# Neem (Azadirachta indica A. Juss) Oil to Tackle Enteropathogenic Escherichia coli

Authors: Paola Del Serrone; Chiara Toniolo; Marcello Nicoletti
Journal: BioMed Research International
 (2015)

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## Abstract

Neem (Azadirachta indica A. Juss) oil (NO) was assayed against forty-eight isolates of Escherichia coli by standardised disc diffusion test and microdilution test. By molecular biology characterization, fourteen isolates resulted in diarrheagenic E. coli with sixteen primer pairs that specifically amplify unique sequences of virulence genes and of 16S rRNA. The NO showed biological activity against all isolates. The bacterial growth inhibition zone by disc diffusion method (100 µL NO) ranged between 9.50 ± 0.70 and 30.00 ± 1.00 mm. The antibacterial activity was furthermore determined at lower NO concentrations (1 : 10–1 : 10,000). The percent of growth reduction ranged between 23.71 ± 1.00 and 99.70 ± 1.53. The highest bacterial growth reduction was 1 : 10 NO concentration with 50 µL of bacterial suspension (ca. 1 × 106 CFU/mL). There is significant difference between the antibacterial activities against pathogenic and nonpathogenic E. coli, as well as NO and ciprofloxacin activities. Viable cells after the different NO concentration treatments were checked by molecular biology assay using PMA dye. On the basis of the obtained results, NO counteracts E. coli and also influences the virulence of E. coli viable cells after NO treatment. The NO metabolomic composition was obtained using fingerprint HPTLC.


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## Body

## 1. Introduction

Zoonotic food- and waterborne pathogens began resistant to antibiotics. It is now evident that antimicrobial resistance is an environmental problem. Detectable antibiotic residues are present in waste water from water treatment plants [1], and antibiotic-resistant bacteria can be isolated from ground water and soil [2, 3]. The cause of contamination may beinter alia the consequence of farming practices. Use of antibiotics, as growth promoters or for prophylaxis in farm animals, selects resistant strains of enterobacteria in gastrointestinal tract. These resistant strains have been also isolated from food and consequently this represents the main way to spread in the human gastrointestinal tract [4, 5]. The increasing incidence of foodborne diseases, coupled with the resultant social and economic implications, causes a constant striving to produce safer feed and food, as to develop new natural antimicrobial agents [6–8].Meat contamination by pathogen bacteria may have great health consequence and high impact on consumers. The most known cases are related to HUS, hemolytic uremic syndrome, that was first recognized in 1982 in USA and Canada, with outbreaks associated with fast food restaurants. People experienced gastroenteritis with bloody diarrhoea, caused by the lining of their microbiota. In 1993, a multistate outbreak generated international interest in this disease, popularized by the name “hamburger disease.” Hamburger disease is based on association with the consumption of ground beef patties containing a pathogenEscherichia coli. This should not be confused with the related benignE. coli that is in the gut of every mammal. Many strains ofE. coliare part of the nonpathogenic facultative flora of intestinal tract of humans and other mammals. However, some of them induce diseases of the gastrointestinal and urinary tracts or may affect the central nervous system [9].On the basis of their pathogenetic mechanism, diarrheagenicE. coli strains include ETEC (enterotoxigenicE. coli), EIEC (enteroinvasiveE. coli), EHEC (enterohemorrhagicE. coli), EPEC (enteropathogenicE. coli), EAEC (enteroaggregativeE. coli), and DAEC (diffusely adherentE. coli). All of them cause serious economic losses in farm animal herds and are widespread in newborns [10] in developed and developing countries. There is a wide range of transmission possibilities of these pathogens, including direct contact, food, drinks, environment, and others [11]. Epidemiology and clinical symptoms of the disease are similar in various animal species but the majority of strains are species-specific. They differ particularly in the type of the expressed surface “adherence” antigen (adhesin or pilus). These microorganisms produce two main types of virulence factors, that is, adhesins and enterotoxins.In this work, a collection ofE. coli isolates was considered. They were different in geographical origin and source of isolation and showed different pathogenetic characteristics.Consumers look for meat products of upgraded sensory quality and increased functional and nutritional properties, as well as guaranteed safety but yet less processing, and fewer additives or “technological” interventions. Plant derived extracts, or phytocomplex, as effective antimicrobial agents, offer an alternative to synthetic food additives.Neem (Azadirachta indica A. Juss) is considered one of the most promising trees of the 21st century, for its great potential in pest management, environment protection, and medicine [12]. Neem oil (NO) is the most important derived product with a great market worldwide. It contains about one hundred biologically active compounds. The most famous constituents are several nortriterpenes, named limonoids, that is, azadirachtin, nimbin, nimbidin, and nimbolide, besides the predominant oily constituents. NO is the most commercially relevant product obtained from the seeds. The neem cake is remaining after the extraction process.In our previous studies, the antibacterial activity of NO againstE. coliwas investigated [13, 14]. The antibacterial activity resulted highest in comparison to the neem cake extract against meat spoilage microorganisms. The aim of the present work was to evaluate NO capability to cope with plastic genome ofE. coli.


## 2. Materials and Methods

### 2.1. Bacterial Strains and Growth Conditions

Forty-eight strains ofE. coli were considered. Among them, seventeen (FLC isolates) were from microorganism’s collection of the Fodder and Dairy Productions Research Centre of Lodi (CRA FLC) of CRA. They were isolated from milk and cheese. All strains were typed both phenotypically and genotypically. Phenotyping was made by the PhenePlate system forE. coli (PhP-EC, PhPPlate Microplate Techniques AB, Stockholm, Sweden) and genetic characterization by RAPD PCR technique [15].Seventeen CVVI isolates were from microorganism’s collection of the Institute of Veterinary Research and Development of Central Vietnam, Vietnam. These microorganisms were isolated from faeces of calves affected by diarrhoea.Ten NL isolates were from microorganism’s collection of the Department of Bacteriology of Wageningen UR Livestock Research, Wageningen University & Research Centre, Netherlands. They were isolated from faeces of piglets and calves. They are antigenically different and detectable using specific monoclonal antibodies towards different fimbria antigens byin vitro agglutination test [16]. Four reference strains were also considered (DSMZ and ATCC isolates). They were from international culture collections.The cultivation/assay medium forE. coli was Minca + 1% Iso Vitalex Agar/Broth (Sifin, Berlin, Germany). Bacterial cultures for antibacterial testing were prepared by picking colony from 24-hour-old plates and suspending them in the broth medium (5 mL). Cultures were grown aerobically for 18 h at 37°C and 100 rpm. For antibacterial activity assay, 1 mL of each culture was diluted to 105–106 CFU/mL. The reference strains were grown on media and at the growth conditions as reported on products sheets.


### 2.2. Plant Extract

A commercial neem oil produced by Neem Italia (Manerba (BS), Italy) was used as test starting material (0.35% azadirachtin A). Total composition of the neem oil was checked by high performance thin layer chromatography [17].Neem oil was diluted in Tween 80 (1 : 1 V/V; VWR, PBI International, MI, Italy) under agitation and sterilised by filtration through a 0.22μm Millipore express filter (Millex-GP, Bedford, OH, USA) before use in the experiment.


### 2.3. HPTLC Assay

#### 2.3.1. HPTLC System and Materials

The HPTLC system (CAMAG, Muttenz, Switzerland) consisted of (i) Linomat 5 sample applicator using 100μL syringes, connected to a nitrogen tank; (ii) ADC 2 chamber containing twin trough chamber 20 × 10 cm; (iii) immersion device III; (iv) TLC Plate Heater III; (v) TLC visualizer; (vi) TLC scanner 3 linked to winCATS software.Solvents for extraction and HPLC grade solvents were purchased from Sigma-Aldrich and Carlo Erba (Milan, Italy). Glass plates 20 cm × 10 cm with glass-backed layers silica gel 60 (2μm thickness) were from Merck (Darmstadt, Germany). Before use, plates were prewashed with methanol and dried for 3 min at 100°C. Standards used in the HPTLC analysis were isolated from neem cake (i.e., salannin, azadirachtin A, and unsaturated and saturated lipids) in previous research [18] and data concerning isolation and identification are not reported, but they are available per request. Limonoids standards concentration was 2 mM.


### 2.4. Sample Application

Filtered solutions were applied with nitrogen flow. Operating conditions were syringe delivery speed, 10 sμL−1 (100 nL s−1); injection volume, 2 μL; band width, 6 mm; distance from bottom, 15 mm.


### 2.5. Development

The HPTLC plates were developed in toluene : AcOEt 7 : 3 (v/v) as mobile phase (Figure1), in the automatic and reproducibly developing chamber ADC 2, saturated with the same mobile phase for 20 min at room temperature. The developing solvents (i.e., type of solvents and ratios) were carefully optimized before the analyses. The length of the chromatogram run was 80 mm from the point of application. The developed layers were allowed to dry in air for 5 min, derivatized with a selected solution, including p-anisaldheyde (1.5 mL p-anisaldheyde, 2.5 mL H2SO4, and 1 mL AcOH in 37 mL EtOH), dried in the open air, and then dipped into Macrogol reagent (1 g polyethylene glycol 400 in 20 mL of dichloromethane). Finally, the plates were warmed for 5 min at 120°C before inspection. All treated plates were inspected by a CAMAG TLC visualizer under a UV light at 254 or 366 nm or under reflectance and transmission white light (WRT), respectively, before and after derivatization.Figure 1
HPTLC analysis of neem oil EtOAc extract. Mobile phase: toluene : AcOEt 7 : 3 (v/v). Visualization: plate (a) (on the left) white light upper and lower; plate (b) (on the right) UV lamp at 366 nm. Derivatization:p-anisaldheyde. Track 1: neem oil; track 2: salannin.
(a)
(b)


### 2.6. Molecular Biology Characterization of theE. coli Isolates

Two primer pairs that amplify specificE. coli 16S rRNA sequences and fourteen primer pairs that specifically amplify target gene coding for virulence factors (adhesins and toxins) were employed to characterize theE. coli isolates considered in this study (Table 1). The PCR reaction mixtures and conditions are those as reported in the literature (Table 1).Table 1
Primer pairs used to specifically amplify target gene coding for virulence factors (1–9 = toxins; 9–15 fimbriae) ofE. coliand 16S rRNA (16-17).
Target gene coding for virulence factors
Oligonucleotide sequences of primers
Reference
(1) LT
F 5′-ATT TAC GGC GTT ACT ATC CTC-3′R 5′-TTT TGG TCT CGG TCA GAT ATG-3′
[25]
(2) Sta
F 5′-TCC GTG AAA CAA CAT GAC GG-3′R 5′-ATA ACA TCC AGC ACA GGC AG-3′
[26]
(3) STb
F 5′-GCC TAT GCA TCT ACA CAA TC-3′R 5′-TGA GAA ATG GAC AAT GTC CG-3′
[26]
(4) Stx1all
F 5′-CGC TGA ATG TCA TTC GCT CTG C-3′R 5′-CGT GGT ATA GCT ACT GTC ACC-3′
[27]
(5) Stx2all
F 5′-CTT CGG TAT CCT ATT CCC GG-3′R 5′-CTG CTG TGA CAG TGA CAA AAC GC-3′
[27]
(6) Stx2e
F 5-ATG AAG AAG ATG TTT ATA GCG-3′R 5′-TCA GTT AAA CTT CAC CTG GGC-3′
[25]
(7) EAST1
F 5′-CCA TCA ACA CAG TAT ATC CGA-3′R 5′-GGT CGC GAG TGA CGG CTT TGT-3′
[28]
(8) eae
F 5′-GGA ACG GCA GAG GTT AAT CTGCAG-3′R 5′-GGC GCT CAT CAT AGT CTTTC-3′
[27]
(9) hlyA
F 5′-AGCTGCAAGTGCGGGTCTG-3′R 5′-TACGGGTTATGCCTGCAAGTTCAC-3′
[29]
(10) F4 (K88)
F 5′-GCT GCA TCT GCT GCA TCT GGTATG G-3′R 5′-CCA CTG AGT GCT GGTAGT TAC AGC C-3′
[30]
(11) F5 (K99)
F 5′-TGC GAC TAC CAA TGC TTC TG-3′R 5′-TAT CCA CCA TTA GAC GGA GC-3′
[26]
(12) F6 (P987)
F 5′-TCT GCT CTT AAA GCT ACT GG-3′R 5′-AAC TCC ACC GTT TGT ATC AG-3′
[25]
(13) F17
F 5′-GGG CTG ACA GAG GAG GTG GGGC-3′R 5′-CCC GGC GAC AAC TTC ATCACC GG-3′
[30]
(14) F18
F 5′-GTG AAA AGA CTA GTG TTT ATT TC-3′R 5′-CTT GTA AGT AAC CGC GTA AGC-3′
[31]
(15) F41
F 5′-GAG GGA CTT TCA TCT TTT AG-3′R 5′-AGT CCA TTC CAT TTA TAG GC-3′
[26]
(16) E16SI
F 5′-CCCCCTGGACGAAGACTCAC-3′R 5′-ACCGCTGGCAACAAAGGATA -3′
[29]
(17) E16SII
F 5′-AGAGTTTGATGGCTCAG-3′R 5′-GGACTACCAGGGTATCTAAT-3′
[31]The amplification products’ sizes, coordinates, and accession numbers of each primer pair are shown in Table2. Amplified products (7 μL) were analyzed by electrophoresis in 2% or 3% agarose gels buffered in 0.5x TBE (TBE buffer: 90 mM tris(hydroxymethyl)aminomethane, 90 mM boric acid, and 3 mM ethylenediaminetetraacetate Na salt, pH 8.3, Sigma-Aldrich, Milano, Italy) against a 50 bp, 100 bp, and 1 Kb ladder used as size marker (Invitrogen, Milano, Italia) and visualized by UV light at 260 nm (Fotodine 3-3102 Celbio, Milano, Italy) after staining with ethidium bromide (3,8-diamino-5-ethyl-6-phenylphenanthridinium bromide, EtBr, Sigma-Aldrich, Milano, Italy).Table 2
List of primer pairs’ amplification products, coordinates, and accession numbers.
Target gene coding for virulence factors
Amplicon (bp)
Primer coordinates
Accession number
(1) LT
281
27–47, 287–307
S60731
(2) STa
244
267–286, 492–510
M58746
(3) STb
279
515–534, 773–793
AY028790
(4) Stx1all
302
113–134, 394–414
M17358
(5) Stx2all
516
50–69, 543–565
M59432
(6) Stx2e
264
1176–1196, 1419–1439
M36727
(7) EAST1
111
2–24, 94–114
S81691
(8) eae
775
1441–1460, 2193–2215
AF022236
(9) hylA
569
867-885, 1435–1412
X79839
(10) F4 (K88)
792
31–54, 798–822
M29374
(11) F5 (K99)
450
45–64, 475–494
M35282
(12) F6 (P987)
333
193–212, 506–525
M35257
(13) F17
411
289–310, 677–699
AF055313
(14) F18
510
1–23, 490–510
M61713
(15) F41
431
154–173, 565–584
X14354
(16) E16SI
401
1628-170, 2063–2082
AB035924
(17) E16SII
798
8-27, 798–805
J01859


### 2.7. Assessment of Antibacterial Activity

The antibacterial activity of the NO was assayed using standardized disc diffusion agar and microdilution methods. Disc diffusion method was carried out according to the standard method by Bauer et al. [19]. Bacteria cultures adjusted to 0.5 McFarland standard were used to lawn Muller Hinton agar plates evenly using a sterile swab. The agar plates were dried for 15 minutes. The discs impregnated with NO (100 μL) were placed on the agar surface. Each test plate comprises three discs. The discs were placed equidistant to each other. Muller Hinton agar plates were set also up with positive control, which is the antibiotic ciprofloxacin (CFX) (100 μL wt/v) (hydrochloride monohydrate 1 mg/mL, Bayer, Milano, Italy) and Tween 80 (TWN) (VWR International PBI Srl, Milano, Italy, 1 mg/mL) as negative control. The plates were then incubated at 37°C for 18 h. After the incubation, the plates and those considered as controls were examined for inhibition zone. The inhibition zones were then measured using calipers and were recorded. The plates were done in triplicate for each bacterial isolate and the experiment was performed twice. The results were recorded as mean ± S.D. of the duplicate experiment. Differences between means of data were compared by LSD calculated using the SAS.The antibacterial activity of NO was also evaluated using microdilution method in conventional sterile polystyrene microplates (Corning, Euroclone SpA, Milan, Italy). Each well of the microplate was filled with 100μL of sterile suitable liquid media for each bacterial isolate considered, 50 μL of inoculums and amounts of extract at lower concentrations (1 : 10–1 : 10,000) were added. Control treatment without NO was used in the experiment. The microplates were incubated at 37°C for 24 h. Bacterial growth was determined by OD reading at 630 nm/10 mm pathlength with an ELISA microplate reader (Dynatech ML-3000, Pina de Ebro, Spain). Bacterial cell concentration was transformed to cells/mL using the reference curve equation.The reference curve was constructed by diluting at 1 : 100 each bacterial isolate. Counting the number of bacterial cells of an aliquot of this dilution was done using a Neubauer chamber (Celeromics, Vedano al Lambro, MI, Italy). Finally, cell concentrations were transformed to a percentage of bacterial inhibition. The percentage of bacterial growth reduction (GR%) was estimated using as reference the control treatment (T = without extract) as(1)
GR
%
=
C
-
T
C
×
100
.Three replicates were considered. The results were recorded as mean ± S.D. of the duplicate experiment. Differences between means of data were compared by least significant difference (LSD) calculated using the SAS.


## 2.1. Bacterial Strains and Growth Conditions

Forty-eight strains ofE. coli were considered. Among them, seventeen (FLC isolates) were from microorganism’s collection of the Fodder and Dairy Productions Research Centre of Lodi (CRA FLC) of CRA. They were isolated from milk and cheese. All strains were typed both phenotypically and genotypically. Phenotyping was made by the PhenePlate system forE. coli (PhP-EC, PhPPlate Microplate Techniques AB, Stockholm, Sweden) and genetic characterization by RAPD PCR technique [15].Seventeen CVVI isolates were from microorganism’s collection of the Institute of Veterinary Research and Development of Central Vietnam, Vietnam. These microorganisms were isolated from faeces of calves affected by diarrhoea.Ten NL isolates were from microorganism’s collection of the Department of Bacteriology of Wageningen UR Livestock Research, Wageningen University & Research Centre, Netherlands. They were isolated from faeces of piglets and calves. They are antigenically different and detectable using specific monoclonal antibodies towards different fimbria antigens byin vitro agglutination test [16]. Four reference strains were also considered (DSMZ and ATCC isolates). They were from international culture collections.The cultivation/assay medium forE. coli was Minca + 1% Iso Vitalex Agar/Broth (Sifin, Berlin, Germany). Bacterial cultures for antibacterial testing were prepared by picking colony from 24-hour-old plates and suspending them in the broth medium (5 mL). Cultures were grown aerobically for 18 h at 37°C and 100 rpm. For antibacterial activity assay, 1 mL of each culture was diluted to 105–106 CFU/mL. The reference strains were grown on media and at the growth conditions as reported on products sheets.


## 2.2. Plant Extract

A commercial neem oil produced by Neem Italia (Manerba (BS), Italy) was used as test starting material (0.35% azadirachtin A). Total composition of the neem oil was checked by high performance thin layer chromatography [17].Neem oil was diluted in Tween 80 (1 : 1 V/V; VWR, PBI International, MI, Italy) under agitation and sterilised by filtration through a 0.22μm Millipore express filter (Millex-GP, Bedford, OH, USA) before use in the experiment.


## 2.3. HPTLC Assay

### 2.3.1. HPTLC System and Materials

The HPTLC system (CAMAG, Muttenz, Switzerland) consisted of (i) Linomat 5 sample applicator using 100μL syringes, connected to a nitrogen tank; (ii) ADC 2 chamber containing twin trough chamber 20 × 10 cm; (iii) immersion device III; (iv) TLC Plate Heater III; (v) TLC visualizer; (vi) TLC scanner 3 linked to winCATS software.Solvents for extraction and HPLC grade solvents were purchased from Sigma-Aldrich and Carlo Erba (Milan, Italy). Glass plates 20 cm × 10 cm with glass-backed layers silica gel 60 (2μm thickness) were from Merck (Darmstadt, Germany). Before use, plates were prewashed with methanol and dried for 3 min at 100°C. Standards used in the HPTLC analysis were isolated from neem cake (i.e., salannin, azadirachtin A, and unsaturated and saturated lipids) in previous research [18] and data concerning isolation and identification are not reported, but they are available per request. Limonoids standards concentration was 2 mM.


## 2.3.1. HPTLC System and Materials

The HPTLC system (CAMAG, Muttenz, Switzerland) consisted of (i) Linomat 5 sample applicator using 100μL syringes, connected to a nitrogen tank; (ii) ADC 2 chamber containing twin trough chamber 20 × 10 cm; (iii) immersion device III; (iv) TLC Plate Heater III; (v) TLC visualizer; (vi) TLC scanner 3 linked to winCATS software.Solvents for extraction and HPLC grade solvents were purchased from Sigma-Aldrich and Carlo Erba (Milan, Italy). Glass plates 20 cm × 10 cm with glass-backed layers silica gel 60 (2μm thickness) were from Merck (Darmstadt, Germany). Before use, plates were prewashed with methanol and dried for 3 min at 100°C. Standards used in the HPTLC analysis were isolated from neem cake (i.e., salannin, azadirachtin A, and unsaturated and saturated lipids) in previous research [18] and data concerning isolation and identification are not reported, but they are available per request. Limonoids standards concentration was 2 mM.


## 2.4. Sample Application

Filtered solutions were applied with nitrogen flow. Operating conditions were syringe delivery speed, 10 sμL−1 (100 nL s−1); injection volume, 2 μL; band width, 6 mm; distance from bottom, 15 mm.


## 2.5. Development

The HPTLC plates were developed in toluene : AcOEt 7 : 3 (v/v) as mobile phase (Figure1), in the automatic and reproducibly developing chamber ADC 2, saturated with the same mobile phase for 20 min at room temperature. The developing solvents (i.e., type of solvents and ratios) were carefully optimized before the analyses. The length of the chromatogram run was 80 mm from the point of application. The developed layers were allowed to dry in air for 5 min, derivatized with a selected solution, including p-anisaldheyde (1.5 mL p-anisaldheyde, 2.5 mL H2SO4, and 1 mL AcOH in 37 mL EtOH), dried in the open air, and then dipped into Macrogol reagent (1 g polyethylene glycol 400 in 20 mL of dichloromethane). Finally, the plates were warmed for 5 min at 120°C before inspection. All treated plates were inspected by a CAMAG TLC visualizer under a UV light at 254 or 366 nm or under reflectance and transmission white light (WRT), respectively, before and after derivatization.Figure 1
HPTLC analysis of neem oil EtOAc extract. Mobile phase: toluene : AcOEt 7 : 3 (v/v). Visualization: plate (a) (on the left) white light upper and lower; plate (b) (on the right) UV lamp at 366 nm. Derivatization:p-anisaldheyde. Track 1: neem oil; track 2: salannin.
(a)
(b)


## 2.6. Molecular Biology Characterization of theE. coli Isolates

Two primer pairs that amplify specificE. coli 16S rRNA sequences and fourteen primer pairs that specifically amplify target gene coding for virulence factors (adhesins and toxins) were employed to characterize theE. coli isolates considered in this study (Table 1). The PCR reaction mixtures and conditions are those as reported in the literature (Table 1).Table 1
Primer pairs used to specifically amplify target gene coding for virulence factors (1–9 = toxins; 9–15 fimbriae) ofE. coliand 16S rRNA (16-17).
Target gene coding for virulence factors
Oligonucleotide sequences of primers
Reference
(1) LT
F 5′-ATT TAC GGC GTT ACT ATC CTC-3′R 5′-TTT TGG TCT CGG TCA GAT ATG-3′
[25]
(2) Sta
F 5′-TCC GTG AAA CAA CAT GAC GG-3′R 5′-ATA ACA TCC AGC ACA GGC AG-3′
[26]
(3) STb
F 5′-GCC TAT GCA TCT ACA CAA TC-3′R 5′-TGA GAA ATG GAC AAT GTC CG-3′
[26]
(4) Stx1all
F 5′-CGC TGA ATG TCA TTC GCT CTG C-3′R 5′-CGT GGT ATA GCT ACT GTC ACC-3′
[27]
(5) Stx2all
F 5′-CTT CGG TAT CCT ATT CCC GG-3′R 5′-CTG CTG TGA CAG TGA CAA AAC GC-3′
[27]
(6) Stx2e
F 5-ATG AAG AAG ATG TTT ATA GCG-3′R 5′-TCA GTT AAA CTT CAC CTG GGC-3′
[25]
(7) EAST1
F 5′-CCA TCA ACA CAG TAT ATC CGA-3′R 5′-GGT CGC GAG TGA CGG CTT TGT-3′
[28]
(8) eae
F 5′-GGA ACG GCA GAG GTT AAT CTGCAG-3′R 5′-GGC GCT CAT CAT AGT CTTTC-3′
[27]
(9) hlyA
F 5′-AGCTGCAAGTGCGGGTCTG-3′R 5′-TACGGGTTATGCCTGCAAGTTCAC-3′
[29]
(10) F4 (K88)
F 5′-GCT GCA TCT GCT GCA TCT GGTATG G-3′R 5′-CCA CTG AGT GCT GGTAGT TAC AGC C-3′
[30]
(11) F5 (K99)
F 5′-TGC GAC TAC CAA TGC TTC TG-3′R 5′-TAT CCA CCA TTA GAC GGA GC-3′
[26]
(12) F6 (P987)
F 5′-TCT GCT CTT AAA GCT ACT GG-3′R 5′-AAC TCC ACC GTT TGT ATC AG-3′
[25]
(13) F17
F 5′-GGG CTG ACA GAG GAG GTG GGGC-3′R 5′-CCC GGC GAC AAC TTC ATCACC GG-3′
[30]
(14) F18
F 5′-GTG AAA AGA CTA GTG TTT ATT TC-3′R 5′-CTT GTA AGT AAC CGC GTA AGC-3′
[31]
(15) F41
F 5′-GAG GGA CTT TCA TCT TTT AG-3′R 5′-AGT CCA TTC CAT TTA TAG GC-3′
[26]
(16) E16SI
F 5′-CCCCCTGGACGAAGACTCAC-3′R 5′-ACCGCTGGCAACAAAGGATA -3′
[29]
(17) E16SII
F 5′-AGAGTTTGATGGCTCAG-3′R 5′-GGACTACCAGGGTATCTAAT-3′
[31]The amplification products’ sizes, coordinates, and accession numbers of each primer pair are shown in Table2. Amplified products (7 μL) were analyzed by electrophoresis in 2% or 3% agarose gels buffered in 0.5x TBE (TBE buffer: 90 mM tris(hydroxymethyl)aminomethane, 90 mM boric acid, and 3 mM ethylenediaminetetraacetate Na salt, pH 8.3, Sigma-Aldrich, Milano, Italy) against a 50 bp, 100 bp, and 1 Kb ladder used as size marker (Invitrogen, Milano, Italia) and visualized by UV light at 260 nm (Fotodine 3-3102 Celbio, Milano, Italy) after staining with ethidium bromide (3,8-diamino-5-ethyl-6-phenylphenanthridinium bromide, EtBr, Sigma-Aldrich, Milano, Italy).Table 2
List of primer pairs’ amplification products, coordinates, and accession numbers.
Target gene coding for virulence factors
Amplicon (bp)
Primer coordinates
Accession number
(1) LT
281
27–47, 287–307
S60731
(2) STa
244
267–286, 492–510
M58746
(3) STb
279
515–534, 773–793
AY028790
(4) Stx1all
302
113–134, 394–414
M17358
(5) Stx2all
516
50–69, 543–565
M59432
(6) Stx2e
264
1176–1196, 1419–1439
M36727
(7) EAST1
111
2–24, 94–114
S81691
(8) eae
775
1441–1460, 2193–2215
AF022236
(9) hylA
569
867-885, 1435–1412
X79839
(10) F4 (K88)
792
31–54, 798–822
M29374
(11) F5 (K99)
450
45–64, 475–494
M35282
(12) F6 (P987)
333
193–212, 506–525
M35257
(13) F17
411
289–310, 677–699
AF055313
(14) F18
510
1–23, 490–510
M61713
(15) F41
431
154–173, 565–584
X14354
(16) E16SI
401
1628-170, 2063–2082
AB035924
(17) E16SII
798
8-27, 798–805
J01859


## 2.7. Assessment of Antibacterial Activity

The antibacterial activity of the NO was assayed using standardized disc diffusion agar and microdilution methods. Disc diffusion method was carried out according to the standard method by Bauer et al. [19]. Bacteria cultures adjusted to 0.5 McFarland standard were used to lawn Muller Hinton agar plates evenly using a sterile swab. The agar plates were dried for 15 minutes. The discs impregnated with NO (100 μL) were placed on the agar surface. Each test plate comprises three discs. The discs were placed equidistant to each other. Muller Hinton agar plates were set also up with positive control, which is the antibiotic ciprofloxacin (CFX) (100 μL wt/v) (hydrochloride monohydrate 1 mg/mL, Bayer, Milano, Italy) and Tween 80 (TWN) (VWR International PBI Srl, Milano, Italy, 1 mg/mL) as negative control. The plates were then incubated at 37°C for 18 h. After the incubation, the plates and those considered as controls were examined for inhibition zone. The inhibition zones were then measured using calipers and were recorded. The plates were done in triplicate for each bacterial isolate and the experiment was performed twice. The results were recorded as mean ± S.D. of the duplicate experiment. Differences between means of data were compared by LSD calculated using the SAS.The antibacterial activity of NO was also evaluated using microdilution method in conventional sterile polystyrene microplates (Corning, Euroclone SpA, Milan, Italy). Each well of the microplate was filled with 100μL of sterile suitable liquid media for each bacterial isolate considered, 50 μL of inoculums and amounts of extract at lower concentrations (1 : 10–1 : 10,000) were added. Control treatment without NO was used in the experiment. The microplates were incubated at 37°C for 24 h. Bacterial growth was determined by OD reading at 630 nm/10 mm pathlength with an ELISA microplate reader (Dynatech ML-3000, Pina de Ebro, Spain). Bacterial cell concentration was transformed to cells/mL using the reference curve equation.The reference curve was constructed by diluting at 1 : 100 each bacterial isolate. Counting the number of bacterial cells of an aliquot of this dilution was done using a Neubauer chamber (Celeromics, Vedano al Lambro, MI, Italy). Finally, cell concentrations were transformed to a percentage of bacterial inhibition. The percentage of bacterial growth reduction (GR%) was estimated using as reference the control treatment (T = without extract) as(1)
GR
%
=
C
-
T
C
×
100
.Three replicates were considered. The results were recorded as mean ± S.D. of the duplicate experiment. Differences between means of data were compared by least significant difference (LSD) calculated using the SAS.


## 3. Results and Discussion

### 3.1. Molecular Biology Characterization of theE. coli Isolates

The molecular biology characterization of the forty-eightE. coli isolates showed that fourteen isolates were diarrheagenicE. coli. They were tenE. coli isolated from feces of calves and piglets and four from calves collected, respectively, in Netherlands and Central Vietnam. Their virulence characteristics are reported in Table 3.Table 3
Molecular characterisation of enteropathogenicE. coli and reference strains considered in this study.
E. coli isolate collection’s designation
Surface antigen
Toxins
Fimbriae
(1) CVVI K10B
nd
STb, LT, EAST1
F4
(2) CVVI KH10
nd
STa, STb
F18
(3) NLK99
O8K85K99
nr1
F5
(4) NLP987
O64 : K; 9877
STa+
F6
(5) CVVI E12b
nd
STa
F5, F41
(6) CVVI E10
nd
STa
F5, F41
(7) NLK99-1
O8 : K25 : K99
nr
F5
(8) NLK99-3
O101 : K28 : K99
nr
F5
(9) NLK99-5
O9 : K30 : K99
nr
F5
(10) NLK99-7
O101 : K32 : K99
nr
F5
(11) NLK99-9
O9 : K35 : K99
nr
F5
(12) NLK99-11
O9 : K37 : K99
nr
F5
(13) NLK99-15
O20 : K? : K99
nr
F5
(14) NLK99-19
O101 : K? : K99
nr
F5
(15) DSMZ8696
O55 : H6
nr
Nr
(16) DSMZ9025
—
—
—
(17) DSMZ10973
O6
nr
nr
(18) ATCC33559
—
—
—
CVVI: Central Vietnam Veterinary Institute; NL: Department of Bacteriology and Animal Science, University of Wageningen, Netherlands; DSMZ: Leibniz-Institut DSMZ—Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH; ATCC: American Type Culture Collection.


### 3.2. HPTLC Assay

The NO metabolomic fingerprint shows characteristic sequence of metabolites according to the polarity of constituents. The identification of the raw material was assured by the presence of salannin (Rf = 0.42), which is a typical maker of neem. In comparison with the spot of azadirachtin (Rf = 0.23), salannin appears as the main limonoid spot. Spots concerning lipids are present at Rf values at ca. 0.80, due to unsaturated fatty acids and fatty alcohols, and at Rf ca. 0.50, due to saturated and unsaturated triglycerides. The most interesting feature of the plate concerns the presence of compounds with high fluorescent reaction at between Rf 0.55 and 0.66, which are perfectly visible at 366 nm after derivatization withp-anisaldheyde. These spots can be attributed to compounds with high conjugated unsaturation in polycyclic aromatic structures, very different from those of the nortriterpenes limonoids, so far considered responsible for the activity. Therefore, more studies are necessary to decide about the importance of antibacterial activity of these substances in the phytocomplex.


### 3.3. NO Antibacterial Activity

The results obtained show that NO has a broad spectrum of antibacterial activities against the testedE. coli isolates. As shown in Table 4, the antibacterial activity was evaluated based on the diameters of clear inhibition zone surrounding the paper discs soaked with 100 μL of neem oil. The NO average GIZ mm range from 9.50 ± 0.70 to 30.00 ± 1.00. The NO GIZ varies between enteropathogenic and nonenteropathogenicE. coli being, respectively, 24.33 ± 0.58–30.00 ± 1.00 and 9.50 ± 0.70–21.53 ± 1.53. It is significantly (P
<
0.05) different with respect to the antibiotic activity. However, theE. coli isolate FLC1167 (from milk) resulted to be less susceptible and theE. coli isolate NLP097/F5 (from piglet feces) the most susceptible to NO treatment (100 μL) among all tested bacteria using the disc diffusion method.Table 4
Antibacterial activity of neem oil (NO) against forty-eightEscherichia coli isolates revealed as growth inhibition zone (mm).
E. coli isolates
Growth inhibition zone (mm)*
NSO (100µL )
TWN (100µL)
WTR (100µL)
CFX (100µL)
(1) FLC 1056
11.33 ± 0.58 b
—
—
30.41 ± 0.20 a
(2) FLC 1247
16.13 ± 1.15 b
—
—
30.52 ± 1.07 a
(3) FLC 1059
15.83 ± 1.13 b
—
—
29.62 ± 1.00 a
(4) FLC 1243
19.00 ± 1.00 b
—
—
31.53 ± 0.67 a
(5) FLC 1048
12.33 ± 0.58 b
—
—
29.42 ± 0.58 a
(6) FLC 1167
9.50 ± 0.70 b
—
—
30.61 ± 1.21 a
(7) FLC 1249
13.33 ± 0.58 b
—
—
29.61 ± 1.11 a
(8) FLC 1055
14.53 ± 1.25 b
—
—
31.75 ± 0.82 a
(9) FLC 1054
16.23 ± 1.18 b
—
—
31.41 ± 0.76 a
(10) FLC 1085
18.00 ± 1.00 b
—
—
30.53 ± 1.17 a
(11) FLC 1244
15.33 ± 0.48 b
—
—
28.86 ± 1.00 a
(12) FLC 1165
19.50 ± 0.70 b
—
—
31.33 ± 0.67 a
(13) FLC 1086
11.33 ± 0.58 b
—
—
29.82 ± 0.48 a
(14) FLC 1053
14.53 ± 1.15 b
—
—
32.65 ± 1.39 a
(15) FLC 1095
16.83 ± 1.18 b
—
—
29.05 ± 1.22 a
(16) FLC 1219
10.70 ± 1.00 b
—
—
32.75 ± 0.55 a
(17) FLC 1235
13.23 ± 0.88 b
—
—
30.15 ± 0.55 a
(18) DSM8696
13.50 ± 0.50 b
—
—
26.21 ± 1.00 a
(19) DSM9025
13.33 ± 0.58 b
—
—
21.64 ± 0.94 a
(20) DSM10973
13.53 ± 1.25 b
—
—
29.14 ± 1.75 a
(21) ATCC33559
13.83 ± 1.18 b
—
—
32.12 ± 1.09 a
(22) CVVI E210
13.00 ± 1.00 a
—
—
25.83 ± 1.65 a
(23) CVVI E173
12.23 ± 0.58 b
—
—
32.35 ± 1.49 a
(24) CVVI E12b
27.50 ± 0.50 b
—
—
11.25 ± 0.68 a
(25) CVVI E16
14.33 ± 0.88 b
—
—
27.54 ± 1.45 a
(26) CVVI E320
21.53 ± 1.35 b
—
—
28.75 ± 1.86 a
(27) CVVI E130
11.83 ± 1.78 b
—
—
29.64 ± 0.87 a
(28) CVVI E48
10.00 ± 1.40 a
—
—
29.31 ± 0.27 a
(29) CVVI KH10
26.33 ± 0.53 b
—
—
15.34 ± 0.66 a
(30) CVVI K10B
27.50 ± 0.56 b
—
—
0
(31) CVVI E298
11.33 ± 0.48 b
—
—
23.90 ± 1.69 a
(32) CVVI E273
13.53 ± 1.75 b
—
—
29.59 ± 1.77 b
(33) CVVI K436
13.14 ± 1.68 b
—
—
30.21 ± 1.38 a
(34) CVVI E98
11.00 ± 1.00 a
—
—
26.91 ± 1.56 a
(35) CVVI E77
14.33 ± 0.58 b
—
—
23.93 ± 0.59 a
(36) CVVI E148
13.50 ± 0.50 b
—
—
28.71 ± 0.87 a
(37) CVVI E10
24.33 ± 0.58 b
—
—
10.35 ± 1.11 a
(38) CVVI E215
16.53 ± 1.15 b
—
—
26.41 ± 1.40 a
(39) NLK99/F5
29.83 ± 1.18 b
—
—
16, 21 ± 0.89 a
(40) NLP987/F5
30.00 ± 1.00 a
—
—
13.21 ± 1.15 a
(41) NLK99-1*
21.73 ± 1.35 b
—
—
15.34 ± 1.37 a
(42) NLK99-3*
28.33 ± 1.50 b
—
—
0
(43) NLK99-5*
25.00 ± 1.10 a
—
—
9.54 ± 1.11 a
(44) NLK99-7*
26.33 ± 0.58 b
—
—
14,25 ± 1.11 a
(45) NLK99-9*
27.50 ± 0.50 b
—
—
11.26 ± 1.78 a
(46) NLK99-11*
29.53 ± 1.25 b
—
—
16.24 ± 1.68 a
(47) NLK99-15*
28.83 ± 1.38 b
—
—
16.35 ± 1.11 a
(48) NLK99-19*
25.00 ± 1.70 a
—
—
15.53 ± 0.84 a
Three paper discs per plate and three plates for each bacterium were considered. The experiment was repeated twice. Values are given as mean ± S.D. Values in a row followed by different lowercased letters are significantly different atP
≤
0.05.The CFX GIZ range is 0.00 ± 0.00–32.65 ± 75. The enteropathogenicE. coli resulted to be resistant or less susceptible to CFX than the nonenteropathogenicE. coli, showing a GIZ range of, respectively, 0.00 ± 0.00–18.24 ± 1.68 mm and 21.64 ± 0.94–32.65 ± 75 mm. The isolates CVVIK10B (from calve feces) and NLK99-3* (from calve feces) both revealed resistance to CFX. No GIZ was detected in plates treated with negative controls (TWN and WTR).As shown in Table5, the percent bacterial GR revealed at 100 μL, 10 μL, 1 μL, and 0.1 μL NO concentrations was in the range 23.71 ± 1.00–99.70 ± 1.53; 21.61 ± 0.56–91.63 ± 0.08; 17.58 ± 1.33–69.57 ± 0.00; and 11.18 ± 0.89–67.58 ± 0.89.Table 5
Bacterial growth reduction (%) at 24 h in liquid medium with different concentrations of NSO, using as reference the control treatment (without NSO).
E. coli isolates
Percent growth reduction zone (%)
NSO (100µL)
NSO (10µL)
NSO (1µL)
NSO (0.1µL)
(1) FLC 1056
39.25 ± 1.43 c
35.61 ± 1.00 b
21.67 ± 1.33 a
11.31 ± 2.08 a
(2) FLC 1247
25.51 ± 1.15 c
24.70 ± 1.00 b
21.88 ± 1.33 a
11.86 ± 1.00 a
(3) FLC 1059
31.51 ± 1.15 c
25.70 ± 1.00 b
24.58 ± 1.33 a
14.86 ± 1.00 a
(4) FLC 1243
38.90 ± 1.00 d
28.79 ± 1.00 c
29.40 ± 0.00 b
16.68 ± 1.20 a
(5) FLC 1048
25.60 ± 1.53 d
23.73 ± 2.08 b
23.69 ± 2.00 b
12.83 ± 1.73 a
(6) FLC 1167
23.71 ± 1.00 b
21.61 ± 0.58 a
21.27 ± 0.00 a
11.18 ± 0.89 a
(7) FLC 1249
29.65 ± 1.53 b
28.61 ± 1.00 a
28.77 ± 1.33 a
18.51 ± 2.08 a
(8) FLC 1055
34.51 ± 1.15 c
29.70 ± 1.00 c
24.38 ± 1.33 a
14.86 ± 1.00 a
(9) FLC 1054
31.51 ± 1.15 d
29.70 ± 1.00 c
25. 78 ± 1.33 a
14.86 ± 1.00 a
(10) FLC 1085
39.90 ± 1.00 c
28.79 ± 1.00 b
28.10 ± 0.00 b
15.58 ± 1.20 a
(11) FLC 1244
35.70 ± 1.53 d
28.73 ± 2.08 b
28.59 ± 2.00 b
12.63 ± 1.73 a
(12) FLC 1165
39.71 ± 1.00 c
29.61 ± 0.58 c
29.17 ± 0.00 b
16.48 ± 0.89 a
(13) FLC 1086
39.55 ± 1.53 c
28.61 ± 1.00 c
27.87 ± 1.33 b
12.21 ± 2.08 a
(14) FLC 1053
34.51 ± 1.15 c
89.70 ± 1.00 c
27.58 ± 1.33 b
14.86 ± 1.00 a
(15) FLC 1095
31.51 ± 1.15 c
29.70 ± 1.00 b
25.18 ± 1.33 a
14.86 ± 1.00 a
(16) FLC 1219
38.95 ± 1.00 b
28.79 ± 1.00 b
28.10 ± 0.00 b
16.68 ± 1.20 a
(17) FLC 1235
36.70 ± 1.53 d
27.73 ± 2.08 c
27.79 ± 2.00 b
12.83 ± 1.73 a
(18) DSM8696
39.71 ± 1.00 c
29.61 ± 0.58 c
29.67 ± 0.00 b
17.58 ± 0.89 a
(19) DSM9025
39.65 ± 1.53 c
28.61 ± 1.00 c
26.17 ± 1.33 b
18.10 ± 2.08 a
(20) DSM10973
34.51 ± 1.15 c
29.70 ± 1.00 c
23.28 ± 1.33 b
14.86 ± 1.00 a
(21) ATCC33559
31.51 ± 1.15 d
29.70 ± 1.00 c
21.58 ± 1.33 b
14.86 ± 1.00 a
(22) CVVI E210
88.90 ± 1.00 c
88.79 ± 1.00 c
69.20 ± 0.00 b
14.78 ± 1.20 a
(23) CVVI E173
36.50 ± 1.53 d
27.73 ± 2.08 c
27.99 ± 2.00 b
22.83 ± 1.73 a
(24) CVVI E126
89.81 ± 1.00 c
89.61 ± 0.58 c
69.37 ± 0.00 b
44.58 ± 0.89 a
(25) CVVI E16
38.55 ± 1.53 c
28.61 ± 1.00 c
27.57 ± 1.33 b
11.51 ± 2.08 a
(26) CVVI E320
38.51 ± 1.15 c
29.70 ± 1.00 c
27.18 ± 1.33 b
14.86 ± 1.00 a
(27) CVVI E130
30.71 ± 1.15 c
29.70 ± 1.00 c
27.68 ± 1.33 a
14.46 ± 1.00 a
(28) CVVI E48
38.60 ± 1.00 c
28.79 ± 1.00 c
29.20 ± 0.00 a
16.68 ± 1.20 a
(29) CVVI KH10
99.60 ± 1.53 d
81.73 ± 2.08 c
68.39 ± 2.00 b
62.33 ± 1.73 a
(30) CVVI K10B
89.81 ± 1.00 c
89.61 ± 0.58 c
69.37 ± 0.00 b
60.58 ± 0.89 a
(31) CVVI E298
39.75 ± 1.53 c
28.61 ± 1.00 c
27.57 ± 1.33 b
20.11 ± 2.08 a
(32) CVVI E273
34.51 ± 1.15 c
29.70 ± 1.00 c
26.58 ± 1.33 b
22.86 ± 1.00 a
(33) CVVI K436
31.85 ± 1.15 d
29.70 ± 1.00 c
27.18 ± 1.33 b
15.86 ± 1.00 a
(34) CVVI E98
37.93 ± 1.00 c
28.79 ± 1.00 c
29.50 ± 0.00 b
16.68 ± 1.20 a
(35) CVVI E77
33.69 ± 1.53 d
21.73 ± 2.08 c
27.29 ± 2.00 b
19.83 ± 1.73 a
(36) CVVI E148
39.71 ± 1.00 c
29.61 ± 0.58 c
29.57 ± 0.00 b
22.58 ± 0.89 a
(37) CVVI E10
89.65 ± 1.53 c
88.61 ± 1.00 c
61.67 ± 1.33 b
50.79 ± 2.08 a
(38) CVVI E215
34.51 ± 1.15 c
29.70 ± 1.00 c
17.58 ± 1.33 b
21.86 ± 1.00 a
(39) NLK99/F5
91.51 ± 1.15 d
89.70 ± 1.00 c
67.68 ± 1.33 b
61.86 ± 1.00 a
(40) NL12B/F5
88.90 ± 1.00 c
88.79 ± 1.00 c
69.60 ± 0.00 b
63.68 ± 1.20 a
(41) NLK99-1*
97.70 ± 1.53 d
81.73 ± 2.08 c
68.69 ± 2.00 b
62.83 ± 1.73 a
(42) NLK99-3*
89.71 ± 1.00 c
79.61 ± 0.58 c
69.57 ± 0.00 b
67.58 ± 0.89 a
(43) NLK99-5*
89.65 ± 1.53 c
78.61 ± 1.00 c
67.67 ± 1.33 b
50.81 ± 2.08 a
(44) NLK99-7*
84.51 ± 1.15 c
79.70 ± 1.00 c
67.58 ± 1.33 b
44.86 ± 1.00 a
(45) NLK99-9*
91.51 ± 1.15 c
79.70 ± 1.00 c
67.28 ± 1.13 b
64.86 ± 1.00 a
(46) NLK99-11*
88.90 ± 1.00 c
78.79 ± 1.00 c
69.60 ± 0.00 b
66.68 ± 1.20 a
(47) NLK99-15*
99.70 ± 1.53 d
91.63 ± 0.28 c
68.69 ± 2.00 b
62.83 ± 1.73 a
(48) NLK99-19*
89.71 ± 1.00 c
79.61 ± 0.58 c
69.57 ± 0.00 b
67.58 ± 0.89 a
Three plates for each bacterium were considered. The experiment was repeated twice. Values are given as mean ± S.D. Values in a row followed by different lowercased letters are significantly different atP
≤
0.05.There is a significant difference of antibacterial activity among the isolates and the NO concentrations tested (Table5). The highest percent bacterial GRs were detected at 100 μL NO and they concerned mainly enteropathogenicE. coli isolates. Amplicons of the expected sizes from virulence genes of enteropathogenicE. coli isolates were not detected when bacterial viable cells were checked in samples treated with 100 μL and 10 μL NO concentrations. On the contrary, amplicons of the expected size were revealed in the same samples using primer pair numbers 16 and 17, as reported in Table 1, that specifically amplify unique sequences ofE. coli 16S rRNA.The antibiotic activity of ciprofloxacin is to bind and inhibit bacterial topoisomerase types II and IV, thus being able to interfere with the bacterial processes of replication, transcription, and DNA repair.An increasing ciprofloxacin resistance ofE. coli isolates was reported [20] according several epidemiological studies.E. coli, the most commonly isolated bacterium in clinical samples from patients affected by different severity of diarrheal symptoms, shows high antibiotic resistance [21, 22]. DiarrheagenicE. coli, considered in the experiment, showed a resistance or less susceptibility to ciprofloxacin, in comparison with the other nonenteropathogenic isolates tested.The viable cells of the fourteen diarrheagenicE. coli were checked after NO treatment with primer pairs listed in Table 1 and PMA dye. The dye propidium monoazide (PMA Biotium Inc., Hayward, CA, USA) is a photoreactive dye with high affinity for DNA. The dye intercalates into DNA and forms a covalent linkage upon exposure to intense visible light. It is cell membrane impermeable. When a sample comprising both live and dead bacteria is treated with PMA, only dead cells are susceptible to DNA modification due to their compromised cell membranes [23, 24]. Therefore, selective detection of the sole live cells is achieved.The fourteen ciprofloxacin resistant/less susceptible diarrheagenicE. coli seem to lose their virulence after NO treatment, because amplicons were obtained only with the primer pairs numbers 16 and 17 (Table 1). This let us suppose that antibacterial activity acts on adhesion factor and membrane and its permeability with possible loss of extrachromosomal DNA.


## 3.1. Molecular Biology Characterization of theE. coli Isolates

The molecular biology characterization of the forty-eightE. coli isolates showed that fourteen isolates were diarrheagenicE. coli. They were tenE. coli isolated from feces of calves and piglets and four from calves collected, respectively, in Netherlands and Central Vietnam. Their virulence characteristics are reported in Table 3.Table 3
Molecular characterisation of enteropathogenicE. coli and reference strains considered in this study.
E. coli isolate collection’s designation
Surface antigen
Toxins
Fimbriae
(1) CVVI K10B
nd
STb, LT, EAST1
F4
(2) CVVI KH10
nd
STa, STb
F18
(3) NLK99
O8K85K99
nr1
F5
(4) NLP987
O64 : K; 9877
STa+
F6
(5) CVVI E12b
nd
STa
F5, F41
(6) CVVI E10
nd
STa
F5, F41
(7) NLK99-1
O8 : K25 : K99
nr
F5
(8) NLK99-3
O101 : K28 : K99
nr
F5
(9) NLK99-5
O9 : K30 : K99
nr
F5
(10) NLK99-7
O101 : K32 : K99
nr
F5
(11) NLK99-9
O9 : K35 : K99
nr
F5
(12) NLK99-11
O9 : K37 : K99
nr
F5
(13) NLK99-15
O20 : K? : K99
nr
F5
(14) NLK99-19
O101 : K? : K99
nr
F5
(15) DSMZ8696
O55 : H6
nr
Nr
(16) DSMZ9025
—
—
—
(17) DSMZ10973
O6
nr
nr
(18) ATCC33559
—
—
—
CVVI: Central Vietnam Veterinary Institute; NL: Department of Bacteriology and Animal Science, University of Wageningen, Netherlands; DSMZ: Leibniz-Institut DSMZ—Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH; ATCC: American Type Culture Collection.


## 3.2. HPTLC Assay

The NO metabolomic fingerprint shows characteristic sequence of metabolites according to the polarity of constituents. The identification of the raw material was assured by the presence of salannin (Rf = 0.42), which is a typical maker of neem. In comparison with the spot of azadirachtin (Rf = 0.23), salannin appears as the main limonoid spot. Spots concerning lipids are present at Rf values at ca. 0.80, due to unsaturated fatty acids and fatty alcohols, and at Rf ca. 0.50, due to saturated and unsaturated triglycerides. The most interesting feature of the plate concerns the presence of compounds with high fluorescent reaction at between Rf 0.55 and 0.66, which are perfectly visible at 366 nm after derivatization withp-anisaldheyde. These spots can be attributed to compounds with high conjugated unsaturation in polycyclic aromatic structures, very different from those of the nortriterpenes limonoids, so far considered responsible for the activity. Therefore, more studies are necessary to decide about the importance of antibacterial activity of these substances in the phytocomplex.


## 3.3. NO Antibacterial Activity

The results obtained show that NO has a broad spectrum of antibacterial activities against the testedE. coli isolates. As shown in Table 4, the antibacterial activity was evaluated based on the diameters of clear inhibition zone surrounding the paper discs soaked with 100 μL of neem oil. The NO average GIZ mm range from 9.50 ± 0.70 to 30.00 ± 1.00. The NO GIZ varies between enteropathogenic and nonenteropathogenicE. coli being, respectively, 24.33 ± 0.58–30.00 ± 1.00 and 9.50 ± 0.70–21.53 ± 1.53. It is significantly (P
<
0.05) different with respect to the antibiotic activity. However, theE. coli isolate FLC1167 (from milk) resulted to be less susceptible and theE. coli isolate NLP097/F5 (from piglet feces) the most susceptible to NO treatment (100 μL) among all tested bacteria using the disc diffusion method.Table 4
Antibacterial activity of neem oil (NO) against forty-eightEscherichia coli isolates revealed as growth inhibition zone (mm).
E. coli isolates
Growth inhibition zone (mm)*
NSO (100µL )
TWN (100µL)
WTR (100µL)
CFX (100µL)
(1) FLC 1056
11.33 ± 0.58 b
—
—
30.41 ± 0.20 a
(2) FLC 1247
16.13 ± 1.15 b
—
—
30.52 ± 1.07 a
(3) FLC 1059
15.83 ± 1.13 b
—
—
29.62 ± 1.00 a
(4) FLC 1243
19.00 ± 1.00 b
—
—
31.53 ± 0.67 a
(5) FLC 1048
12.33 ± 0.58 b
—
—
29.42 ± 0.58 a
(6) FLC 1167
9.50 ± 0.70 b
—
—
30.61 ± 1.21 a
(7) FLC 1249
13.33 ± 0.58 b
—
—
29.61 ± 1.11 a
(8) FLC 1055
14.53 ± 1.25 b
—
—
31.75 ± 0.82 a
(9) FLC 1054
16.23 ± 1.18 b
—
—
31.41 ± 0.76 a
(10) FLC 1085
18.00 ± 1.00 b
—
—
30.53 ± 1.17 a
(11) FLC 1244
15.33 ± 0.48 b
—
—
28.86 ± 1.00 a
(12) FLC 1165
19.50 ± 0.70 b
—
—
31.33 ± 0.67 a
(13) FLC 1086
11.33 ± 0.58 b
—
—
29.82 ± 0.48 a
(14) FLC 1053
14.53 ± 1.15 b
—
—
32.65 ± 1.39 a
(15) FLC 1095
16.83 ± 1.18 b
—
—
29.05 ± 1.22 a
(16) FLC 1219
10.70 ± 1.00 b
—
—
32.75 ± 0.55 a
(17) FLC 1235
13.23 ± 0.88 b
—
—
30.15 ± 0.55 a
(18) DSM8696
13.50 ± 0.50 b
—
—
26.21 ± 1.00 a
(19) DSM9025
13.33 ± 0.58 b
—
—
21.64 ± 0.94 a
(20) DSM10973
13.53 ± 1.25 b
—
—
29.14 ± 1.75 a
(21) ATCC33559
13.83 ± 1.18 b
—
—
32.12 ± 1.09 a
(22) CVVI E210
13.00 ± 1.00 a
—
—
25.83 ± 1.65 a
(23) CVVI E173
12.23 ± 0.58 b
—
—
32.35 ± 1.49 a
(24) CVVI E12b
27.50 ± 0.50 b
—
—
11.25 ± 0.68 a
(25) CVVI E16
14.33 ± 0.88 b
—
—
27.54 ± 1.45 a
(26) CVVI E320
21.53 ± 1.35 b
—
—
28.75 ± 1.86 a
(27) CVVI E130
11.83 ± 1.78 b
—
—
29.64 ± 0.87 a
(28) CVVI E48
10.00 ± 1.40 a
—
—
29.31 ± 0.27 a
(29) CVVI KH10
26.33 ± 0.53 b
—
—
15.34 ± 0.66 a
(30) CVVI K10B
27.50 ± 0.56 b
—
—
0
(31) CVVI E298
11.33 ± 0.48 b
—
—
23.90 ± 1.69 a
(32) CVVI E273
13.53 ± 1.75 b
—
—
29.59 ± 1.77 b
(33) CVVI K436
13.14 ± 1.68 b
—
—
30.21 ± 1.38 a
(34) CVVI E98
11.00 ± 1.00 a
—
—
26.91 ± 1.56 a
(35) CVVI E77
14.33 ± 0.58 b
—
—
23.93 ± 0.59 a
(36) CVVI E148
13.50 ± 0.50 b
—
—
28.71 ± 0.87 a
(37) CVVI E10
24.33 ± 0.58 b
—
—
10.35 ± 1.11 a
(38) CVVI E215
16.53 ± 1.15 b
—
—
26.41 ± 1.40 a
(39) NLK99/F5
29.83 ± 1.18 b
—
—
16, 21 ± 0.89 a
(40) NLP987/F5
30.00 ± 1.00 a
—
—
13.21 ± 1.15 a
(41) NLK99-1*
21.73 ± 1.35 b
—
—
15.34 ± 1.37 a
(42) NLK99-3*
28.33 ± 1.50 b
—
—
0
(43) NLK99-5*
25.00 ± 1.10 a
—
—
9.54 ± 1.11 a
(44) NLK99-7*
26.33 ± 0.58 b
—
—
14,25 ± 1.11 a
(45) NLK99-9*
27.50 ± 0.50 b
—
—
11.26 ± 1.78 a
(46) NLK99-11*
29.53 ± 1.25 b
—
—
16.24 ± 1.68 a
(47) NLK99-15*
28.83 ± 1.38 b
—
—
16.35 ± 1.11 a
(48) NLK99-19*
25.00 ± 1.70 a
—
—
15.53 ± 0.84 a
Three paper discs per plate and three plates for each bacterium were considered. The experiment was repeated twice. Values are given as mean ± S.D. Values in a row followed by different lowercased letters are significantly different atP
≤
0.05.The CFX GIZ range is 0.00 ± 0.00–32.65 ± 75. The enteropathogenicE. coli resulted to be resistant or less susceptible to CFX than the nonenteropathogenicE. coli, showing a GIZ range of, respectively, 0.00 ± 0.00–18.24 ± 1.68 mm and 21.64 ± 0.94–32.65 ± 75 mm. The isolates CVVIK10B (from calve feces) and NLK99-3* (from calve feces) both revealed resistance to CFX. No GIZ was detected in plates treated with negative controls (TWN and WTR).As shown in Table5, the percent bacterial GR revealed at 100 μL, 10 μL, 1 μL, and 0.1 μL NO concentrations was in the range 23.71 ± 1.00–99.70 ± 1.53; 21.61 ± 0.56–91.63 ± 0.08; 17.58 ± 1.33–69.57 ± 0.00; and 11.18 ± 0.89–67.58 ± 0.89.Table 5
Bacterial growth reduction (%) at 24 h in liquid medium with different concentrations of NSO, using as reference the control treatment (without NSO).
E. coli isolates
Percent growth reduction zone (%)
NSO (100µL)
NSO (10µL)
NSO (1µL)
NSO (0.1µL)
(1) FLC 1056
39.25 ± 1.43 c
35.61 ± 1.00 b
21.67 ± 1.33 a
11.31 ± 2.08 a
(2) FLC 1247
25.51 ± 1.15 c
24.70 ± 1.00 b
21.88 ± 1.33 a
11.86 ± 1.00 a
(3) FLC 1059
31.51 ± 1.15 c
25.70 ± 1.00 b
24.58 ± 1.33 a
14.86 ± 1.00 a
(4) FLC 1243
38.90 ± 1.00 d
28.79 ± 1.00 c
29.40 ± 0.00 b
16.68 ± 1.20 a
(5) FLC 1048
25.60 ± 1.53 d
23.73 ± 2.08 b
23.69 ± 2.00 b
12.83 ± 1.73 a
(6) FLC 1167
23.71 ± 1.00 b
21.61 ± 0.58 a
21.27 ± 0.00 a
11.18 ± 0.89 a
(7) FLC 1249
29.65 ± 1.53 b
28.61 ± 1.00 a
28.77 ± 1.33 a
18.51 ± 2.08 a
(8) FLC 1055
34.51 ± 1.15 c
29.70 ± 1.00 c
24.38 ± 1.33 a
14.86 ± 1.00 a
(9) FLC 1054
31.51 ± 1.15 d
29.70 ± 1.00 c
25. 78 ± 1.33 a
14.86 ± 1.00 a
(10) FLC 1085
39.90 ± 1.00 c
28.79 ± 1.00 b
28.10 ± 0.00 b
15.58 ± 1.20 a
(11) FLC 1244
35.70 ± 1.53 d
28.73 ± 2.08 b
28.59 ± 2.00 b
12.63 ± 1.73 a
(12) FLC 1165
39.71 ± 1.00 c
29.61 ± 0.58 c
29.17 ± 0.00 b
16.48 ± 0.89 a
(13) FLC 1086
39.55 ± 1.53 c
28.61 ± 1.00 c
27.87 ± 1.33 b
12.21 ± 2.08 a
(14) FLC 1053
34.51 ± 1.15 c
89.70 ± 1.00 c
27.58 ± 1.33 b
14.86 ± 1.00 a
(15) FLC 1095
31.51 ± 1.15 c
29.70 ± 1.00 b
25.18 ± 1.33 a
14.86 ± 1.00 a
(16) FLC 1219
38.95 ± 1.00 b
28.79 ± 1.00 b
28.10 ± 0.00 b
16.68 ± 1.20 a
(17) FLC 1235
36.70 ± 1.53 d
27.73 ± 2.08 c
27.79 ± 2.00 b
12.83 ± 1.73 a
(18) DSM8696
39.71 ± 1.00 c
29.61 ± 0.58 c
29.67 ± 0.00 b
17.58 ± 0.89 a
(19) DSM9025
39.65 ± 1.53 c
28.61 ± 1.00 c
26.17 ± 1.33 b
18.10 ± 2.08 a
(20) DSM10973
34.51 ± 1.15 c
29.70 ± 1.00 c
23.28 ± 1.33 b
14.86 ± 1.00 a
(21) ATCC33559
31.51 ± 1.15 d
29.70 ± 1.00 c
21.58 ± 1.33 b
14.86 ± 1.00 a
(22) CVVI E210
88.90 ± 1.00 c
88.79 ± 1.00 c
69.20 ± 0.00 b
14.78 ± 1.20 a
(23) CVVI E173
36.50 ± 1.53 d
27.73 ± 2.08 c
27.99 ± 2.00 b
22.83 ± 1.73 a
(24) CVVI E126
89.81 ± 1.00 c
89.61 ± 0.58 c
69.37 ± 0.00 b
44.58 ± 0.89 a
(25) CVVI E16
38.55 ± 1.53 c
28.61 ± 1.00 c
27.57 ± 1.33 b
11.51 ± 2.08 a
(26) CVVI E320
38.51 ± 1.15 c
29.70 ± 1.00 c
27.18 ± 1.33 b
14.86 ± 1.00 a
(27) CVVI E130
30.71 ± 1.15 c
29.70 ± 1.00 c
27.68 ± 1.33 a
14.46 ± 1.00 a
(28) CVVI E48
38.60 ± 1.00 c
28.79 ± 1.00 c
29.20 ± 0.00 a
16.68 ± 1.20 a
(29) CVVI KH10
99.60 ± 1.53 d
81.73 ± 2.08 c
68.39 ± 2.00 b
62.33 ± 1.73 a
(30) CVVI K10B
89.81 ± 1.00 c
89.61 ± 0.58 c
69.37 ± 0.00 b
60.58 ± 0.89 a
(31) CVVI E298
39.75 ± 1.53 c
28.61 ± 1.00 c
27.57 ± 1.33 b
20.11 ± 2.08 a
(32) CVVI E273
34.51 ± 1.15 c
29.70 ± 1.00 c
26.58 ± 1.33 b
22.86 ± 1.00 a
(33) CVVI K436
31.85 ± 1.15 d
29.70 ± 1.00 c
27.18 ± 1.33 b
15.86 ± 1.00 a
(34) CVVI E98
37.93 ± 1.00 c
28.79 ± 1.00 c
29.50 ± 0.00 b
16.68 ± 1.20 a
(35) CVVI E77
33.69 ± 1.53 d
21.73 ± 2.08 c
27.29 ± 2.00 b
19.83 ± 1.73 a
(36) CVVI E148
39.71 ± 1.00 c
29.61 ± 0.58 c
29.57 ± 0.00 b
22.58 ± 0.89 a
(37) CVVI E10
89.65 ± 1.53 c
88.61 ± 1.00 c
61.67 ± 1.33 b
50.79 ± 2.08 a
(38) CVVI E215
34.51 ± 1.15 c
29.70 ± 1.00 c
17.58 ± 1.33 b
21.86 ± 1.00 a
(39) NLK99/F5
91.51 ± 1.15 d
89.70 ± 1.00 c
67.68 ± 1.33 b
61.86 ± 1.00 a
(40) NL12B/F5
88.90 ± 1.00 c
88.79 ± 1.00 c
69.60 ± 0.00 b
63.68 ± 1.20 a
(41) NLK99-1*
97.70 ± 1.53 d
81.73 ± 2.08 c
68.69 ± 2.00 b
62.83 ± 1.73 a
(42) NLK99-3*
89.71 ± 1.00 c
79.61 ± 0.58 c
69.57 ± 0.00 b
67.58 ± 0.89 a
(43) NLK99-5*
89.65 ± 1.53 c
78.61 ± 1.00 c
67.67 ± 1.33 b
50.81 ± 2.08 a
(44) NLK99-7*
84.51 ± 1.15 c
79.70 ± 1.00 c
67.58 ± 1.33 b
44.86 ± 1.00 a
(45) NLK99-9*
91.51 ± 1.15 c
79.70 ± 1.00 c
67.28 ± 1.13 b
64.86 ± 1.00 a
(46) NLK99-11*
88.90 ± 1.00 c
78.79 ± 1.00 c
69.60 ± 0.00 b
66.68 ± 1.20 a
(47) NLK99-15*
99.70 ± 1.53 d
91.63 ± 0.28 c
68.69 ± 2.00 b
62.83 ± 1.73 a
(48) NLK99-19*
89.71 ± 1.00 c
79.61 ± 0.58 c
69.57 ± 0.00 b
67.58 ± 0.89 a
Three plates for each bacterium were considered. The experiment was repeated twice. Values are given as mean ± S.D. Values in a row followed by different lowercased letters are significantly different atP
≤
0.05.There is a significant difference of antibacterial activity among the isolates and the NO concentrations tested (Table5). The highest percent bacterial GRs were detected at 100 μL NO and they concerned mainly enteropathogenicE. coli isolates. Amplicons of the expected sizes from virulence genes of enteropathogenicE. coli isolates were not detected when bacterial viable cells were checked in samples treated with 100 μL and 10 μL NO concentrations. On the contrary, amplicons of the expected size were revealed in the same samples using primer pair numbers 16 and 17, as reported in Table 1, that specifically amplify unique sequences ofE. coli 16S rRNA.The antibiotic activity of ciprofloxacin is to bind and inhibit bacterial topoisomerase types II and IV, thus being able to interfere with the bacterial processes of replication, transcription, and DNA repair.An increasing ciprofloxacin resistance ofE. coli isolates was reported [20] according several epidemiological studies.E. coli, the most commonly isolated bacterium in clinical samples from patients affected by different severity of diarrheal symptoms, shows high antibiotic resistance [21, 22]. DiarrheagenicE. coli, considered in the experiment, showed a resistance or less susceptibility to ciprofloxacin, in comparison with the other nonenteropathogenic isolates tested.The viable cells of the fourteen diarrheagenicE. coli were checked after NO treatment with primer pairs listed in Table 1 and PMA dye. The dye propidium monoazide (PMA Biotium Inc., Hayward, CA, USA) is a photoreactive dye with high affinity for DNA. The dye intercalates into DNA and forms a covalent linkage upon exposure to intense visible light. It is cell membrane impermeable. When a sample comprising both live and dead bacteria is treated with PMA, only dead cells are susceptible to DNA modification due to their compromised cell membranes [23, 24]. Therefore, selective detection of the sole live cells is achieved.The fourteen ciprofloxacin resistant/less susceptible diarrheagenicE. coli seem to lose their virulence after NO treatment, because amplicons were obtained only with the primer pairs numbers 16 and 17 (Table 1). This let us suppose that antibacterial activity acts on adhesion factor and membrane and its permeability with possible loss of extrachromosomal DNA.


## 4. Conclusions and Future Implications

Studies of new antimicrobials from plant derived extracts and agroindustrial byproducts as antimicrobials and preservatives are important issues in applied microbiology and biotechnology, for both implementing and improving effective alternative technologies to tackle antimicrobial resistance. The potential use of plant natural antimicrobials would require amendments of several different legal texts involving areas such as food additives, food packaging, and hygiene. Anyway, the applications could concern either the natural preservation in the food industries or an accessible and safe alternative to synthetic antimicrobial drugs.



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*Source: 343610-2015-05-03.xml*