Universally primed polymerase chain reaction analysis of Fusarium avenaceum isolated from wheat and barley in Finland

Twenty-two Fusarium avenaceum isolates from Finnish wheat and barley were analysed using the chain reaction with universal primers (UP-PCR). Each isolate could be distinguished from others by UP-PCR products on polyacrylamide gels. The isolates tested were clustered into two main groups and further into several subgroups by UP-PCR profiles and phylogenetic analyses. The phylogenetic relationships of these groups are discussed. No clear correlation was found between the groups and host plant preference or the geographic origin of F. avenaceum isolates. Pathogenicity tests showed differences between F. avenaceum isolates, but two isolates, one from wheat and the other from barley, were the most aggressive in wheat and barley. This fungus, usually known as a weak pathogen of cereals and other crops, has thus probably not evolved in respect to its ability to damage wheat or barley.

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Single-Strand Conformation Polymorphisms in the hly Gene and Polymerase Chain Reaction Analysis of a Repeat Region in the iap Gene to Identify and Type Listeria monocytogenes

Journal of Food Protection ◽

10.4315/0362-028x-63.3.332 ◽

2000 ◽

Vol 63 (3) ◽

pp. 332-336 ◽

Cited By ~ 6

Author(s):

MARTIN WAGNER ◽

ANGELIKA LEHNER ◽

DIETER KLEIN ◽

ANDREAS BUBERT

Keyword(s):

Polymerase Chain Reaction ◽

Listeria Monocytogenes ◽

Polymerase Chain Reaction Analysis ◽

Single Strand Conformation Polymorphism ◽

Single Strand ◽

Chain Reaction ◽

Pcr Products ◽

Typing Methods ◽

Polymerase Chain ◽

Type 3

Two novel methods that allow the powerful identification of Listeria monocytogenes by polymerase chain reaction (PCR) and simultaneous differentiation by special electrophoresis formats are described. The first method involves a PCR-driven single-strand conformation polymorphism (SSCP-PCR) assay using a portion of the noncoding region of the hly gene. The assay was evaluated with 120 genetically distinct L. monocytogenes strains of either foodborne or clinical origin. Distribution of listerial strains to at least 14 SSCP types was observed. In respect to the panel of strains, 39.7% were assigned to SSCP type 3, and 19% showed SSCP type 5. Further, SSCP type 1 was found in 7.5% of all strains, SSCP type 10 in 6.7%, and 5.8% each for SSCP types 6 and 7. The SSCP types 4, 9, and 11 were infrequently described in 2.55%, 3.3%, and 4.2%, respectively, of all isolates. At least 0.85% represented each of the SSCP types 2, 13, and 14, and 1.7% displayed SSCP types 8 and 12. In the second method, the internal threonine-asparagine repeat portion of the L. monocytogenes p60 protein was used for setting up a PCR-based identification and parallel differentiation assay. Ten different repeat types (RTs), according to different sizes of PCR products, were observed. Of 163 strains tested, 35.58% of samples were assigned to RT 1, 39.26% to RT 2, 3.68% to RT 3, 6.13% to RT 4, 4.29% to RT 5, 2.45% to RT 6, 5.52% to RT 7, 0.61% to RT 8, 0.61% to RT 9, and 1.83% to RT 10. The data suggest that both methods allow the simple identification and differentiation of L. monocytogenes isolates. Therefore, both the SSCP-PCR and the PCR-based identification and parallel differentiation assay could represent single-strand pretyping assays before laborious reference typing methods are applied.

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RANDOM AMPLIFIED POLYMORPHIC DNA (RAPDs) DETECTS PATTERNS OF GENETIC DIVERSITY IN DIPLOID MUSA ACUMINATA COLLA

HortScience ◽

10.21273/hortsci.27.6.660b ◽

1992 ◽

Vol 27 (6) ◽

pp. 660b-660

Author(s):

Robert L. Jarret

Keyword(s):

Random Amplified Polymorphic Dna ◽

Geographic Origin ◽

Morphological Characteristics ◽

Principal Component ◽

Chain Reaction ◽

Banding Patterns ◽

Random Primers ◽

Pcr Products ◽

Polymerase Chain

Patterns of diversity among thirty diploid clones of banana (Musa acuminata Colla.), collected in Papua New Guinea and the surrounding islands between 1987 and 1989, were examined genetically using the polymerase chain reaction (PCR) and random primers, to detect random amplified polymorphic DNA (RAPDs). PCR products were visualized on ethidium bromide stained agarose gels. Twenty of 60 random primers examined detected RAPDS in CTAB-extracted genomic DNA. Banding patterns ranged from very simple (1 or 2 bands/gel) to very complex (more than 20 bands/gel). All 30 Musa clones were distinguishable from each other based on their unique RAPD banding pattern. Principal component analysis (PCA) revealed several clusters of closely related clones within the materials examined. However, these clusterings were not correlated with either the geographic origin or the morphological characteristics of the clones. A role of the use of RAPDs in germplasm characterization is discussed.

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Multiplex Polymerase Chain Reaction Analysis of UV-A– and UV-B–induced Delayed and Early Mutations in V79 Chinese Hamster Cells¶

Photochemistry and Photobiology ◽

10.1562/2004-05-19-ra-174.1 ◽

2005 ◽

Vol 81 (1) ◽

pp. 114 ◽

Cited By ~ 7

Author(s):

Jostein Dahle ◽

Paul Noordhuis ◽

Trond Stokke ◽

Debbie Hege Svendsrud ◽

Egil Kvam

Keyword(s):

Polymerase Chain Reaction ◽

Multiplex Polymerase Chain Reaction ◽

Chinese Hamster ◽

Polymerase Chain Reaction Analysis ◽

Chain Reaction ◽

Chinese Hamster Cells ◽

Polymerase Chain

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Quantitative polymerase chain reaction analysis of cytotoxic cell proteinase gene transcripts in T cells. Pattern of expression is dependent on the nature of the stimulus.

Journal of Biological Chemistry ◽

10.1016/s0021-9258(18)42734-2 ◽

1992 ◽

Vol 267 (8) ◽

pp. 5090-5095 ◽

Cited By ~ 1

Author(s):

J.A. Prendergast ◽

C.D. Helgason ◽

R.C. Bleackley

Keyword(s):

Polymerase Chain Reaction ◽

T Cells ◽

Quantitative Polymerase Chain Reaction ◽

Polymerase Chain Reaction Analysis ◽

Chain Reaction ◽

Cytotoxic Cell ◽

Gene Transcripts ◽

Polymerase Chain

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A Comparative Study of 5S rDNA Non-Transcribed Spacers in Elaeagnaceae Species

Plants ◽

10.3390/plants10010004 ◽

2020 ◽

Vol 10 (1) ◽

pp. 4

Author(s):

Oleg S. Alexandrov ◽

Olga V. Razumova ◽

Gennady I. Karlov

Keyword(s):

Polymerase Chain Reaction ◽

Molecular Markers ◽

Dna Markers ◽

5S Rdna ◽

Chain Reaction ◽

Closely Related Species ◽

Pcr Products ◽

Polymerase Chain ◽

Species Specific ◽

Shepherdia Canadensis

5S rDNA is organized as a cluster of tandemly repeated monomers that consist of the conservative 120 bp coding part and non-transcribed spacers (NTSs) with different lengths and sequences among different species. The polymorphism in the 5S rDNA NTSs of closely related species is interesting for phylogenetic and evolutional investigations, as well as for the development of molecular markers. In this study, the 5S rDNA NTSs were amplified with universal 5S1/5S2 primers in some species of the Elaeagnaceae Adans. family. The polymerase chain reaction (PCR) products of five Elaeagnus species had similar lengths near 310 bp and were different from Shepherdia canadensis (L.) Nutt. and Sh. argentea (Pusch.) Nutt. samples (260 bp and 215 bp, respectively). The PCR products were cloned and sequenced. An analysis of the sequences revealed that intraspecific levels of NTS identity are high (approximately 95–96%) and similar in the Elaeagnus L. species. In Sh. argentea, this level was slightly lower due to the differences in the poly-T region. Moreover, the intergeneric and intervarietal NTS identity levels were studied and compared. Significant differences between species (except E. multiflora Thunb. and E. umbellata Thunb.) and genera were found. Herein, a range of the NTS features is discussed. This study is another step in the investigation of the molecular evolution of Elaeagnaceae and may be useful for the development of species-specific DNA markers in this family.

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