PubMed · 11634742
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G Traxler. 1973. [Not Available].. https://pubmed.ncbi.nlm.nih.gov/11634742/
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A motif of eight nucleotides (GAATTACA) reiterated 3 to 15 times within the PstI fragment of the pEa29 plasmid was found in Erwinia amylovora strains representing a valuable typing method for this pathogen. The stability of short sequence DNA repeat (SSR) numbers was investigated to determine the suitability of this marker for strain differentiation. The number of SSR units was found to be stable under laboratory and certain stress conditions. This meets the requirements for a suitable genetic marker that should be stable upon cultivation of strains. Therefore, this SSR marker was used for strain differentiation from SSR-3 to SSR-15 and a large number of E. amylovora strains from Austria was screened for their SSR numbers for epidemiological identification purposes. Traceability was possible if strains had very high or very low SSR numbers.
In order to determine to what extent the separate analysis of both copies of DYS385 improves Y-chromosomal short tandem repeat (Y-STR) haplotyping, we followed a recently published protocol for the separate amplification of DYS385a and DYS385b with modifications and compared the results with those obtained by conventional analysis in a population sample comprising 133 unrelated Caucasian males from Austria. Additionally, we typed all markers of the minimal haplotype (minHT) and a set of Y-chromosomal single nucleotide polymorphisms (Y-SNPs) in order to interpret the STR data depending on the Y-SNP haplogroup structure. The separate amplification of DYS385a and b improved the power of discrimination of this marker when compared to the results obtained with the conventional non-locus-discriminating amplification strategy. However, the degree of this improvement varied greatly between different haplogroups and was found to be highest in clade K. In the forensically relevant context of the minHT, the separate analysis of the DYS385 alleles had no effect on the differentiation of paternal lineages in our study. Furthermore, the amplicon lengths of 700-780 base pairs obtained in the course of the locus-discriminating approach restrict the applicability of this amplification strategy to high quality DNA samples.
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