The identification of
E. faecalis and
E. faecium was done using PCR by amplifying D-Ala:D-Ala ligase gene (
ddlE. faecalis and
ddlE. faecium) and VRE was identified by targeting vancomycin-resistant gene (
vanA and
vanB). Primers were purchased from Sigma Genosys (Sigma Aldrich, USA) adapted from a previous study by Kariyama et al. (2000) (
24). DNA was extracted with the help of Wizard® Genomic DNA purification kit (Promega Corporation, USA) according to manufacturer’s instructions. The D-Ala:D-Ala ligase gene was amplified with primers
ddlE. faecalis(F)= ATCAAGTACAGTTAGTCT, and
ddlE. faecalis(R) = ACGATTCAAAGCTAACTG at 941 bp for
E. faecalis whereas the primer
ddlE. faecium (F) = TTGAGGCAGACCAGATTGACG and
ddlE. faecium (R) = TATGACAGCGACTCCGATTCC gave amplicon at 658 bp for
E. faecium.
VanA genes were amplified with primer
vanA-F = GGGAAAACGACAATTGC, and
vanA-R = GTACAATGCGGCCGTTA while
vanB genes were carried out with primer
vanB-F = GTGCTGCGAGATACCACAGA, and
vanB-R = CGAACACCATGCAACATTTC with an amplification of 732 bp and 635 bp respectively.
Biometra T1 Thermocycler (Biometra, Germany) was used for amplification. The cycling conditions were as follows: cycle 1: 95°C for 4 minutes cycle 2 - 30: denaturation, 95°C, 30 seconds, annealing 52°C, 60 seconds, extension, 72°C, 2 minutes with the final extension of 7 minutes. Afterwards, the PCR product was run on 1% agarose gel. DNA ladders (O’Gene Ruler, Thermo Fisher Scientific, UK) of 100 bp and 1 kb were used to compare the amplified fragments. The gel was run for electrophoresis at 100 V for 30 minutes and viewed under Molecular Imager Gel Doc XR+ System, Bio-Rad Laboratories, US.