Versa doc imaging system version 1000

10 µl of the 25 µl of PCR products were analysed by agarose gel electrophoresis with ethidium bromide (2% agarose gels, 100V, for 1 h in 1x TAE buffer). Images of the gels were analysed and archived using Versa Doc Imaging System version 1000 (Bio-Rad Laboratories, Hercules, USA). The patterns obtained from the electropherograms were converted and analysed using the Quantity One software package, version 4.3.1 (Bio-Rad, San Francisco, CA, USA).The band positions in each gel were normalised using the DNA ladder. Band matching and isolate similarity was accomplished using the Dice band-based coefficient of similarity. A dendrogram was constructed using the unweighted pair group method with arithmetic averages (UPGMA).

Strains with identical sizes and numbers of well-defined bands in the gels were considered to be genetically indistinguishable and were assigned to the same type. Strains with banding patterns that differed by up to two bands were considered to be closely related and were described as subtypes. Strains with banding patterns that differed by three or more bands were considered to be different types. Cluster analysis was performed using Versa Doc Imaging System version 1000 (Bio-Rad) with Quantity One software ( version 4.4.0). DNA relatedness was calculated by the band-based Dice coefficient with a setting of 2% band tolerance using the unweighted pair group method with mathematical averaging (UPGMA) (Fig. 2b).
The discriminatory power (D) of the MSP-PCR method using the (GACA)₄ primer, calculated for T. ajelloi was determined using Simpson’s index diversity (11 (link)):
where:
The (D) value range was from 0 to 1. Values close to 1 indicated the high discriminatory power of the analyzed method.
The correlation index (r) (Table 4) was calculated to determine the relationship between the frequency of species of keratinophilic fungi and soil properties and also between genetic variations in the T. ajelloi isolates from various soils and the properties of the soils. Arstat software was used for calculations.

The polymerase chain reaction melting profiles (PCR MP) procedure was used to assess the genomic diversity of the isolated E. coli. The PCR MP was carried out as described in Krawczyk et al. [38 (link)]. Amplified genomic DNA fragments were separated using polyacrylamide gel electrophoresis (6%) in 1×TBE buffer and stained with ethidium bromide. Images of the gels were analyzed and archived using the Versa Doc Imaging System version 1000 (Bio-Rad Laboratories, Hercules, USA). Dendrogram was generated by the Dice Coefficient (DC) with UPGMA method and with a setting of 1% band tolerance (FPQuest TM software, BioRad; version 4.5).