Selection of sample collection points
186 fluid raw milk samples (250 ml) were collected where 169 Samples were from fluid-milk marketing points of Chittagong city: Shikalbaha, Sholoshahar Railway Station, Jalalabad Market, Chittagong City Gate, Halishahar, Chittagong Port and Chittagong Batali Road and other 17 samples were from a dairy farm located in Shikalbaha September 2013 to March 2014.
Procedure of sampling
The samples were directly collected from the bulk sources of incoming fluid raw milk through proper mixing with the help of a plunger and dipper aseptically in a clean sterile bottle. Soon after collection the sample was kept into a cool box for ceasing the growth and activity of acid producing organisms and for shipment to the Department of Microbiology and Veterinary Public Health laboratory of Chittagong Veterinary and Animal Sciences University (CVASU), where the samples were kept at 0°C until investigation.
Bacteriological investigation
Serial dilution was carried out for the initial screening of E. coli of the collected samples. 100µl of each milk sample was transferred to 900 µl sterile peptone water (0.1%) and thoroughly mixed to give 1:10 dilution, the ‘first dilution’; serial dilutions were prepared by transferring one ml from first dilution (10-1) to 9 ml peptone water, (10-2) and so on (10-3, 10-4, …) as described by
Harrigan and McCance (1976). Then each diluted milk sample (100 µl) was inoculated onto MacConkey agar medium (Oxoid, Basingstoke, Hampshire, UK), where
E. coli produces large pink colour colony after incubation of 24 hrs at 37°C.
MacConkey agar medium was prepared according to the manufacturer instructions. Five large pink coloured cross-sectional colonies from MacConkey agar medium were homogenized and inoculated onto an Eosin Methylene Blue (EMB) (Oxoid, Basingstoke, Hampshire, UK) agar plate, incubated at 37°C for 24 h to verify whether such population produced colonies with metallic sheen, a diagnostic criterion for
E. coli. (Dyes Eosin Y and Methylene Blue react with products released by
E. coli from lactose or sucrose as carbon and energy source, forming metallic green sheen.) The isolates from MacConkey produced metallic sheen on EMB were considered as probable
E.coli. A portion of a colony displaying characteristic metallic sheen on EMB was inoculated into TSB (Trypticase Soya Broth) broth, incubated at 37°C for 20 h and finally tested for standard biochemical tests for
E. coli,
e.g Catalase test, Indole, Methyl red, Voges-Proskauer test, Nitrate reduction, Urease production, Simmon’s citrate agar and various sugar fermentation tests. When a broth culture in TSB gave typical reaction was finally deduced as
E. coli and then preserved at -80°C with 15% glycerin.
CT-SMAC (Oxoid, Basingstoke, Hampshire, UK) agar added with cefixime tellurite, which is a selected medium for EHEC O157, was initially used in this study to screen any probable
E. coli O157 which is incapable of fermenting sorbitol and thus produces colorless colonies on medium. CT-SMAC was prepared according to the manufacturer’s instructions. Briefly, 25.75gm sorbitol MacConkey agar was weighed, mixed with 500 ml of distilled water and autoclaved. The medium in the flask was then placed in a hot water bath until become cooled to 50°C when 2 ml of cefixime tellurite (potassium tellurite 1.25mg and cefixime 0.05mg) was added to it. Cefixime-tellurite (CT) added medium was poured into petridishes at the amount of about 20 ml medium per petridish and the medium in petridishes are preserved at +4°C before the use, as recommended.
Growth of a probable EHEC O157 colony on a CT-SMAC agar plate was presumptively diagnosed if it was slightly transparent, colorless with a weak pale brownish appearance and with a diameter of 1mm. Five such cross-sectional colonies were picked up and transferred to a 10 ml test tube containing 5 ml of tryptic soy broth (TSB), incubated at 37°C for 6 h and preserved at -80°C with 15% glycerin until investigation, for observing more diversity at molecular level.
Screening the E. coli isolates of milk origin for the virulence genes - hlyA, stx1, stx2, eaeA and rfbE
The diversity of all the probable EHEC isolates as found producing colorless colonies on CT-SMAC were investigated based on the presence of five virulent genes - hlyA, stx1, stx2, eaeA and rfb by Polymerase Chain Reactions (PCR). The sequences of five oligonucleotide sets of primers, respectively, used for hlyA, stx1, stx2, eaeA and rfbE genes are shown in Table 1. The reagents used for their PCR amplifications are listed in Table 2.
After thawing in room temperature, the preserved isolates were inoculated onto 5% citrated bovine blood agar and then incubated at 37°C for 24 hours. After that, 200 µl deionized water was taken in 1.5 ml Eppendorf tube for each isolate. With the help of an inoculating loop, a loop-full of fresh colonies were picked up and transferred to the Eppendorf tube. A homogeneous cell suspension was made. It was vortexed, boiled at 99°C for 15 minutes and then immediately placed upon ice. Bacterial cell wall breaks down during boiling and DNA is released. A ventilation hole was made in the lid of the Eppendorf tube using a needle. The boiled suspension was then centrifuged at 15000 rpm for 2 minutes and 100 µl of supernatant was taken in another Eppendorf tube. This collected supernatant was used as DNA template. According to the manufacturer’s instructions, a stock solution containing 100 Pmol of each primer was prepared by adding molecular grade water. Working solution having 20 Pmol concentrations of the primers were used in PCR.
The master mix for PCR of a gene was prepared according to the number of samples to be tested at a time. The proportions of different reagents used to prepare master mix for five different genes are shown in Table 3. Each PCR reaction was run with a final volume of 50 μl where 49 μl of master mix was added to 1 μl of DNA template. The readymade master mix containing Dream Taq DNA polymerase, dNTPs set, Dream Taq buffer (containing 20 mM Mgcl2) was also used to prepare PCR reaction mixture for PCR assay.
PCR assays
PCR was run on a thermocycler (Applied Biosystem, 2720 thermal cycler, Singapore). The reactions conditions for the hlyA, stx1 and stx2 genes are listed in Table 4. The same reaction conditions were also used for the eaeAand rfbE genes.
After the PCR amplification gel electrophoresis was performed. For gel electrophoresis a gel tray was prepared and proper set up was made by placing comb in position. Then 1% agarose solution (Seakem® Le agarose-Lonza) was prepared in 1x TE buffer by boiling on a microwave oven for 2 minutes. To make 1% agarose solution 50 μg of agarose powder was added to 50 ml of 1x TE buffer. The agarose was cooled to 40-50°C in a water bath and 1 drop of ethidium bromide with a concentration of 5 μg/ml ethidium bromide was added. Finally, the agarose was poured into the gel tray and allowed 20 minutes to solidify the gel.
An electrophoresis tank which was filled up with 1x TE buffer and then the gel was placed into it with the gel tray. Then the comb was removed carefully so that it could produce smooth holes in gel. After that 5 μl of each PCR product for a gene was mixed with approximately 1 μl of a loading dye (Thermo Scientific, fermentas international Inc) and loaded into a gel-hole. First hole was loaded with 1 kb DNA marker (O’Gene Rular 1 kb plus) to compare the amplicon size of a gene product. PCR product was loaded from the second hole.
Electrophoresis was done at 110 volts, 80 Amp for 20 minutes; gel was placed in a water bath for rinsing and examined on a UV trans illuminator (BDA digital, biometra GmbH, Germany). DNA product sizes of 165, 614, 779, 881 and 259 bp were considered for the presence
of hlyA, stx1, stx2, eaeAand
rfbEgene, respectively.