Genetic diversity of Trichoderma atroviride strains collected in Poland and identification of loci useful in detection of within-species diversity

Folia Microbiologica
Dominik SkonecznyGrzegorz Bartoszewski

Abstract

Molecular markers that enable monitoring of fungi in their natural environment or assist in the identification of specific strains would facilitate Trichoderma utilization, particularly as an agricultural biocontrol agent (BCA). In this study, sequence analysis of internal transcribed spacer regions 1 and 2 (ITS1 and ITS2) of the ribosomal RNA (rRNA) gene cluster, a fragment of the translation elongation factor 1-alpha (tef1) gene, and random amplified polymorphic DNA (RAPD) markers were applied to determine the genetic diversity of Trichoderma atroviride strains collected in Poland, and also in order to identify loci and PCR-based molecular markers useful in genetic variation assessment of that fungus. Although tef1 and RAPD analysis showed limited genetic diversity among T. atroviride strains collected in Poland, it was possible to distinguish major groups that clustered most of the analyzed strains. Polymorphic RAPD amplicons were cloned and sequenced, yielding sequences representing 13 T. atroviride loci. Based on these sequences, a set of PCR-based markers specific to T. atroviride was developed and examined. Three cleaved amplified polymorphic sequence (CAPS) markers could assist in distinguishing T. atroviride strains. T...Continue Reading

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Citations

Aug 10, 2018·Frontiers in Microbiology·László KredicsCsaba Vágvölgyi

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Datasets Mentioned

BETA
KJ786821
KJ786721
KJ786802
KJ786741
KJ786822
KJ786749
KJ786830

Methods Mentioned

BETA
PCR
amplicon sequencing
electrophoresis
RAPD

Software Mentioned

mfold
Sequencher
Tricho BLAST
blastx
CLC Genomic Workbench
ClustalX
OKEY
blastn
NTSYS
RepeatMasker

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