six dominant fingerprint groups, indicating that a few dominant bacterial strain types had outcompeted the released strains.

Genetic Diversity of Magnaporthe grisea in China as Revealed by DNA Fingerprint Haplotypes and Pathotypes

AbstractWe determined DNA fingerprint haplotypes and pathotypes of the rice‐blast fungus Magnaporthe grisea collected from 13 areas in China. This DNA fingerprinting analysis, using rep‐PCR, of 381 haplotypes (482 isolates) from China indicated that the M. grisea populations cannot be delineated into region‐specific groups. Analyses of the number of alleles (na), Nei's gene diversity, unbiased genetic distance, and Shannon's Information index among 13 populations showed that clusters were not related to the geographic distance between populations with the exception of the Ningxia (NX) and Jilin (JL) cluster. Among northern populations, NX and JL were more similar to one another than to other populations. Pathogen populations consisting of 121 isolates from China were grouped into 53 pathotypes on the basis of disease reaction in differential rice lines. Isolates assayed for pathotypes were detected based on disease reactions. No correlation was observed between fingerprint groups and pathotypes of the pathogen. High frequency of virulence was found on the rice line Shin2 (Pi‐ks and Pi‐sh) followed by PiNo.4 (Pi‐ta2 and Pi‐sh) and K1 (Pi‐ta), while it was low on Kanto 51 (Pi‐k + ?), K3 (Pi‐kh), and Fujisaka (Pi‐i and Pi‐sh). Virulence was rare on Toride 1 (Pi‐zt and Pi‐sh). Tetep (Pi‐kh + ?) was predicted to be a highly effective, as none of the isolates infected this line. These blast‐resistant rice lines can be used in resistance breeding for the effective management of rice blast in the respective regions of China.

DNA fingerprinting analysis ofPetromyces alliaceus(AspergillussectionFlavi)

The objective of this study was to evaluate the ability of the Aspergillus flavus pAF28 DNA probe to produce DNA fingerprints for distinguishing among genotypes of Petromyces alliaceus (Aspergillus section Flavi), a fungus considered responsible for the ochratoxin A contamination that is occasionally observed in California fig orchards. P. alliaceus (14 isolates), Petromyces albertensis (one isolate), and seven species of Aspergillus section Circumdati (14 isolates) were analyzed by DNA fingerprinting using a repetitive sequence DNA probe pAF28 derived from A. flavus. The presence of hybridization bands with the DNA probe and with the P. alliaceus or P. albertensis genomic DNA indicates a close relationship between A. flavus and P. alliaceus. Twelve distinct DNA fingerprint groups or genotypes were identified among the 15 isolates of Petromyces. Conspecificity of P. alliaceus and P. albertensis is suggested based on DNA fingerprints. Species belonging to Aspergillus section Circumdati hybridized only slightly at the 7.0-kb region with the repetitive DNA probe, unlike the highly polymorphic hybridization patterns obtained from P. alliaceus and A. flavus, suggesting very little homology of the probe to Aspergillus section Circum dati genomic DNA. The pAF28 DNA probe offers a tool for typing and monitoring specific P. alliaceus clonal populations and for estimating the genotypic diversity of P. alliaceus in orchards, vineyards, or crop fields.

Critical value determination on similarity of fingerprints

A chemical or DNA fingerprint can be treated as a multi-dimensional vector. Correlation coefficient between two fingerprints which is easy to understand and simple to compute has been widely used to assess the similarity of fingerprints in chemical and Chinese Medicine. In the process of fingerprint examination, we are often confronted with such question on how to assess whether a new tested fingerprint is qualified or not. Usually, the mean or median fingerprint of a group of representative fingerprints measured accurately is regarded as a standard fingerprint, then correlation coefficient between the standard fingerprint and a new tested fingerprint is calculated. The critical value for the correlation coefficient is for assessment of a new tested fingerprint whether it is qualified or not. In this study, a bootstrap method is used to estimate the sampling distribution of the correlation coefficient between the standard fingerprint and a new tested fingerprint under the hypothesis that the new tested fingerprint belongs to the same group with the fingerprints used to construct standard fingerprint. Furthermore, using the simulated distribution we obtain the corresponding critical value as the criteria for fingerprint examination. This method is illustrated using Chinese Angelica (CA) fingerprint data.

DNA fingerprinting analysis of vegetative compatibility groups in Aspergillus caelatus

Forty-three isolates of Aspergillus caelatus, whose vegetative compatibility groups (VCGs) have been identified, were assessed by DNA fingerprinting using a repetitive sequence DNA probe (pAF28) cloned from A. flavus. Thirteen distinct DNA finger-print groups or genotypes were identified among the 43 isolates. Twenty-four isolates belonging to VCG 1 produced identical DNA fingerprints and included isolates from the United States and Japan. Four other DNA fingerprint groups had multiple isolates sharing identical fingerprints corresponding to VCGs 2, 3, 12 and 13. Eight of the 13 fingerprint groups corresponding to VCGs 4–11 were represented by a single isolate with a unique fingerprint pattern. These results provide further confirmation that the pAF28 probe can distinguish VCGs of species within Aspergillus section Flavi based on DNA fingerprint patterns and that the probe can be used to estimate the number of VCGs in a sample population. Most of the A. caelatus isolates produced fewer restriction fragments and weakly hybridized with the repetitive DNA probe pAF28 compared to hybridization patterns obtained with A. flavus, suggesting less homology of the probe to A. caelatus genomic DNA.

Bacterial contamination of dental chair units in a modern dental hospital caused by leakage from suction system hoses containing extensive biofilm

Within six months of opening of the new Dublin Dental Hospital in September 1998, areas of corrosion were observed on many of the baseplates of the hospital's 103 dental chair units (DCUs) at the site of attachment of the suction hoses. The corroded areas were heavily contaminated with Pseudomonas spp. and related genera posing a risk of cross-infection, particularly for immunocompromised patients. These species were used as marker organisms to investigate the source of the contamination. P. aeruginosa was the predominant species recovered from 41 selected DCU baseplates (61% prevalence), whereas P. putida (46% prevalence) and P. aeruginosa (43% prevalence) were predominant at the attachment ends of 37 selected high-volume suction hoses. Forty-one selected isolates of P. aeruginosa from 13 DCU baseplates, 16 high-volume suction hoses and 12 coarse filter housings (another suction system site) from 19 separate DCUs were serotyped to determine the similarity of isolates at each site. The majority of isolates (68.3%) belonged to serotype O:10, while the remainder belonged to serotypes O:6 (7.3%), O:11 (7.3%), O:14 (9.8%) and O:5/O:16 (7.3%). Of the isolates from DCU baseplates, additional isolates with the same serotype were recovered from other suction system sites in 10/13 (77%) cases. Isolates of only one serotype were recovered from each of the 19 DCUs investigated. Forty-one serotyped isolates were also subject to computer-assisted analysis of SpeI-generated DNA fingerprint profiles, and similarity coefficient (S(AB)s) values were calculated for each pairwise combination of isolate profiles. The data obtained showed that the isolates consisted of two distinct main populations, each containing separate clades corresponding to specific serotypes. Serotype O:6 (three isolates), O:11 (three isolates) and O:5/O:16 (three isolates) belonged to a single strain in each case. Serotypes O:14 (four isolates) and O:10 (28 isolates) belonged to two strains in each case. The two serotype O:10 strains, termed fingerprint groups I (four isolates from three DCUs) and II (24 isolates from 10 DCUs), were the most distantly related of all the strains identified. These findings demonstrated that the hospital DCUs had become colonized with a small number of P. aeruginosa strains, one of which (serotype O:10, fingerprint group II) predominated. These results also confirmed that DCU baseplate contamination was most likely to be due to leakage from suction system hoses at the baseplate attachment sites, probably due to loosening during use. Replacement hose connectors that firmly retained the suction hoses in the attachment sites so that they could not be loosened by movement of the suction hoses solved this problem, and eliminated further contamination of the DCU baseplates.

DNA fingerprinting analysis of vegetative compatibility groups in Aspergillus caelatus

Forty-three isolates of Aspergillus caelatus, whose vegetative compatibility groups (VCGs) have been identified, were assessed by DNA fingerprinting using a repetitive sequence DNA probe (pAF28) cloned from A. flavus. Thirteen distinct DNA fingerprint groups or genotypes were identified among the 43 isolates. Twenty-four isolates belonging to VCG 1 produced identical DNA fingerprints and included isolates from the United States and Japan. Four other DNA fingerprint groups had multiple isolates sharing identical fingerprints corresponding to VCGs 2, 3, 12 and 13. Eight of the 13 fingerprint groups corresponding to VCGs 4-11 were represented by a single isolate with a unique fingerprint pattern. These results provide further confirmation that the pAF28 probe can distinguish VCGs of species within Aspergillus section Flavi based on DNA fingerprint patterns and that the probe can be used to estimate the number of VCGs in a sample population. Most of the A. caelatus isolates produced fewer restriction fragments and weakly hybridized with the repetitive DNA probe pAF28 compared to hybridization patterns obtained with A. flavus, suggesting less homology of the probe to A. caelatus genomic DNA.

Genetic structure of Iranian Pyricularia grisea populations based on rep-PCR fingerprinting

The population structure of the rice blast fungus Pyricularia grisea was analyzed in two major rice-growing provinces of Iran using rep-PCR DNA fingerprinting. A total of 221 monoconidial isolates of the fungus was collected from 12 cultivars at ten regions during 1997–2000. Long-PCR conditions were used to amplify sequences lying between adjacent Pot2 elements. The frequencies of Pot2 lineages (isolates with ≥70% amplicon similarity) and haplotypes within lineages were determined. Phenetic analysis differentiated five Pot2 fingerprint lineages, designated A, B, C, D and E. The most common fingerprint group, Lineage E, was recovered from all rice cultivars sampled and was distributed throughout the region. Haplotype E6, the most common haplotype within lineage E, was recovered from almost all regions. Lineage A, the second most common lineage, was found mainly in the western part of the sampled region. Haplotype A1 was found in most sites in the western province. Lineage A occurred at relatively high frequency on the susceptible local cultivar Binam, suggesting that lineage A is specifically adapted to Binam. To test this hypothesis, 193 additional isolates were recovered from four fields at two sites separated by approximately 100 km. This second, field-specific collection of isolates contained lineages A, C, D, and E. Approximately 64% and 29% of the isolates recovered from Binam (the shared cv. at two sites) grouped into lineages A and E, respectively. The other two susceptible cultivars at these sites were infected by lineage E at frequencies of 100% and 71%. Overall, these data indicated a low level of genetic diversity in the Iranian P. grisea population similar to that reported in other countries.

Differentiation of Isolates of Cotton Root Rot Pathogens Rhizoctonia solani and R. bataticola Using Pathogenicity and RAPD Markers

Twelve isolates of Rhizoctonia solani and fifteen isolates of R. bataticola causing root rot of cotton were studied for their pathogenicity and genetic diversity using RAPD markers. Pathogenicity of these isolates varied when tested on Gossypium arboreum variety RG-8. The similarity value of RAPD profiles in R. solani isolates ranged from 0.35 to 1.00 with an average of 0.67 among all the isolates and in R. bataticola it ranged from 0.27 to 1.00 with an average of 0.63 among all the isolates. Eighteen primers were used to fingerprint the individual isolates. The cluster analysis using unweighted primer group method with arithmetic average could distinguish R. solani and R. bataticola isolates into two separate fingerprint groups.

Population Structure of Magnaporthe grisea from North‐western Himalayas and its Implications for Blast Resistance Breeding of Rice

AbstractNeutral and pathogenicity markers were used to analyse the population structure of Magnaporthe grisea rice isolates from the north‐western Himalayan region of India. Random amplified polymorphic DNA (RAPD)‐based DNA fingerprinting of 48 rice isolates of M. grisea with five primers (OPA‐04, OPA‐10, OPA‐13, OPJ‐06 and OPJ‐19) showed a total of 65 RAPD bands, of which 54 were polymorphic. Cluster analysis of 48 rice isolates of M. grisea on the basis of these 65 RAPD bands revealed the presence of high genotypic diversity and continuous DNA fingerprint variation in the pathogen population. No correlation was observed between RAPD patterns and virulence characteristics of the pathogen. The observed population structure contrasted with presumed clonal reproductive behaviour of the pathogen and indicated the possibility of ongoing genetic recombination in the pathogen population. Analysis of the virulence organization of five RAPD groups (RG1–RG5) using 20 rice genotypes comprising at least 15 resistance genes revealed that no combination of resistance genes would confer resistance against all RAPD fingerprint groups present in the M. grisea rice population. The possible implications of the observed population structure of M. grisea for blast resistance breeding have been discussed.

Aspergillus bombycis genotypes (RFLP) from silkworm cultivation

Eighteen isolates of Aspergillus bombycis from samples of dust, insect frass, and soil collected from eight silkworm rearing facilities in Japan, as well as single silkworm rearing facilities in Indonesia and Malaysia, were subjected to DNA fingerprinting. PstI digests of total genomic DNA from each isolate were probed using the pAF 28 repetitive sequence. Among 18 isolates analyzed, 7 distinct DNA fingerprint groups were identified, including GTAb-2 isolated from rearing facilities in four prefectures of Japan. Aspergillus bombycis isolates share several features in common with domesticated yellow-green aspergilli, the koji molds used in traditional Oriental food fermentations, including a loose and deep colony texture, smoothwalled stipes, and the absence of sclerotia. Although aflatoxin is unknown from koji molds, all isolates of A. bombycis produced B and G aflatoxins. Aflatoxin has been linked to increased virulence in Aspergillus disease of silkworms, and there should be strong selection for aflatoxin production among clonal populations of A. bombycis adapted to silkworm cultivation. A hypothesis is offered that A. bombycis isolates from silkworm cultivation represent highly adapted forms of yet to be discovered “wild” populations that may infect Bombyx mandarina.

Vibrio kanaloae sp. nov., Vibrio pomeroyi sp. nov. and Vibrio chagasii sp. nov., from sea water and marine animals.

The taxonomic position of the fluorescent amplified fragment length polymorphism fingerprinting groups A46 (five isolates), A51 (six isolates), A52 (five isolates) and A53 (seven isolates) obtained in a previous study were further analysed through a polyphasic approach. The 23 isolates were phylogenetically related to Vibrio splendidus, but DNA-DNA hybridization experiments proved that they belong to three novel species. Chemotaxonomic and phenotypic analyses further disclosed several features that differentiate between the 23 isolates and known Vibrio species. The names Vibrio kanaloae sp. nov. (type strain LMG 20539(T) = CAIM 485(T); EMBL accession no. AJ316193; G + C content 44.7 mol%), Vibrio pomeroyi sp. nov. (type strain LMG 20537(T) = CAIM 578(T); EMBL accession no. AJ491290; G +C content 44.1 mol%) and Vibrio chagasii sp. nov. (type strain LMG 21353(T) = CAIM 431(T); EMBL accession no. AJ316199; G + C content 44.6 mol%) are respectively proposed to encompass the five isolates of A46, the six isolates of A51 and the 12 isolates of A52/A53. The three novel species can be distinguished from known Vibrio species by several phenotypic features, including utilization and fermentation of various carbon sources, beta-galactosidase activity and fatty acid content (particularly of 12 : 0, 14: 0, 14 : 0 iso and 16 : 0 iso).

Genetic diversity and virulence pattern in field populations of Pyricularia grisea from rice cultivar Metica-1

Rice blast is a major yield constraint of the irrigated rice in the State of Tocantins, Brazil. The objective of this investigation was to study the phenotypic and genetic diversity within the pathogen population of Pyricularia grisea in samples collected from four individual farms of rice cultivar Metica-1, under epidemic conditions of leaf blast. A set of 87 isolates was tested on 32 rice genotypes including eight international differentials. Considering 80% similarity in virulence, two groups comprising a total of 81 isolates were recognized, independently of the farms from which they were collected. Eighty percent of the isolates pertained to pathotype ID-14, indicating high cultivar specificity and narrow diversity of virulence in the sample population. The virulence in pathogen population on rice cultivars BR-IRGA 409 and Rio Formoso was low. Analysis of P. grisea isolates using rep-PCR with two primer sequences from Pot2 generated fingerprint profiles of one to nine bands. Cluster analysis revealed the occurrence of six fingerprint groups with similarities ranging from 0.09 to 1. There was no straight relationship between virulence of the isolates based on reaction pattern on 32 genotypes and grouping based on Pot2 rep-PCR analysis of P. grisea isolates collected from 'Metica-1'.

RAPD and Pathotype Analyses of Magnaporthe grisea Populations from the north‐western Himalayan Region of India

AbstractUsing random amplified polymorphic DNA (RAPD) analysis, 250 isolates of Magnaporthe grisea collected from the north‐western Himalayan region were separated into 25 DNA fingerprint groups or lineages. Of these 25 groups, 13 were exclusive to isolates obtained from Himachal Pradesh (HP), five from Uttaranchal and one from Jammu and Kashmir (J & K), India. Seven remaining groups were composed of isolates from different locations and 26 isolates could not be classified. Although RAPD analysis revealed high genetic variability among M. grisea populations from HP and J & K, genetic variation was low in the isolates collected from Uttaranchal. DNA fingerprint groups specific to a particular geographical region were also obtained. Pathogen population consisting of 119 isolates from north‐western Himalayan region has been grouped into 52 pathotypes on the basis of disease reaction on international differential rice lines. Highest frequency of virulence was trapped on the rice line Caloro (Pi−ks) followed by NP125 (Pi−? and K‐60 (Pi−kp) while it was lowest on Tadukan (Pi−ta and/or Pi−ta2) and BL‐1(Pi−b and Pi−sh). Virulence was rare on Fukunishiki (Pi−zs). Rice line Tetep (Pi−kh+?) was found to be highly effective in north‐western Himalayan region as none of the isolate could infect this line. These blast resistant rice lines can be used in resistance breeding for the effective management of rice blast in this region of India.

Genetic and phenotypic characterization of isolates of Pyricularia grisea from the rice cultivars epagri 108 and 109 in the State of Tocantins

An epidemic of rice (Oryza sativa) blast occurred on cultivars Epagri 108 and 109 in the municipalities of Lagoa da Confusão and Duerê in the State of Tocantins, during the rice-growing season 1998-99. DNA fingerprinting and virulence phenotype analysis were utilized to determine the diversity of Pyricularia grisea isolates collected from these cultivars in one epidemic year. Rep-PCR analysis of isolates was done by using two primer sequences from Pot2. Two distinct fingerprint groups or lineages were identified among 53 isolates collected from nine different commercial fields. The virulence pattern of isolates retrieved from these two cultivars was analyzed in artificial inoculation tests utilizing 32 genotypes in the greenhouse. A dendrogram constructed from virulence phenotype data showed a single group considering 77% similarity level. The predominant pathotype IB-45 was represented by 47 of the 53 isolates corresponding to 83%. Four other pathotypes (IB-1, IB-9, IB-13 and IB-41) were identified at random among the isolates from these cultivars. There was no relation between rep-PCR grouping and pathotypes. The results showed that the isolates of P. grisea recovered from cultivars Epagri108 and 109 in farmers' fields had narrow phenotypic and genetic diversity. The blast outbreak on these two cultivars one year after their introduction could be attributed to the new pathotype IB-45 or its increase, which was hitherto existing in low frequency.

Common genotypes (RFLP) within a diverse collection of yellow-green aspergilli used to produce traditional Oriental fermented foods

DNA fingerprinting was performed on 72 strains of Aspergillus oryzae and 9 strains of Aspergillus sojae isolated from chu (China) or koji (Japan) mold inoculum used in the production of traditional Oriental fermented beverages or foods including soy sauce, miso, and sake. The cultures were deposited with the ARS Culture Collection (NRRL) between 1909 and 2001. PstI digests of total genomic DNA from each isolate were probed using the pAF28 repetitive sequence. All strains of A. sojae that we examined produced an identical DNA fingerprint and belong to the same DNA fingerprint group (GTAo-9). Strains of A. oryzae were distributed among 41 DNA fingerprint groups, including GTAo-12 represented by 11 strains, GTAo-19 represented by 5 strains, GTAo-5 and GTAo-15 each represented by 4 strains, and GTAo-8, GTAo-17, and GTAo-24 each represented by 3 strains. Thirty-three single strain isolates of A. oryzae produced unique fingerprints. Our data offer evidence suggesting that (1) the successful domestication of A. parasiticus genotypes yielding A. sojae occurred far less frequently than among genotypes of A. flavus var. oryzae; and (2) some Aspergillus genotypes employed in different fermentations and regions were derived from a common ancestral clonal population.