# Genes Encoding Toxin ofClostridium difficile in Children with and without Diarrhea

Authors: Victor R. C. Merino; Viviane Nakano; Sydney M. Finegold; Mario J. Avila-Campos
Journal: Scientifica
 (2014)

---

## Abstract

The presence of gene 16S rRNA and genes encoding toxin A (tcdA), toxin B (tcdB), and binary toxin (cdtA/cdtB) of Clostridium difficile in stool samples from children with (110) and without (150) diarrhea was determined by using a TaqMan system. Fifty-seven (21.9%) out of 260 stool samples harbored the 16S rRNA gene. The genetic profile of tcdA+/tcdB− and cdtA+/cdtB+ was verified in one C. difficile-positive diarrhea sample and of tcdA+/tcdB+ in three C. difficile-positive nondiarrhea samples. The presence of tcdA+/tcdB+ in stools obtained from children without diarrhea, suggests that they were asymptomatic carriers of toxigenic strains.


---

## Body

## 1. Introduction

Clostridium difficile is the primary etiological agent of antibiotic-associated diarrhea and pseudomembranous colitis and is recognized as a cause of nosocomial diarrhea worldwide [1]. The pathogenic effects ofC. difficileare mucosal damage to the colon that is caused by the production of toxin A (308 kDa) and/or toxin B (270 kDa) [2].SomeC. difficile strains also produce a binary toxin encoded bycdtA andcdtBgenes, and both genes have been observed in strains producingC. difficile-associated diarrhea (CDAD) [3]. In Brazil, few studies have shown the presence of toxigenicC. difficileharboringtcdAand/ortcdB but not the binary toxin genes in stool samples from children with acute diarrhea [4, 5].The cytotoxic assays performed from stool samples or isolated strains for detecting toxigenicC. difficileare considered the “gold standard” [6]. Other methods such as culture and enzyme immunoassay (EIA) are not specific for the identification of these toxigenic strains, but EIA method is used in most laboratories worldwide [7].In this study, a quantitative detection of genes encoding toxins A and B and binary toxin directly fromC. difficile-positive stool samples of children with and without acute diarrhea was determined.


## 2. Methods

### 2.1. Sample Collection and DNA Extraction

Two hundred sixty stool samples were obtained from 110 children with diarrhea and from 150 children without diarrhea, aged from 1 month to 8 years old. Stool samples were collected from March 2008 through November 2010. Children did not display other illnesses or comorbidities than diarrhea, and they were not under antibiotic treatment for at least three months prior to the sample collection. Diarrhea was defined as three or more unformed stools in the 24 h prior to enrollment. The Ethics Committee of the Biomedical Science Institute at the University of Sao Paulo (number 743/CEP) approved this study. Total bacterial genomic DNA was obtained from stools by using a QIAamp DNA stool minikit (Qiagen, Germany) according to the manufacturer’s instructions.All toxigenicC. difficile-positive stool samples were evaluated for the presence of the toxins A/B with an enzyme immunoassay (EIA) by using a commercial kit XpectC. difficile Toxin A/B Test (Remel, USA).


### 2.2. PCR Amplification

Real-time PCR assays were carried out in duplicate and performed in a total volume of 25μL, containing 2X TaqMan Universal Master Mix (Applied Biosystems, USA), 100 μM of each primer, 100 μM of TaqMan probe, and 2 ng of DNA. Amplifications were performed in a thermal cycler programmed as follows: denaturation at 95°C for 10 min, followed by 45 cycles of two steps: denaturation at 95°C for 15 s and an annealing temperature at 60°C for 1 min, for detectingC. difficile 16S rRNA gene; and annealing temperatures for different toxin-encoding genes were as follows: at 51°C for detectingtcdA andcdtA genes and at 58°C for detectingtcdB andcdtB genes. The primer/probe sets used are shown in Table 1.Table 1
Genes and primer/probe sets used to detectC. difficile and genes encoding toxins.
Genes
Oligonucleotides5′→3′
Melting temperature (°C)
References
16S rRNA*
F-TTG AGC GAT TTA CTT CGG TAA AGAR-TGT ACT GGC TCA CCT TTG ATA TTC AP-CCA CGC GTT ACT CAC CCG TCC G
60
[16]
tcdA
*
*
F-CAG GGC TAA TAG TTT GTT TAC AGA ACAR-CAA CAT CTA AAT ATA CTC CGC CAA AAP-TTA TAG TCA GCA GCT AGG ATT TCC ACG ATT TAA CAA CTC C
51
[17]
tcdB
*
*
F-AGC AGT TGA ATA TAG TGG TTT AGT TAG AGT TGR-CAT GCT TTT TTA GTT TCT GGA TTG AAP-CAT CCA GTC TCA ATT GTA TAT GTT TCT CCA
58
[17]
cdtA
*
*
F-GAT CTG GTC CTC AAG AAT TTG GTTR-GCT TGT CCT TCC CAT TTT CGA TTP-AAC TCT TAC TTC CCC TGA AT
51
[17]
cdtB
*
*
F-AAA AGCT TCA GGT TCT TTT GAC AAGR-TGA TCA GTA GAG GCA TGT TCA TTT GP-CAA GAG ATC CGT TAG TTG CAG CAT ATC CAA TTG T
58
[17]
*Used to detect C. difficile.
*
*Used to detect toxigenic C. difficile.Bacterial DNA amplifications were adjusted usingR2 values > 0.900. A sample was considered positive for a target gene when the detected fluorescence generates a curve above the background fluorescence, which was established by Rotor Gene 6000 analytical software (Corbett Life Science, Australia).


### 2.3. Statistical Analysis

Mean values ± SD were calculated for each toxin gene using a Student’st-test. A difference of P<0.05 was considered statistically significant (GraphPad Prism Software Inc.).


## 2.1. Sample Collection and DNA Extraction

Two hundred sixty stool samples were obtained from 110 children with diarrhea and from 150 children without diarrhea, aged from 1 month to 8 years old. Stool samples were collected from March 2008 through November 2010. Children did not display other illnesses or comorbidities than diarrhea, and they were not under antibiotic treatment for at least three months prior to the sample collection. Diarrhea was defined as three or more unformed stools in the 24 h prior to enrollment. The Ethics Committee of the Biomedical Science Institute at the University of Sao Paulo (number 743/CEP) approved this study. Total bacterial genomic DNA was obtained from stools by using a QIAamp DNA stool minikit (Qiagen, Germany) according to the manufacturer’s instructions.All toxigenicC. difficile-positive stool samples were evaluated for the presence of the toxins A/B with an enzyme immunoassay (EIA) by using a commercial kit XpectC. difficile Toxin A/B Test (Remel, USA).


## 2.2. PCR Amplification

Real-time PCR assays were carried out in duplicate and performed in a total volume of 25μL, containing 2X TaqMan Universal Master Mix (Applied Biosystems, USA), 100 μM of each primer, 100 μM of TaqMan probe, and 2 ng of DNA. Amplifications were performed in a thermal cycler programmed as follows: denaturation at 95°C for 10 min, followed by 45 cycles of two steps: denaturation at 95°C for 15 s and an annealing temperature at 60°C for 1 min, for detectingC. difficile 16S rRNA gene; and annealing temperatures for different toxin-encoding genes were as follows: at 51°C for detectingtcdA andcdtA genes and at 58°C for detectingtcdB andcdtB genes. The primer/probe sets used are shown in Table 1.Table 1
Genes and primer/probe sets used to detectC. difficile and genes encoding toxins.
Genes
Oligonucleotides5′→3′
Melting temperature (°C)
References
16S rRNA*
F-TTG AGC GAT TTA CTT CGG TAA AGAR-TGT ACT GGC TCA CCT TTG ATA TTC AP-CCA CGC GTT ACT CAC CCG TCC G
60
[16]
tcdA
*
*
F-CAG GGC TAA TAG TTT GTT TAC AGA ACAR-CAA CAT CTA AAT ATA CTC CGC CAA AAP-TTA TAG TCA GCA GCT AGG ATT TCC ACG ATT TAA CAA CTC C
51
[17]
tcdB
*
*
F-AGC AGT TGA ATA TAG TGG TTT AGT TAG AGT TGR-CAT GCT TTT TTA GTT TCT GGA TTG AAP-CAT CCA GTC TCA ATT GTA TAT GTT TCT CCA
58
[17]
cdtA
*
*
F-GAT CTG GTC CTC AAG AAT TTG GTTR-GCT TGT CCT TCC CAT TTT CGA TTP-AAC TCT TAC TTC CCC TGA AT
51
[17]
cdtB
*
*
F-AAA AGCT TCA GGT TCT TTT GAC AAGR-TGA TCA GTA GAG GCA TGT TCA TTT GP-CAA GAG ATC CGT TAG TTG CAG CAT ATC CAA TTG T
58
[17]
*Used to detect C. difficile.
*
*Used to detect toxigenic C. difficile.Bacterial DNA amplifications were adjusted usingR2 values > 0.900. A sample was considered positive for a target gene when the detected fluorescence generates a curve above the background fluorescence, which was established by Rotor Gene 6000 analytical software (Corbett Life Science, Australia).


## 2.3. Statistical Analysis

Mean values ± SD were calculated for each toxin gene using a Student’st-test. A difference of P<0.05 was considered statistically significant (GraphPad Prism Software Inc.).


## 3. Results

By using a commercial kit Xpect, no toxin-positive stool sample was observed. Fifty-seven (21.9%) out of 260 stool samples analyzed harboredC. difficile(20 from children with diarrhea and 37 from children without diarrhea). TwentyC. difficile-positive diarrhea samples were obtained from children between six months and 7 years old, and, among them, a 1-year-old child harbored thetcdA gene and another 1-year-old child (tcdA−/tcdB−) harbored both binary toxin genes (cdtA andcdtB). Also, the 37 (24.6%)C. difficile-positive nondiarrhea samples were obtained from 1-to-5-year old children, and, of them, three children (a 1 year old and 2 years old) harbored both genestcdA andtcdB (Table 2). None of theC. difficile-positive nondiarrhea samples harbored the binary toxin genes.Table 2
Quantitative detection ofClostridium difficile and target genes in diarrhea and nondiarrhea samples.
Target gene
Diarrhea (n=110)
Nondiarrhea (n=150)
P
Number (range oflog10⁡)
Mean ± SD
Number (range oflog10⁡)
Mean ± SD
16S rRNA∗
20 (1.2–6.9)
4.0
±
1.7
37 (1.3–8.0)
4.8
±
1.5
0.063
tcdA
1 (2.1)
ND
3 (1.3–7.6)
2.9
±
1.3
ND
tcdB
0 (0)
ND
3 (3.2–5.3)
4.6
±
1.2
ND
cdtA
1 (2.7)
ND
0 (0)
ND
ND
cdtB
1 (3.7)
ND
0 (0)
ND
ND
*Used to detect C. difficile.
ND: not determined.The presence of the target genes and their respective copy numbers are shown in Table2. ThetcdA was observed in diarrhea sample with a value of log⁡10⁡2.1. Similarly, binary toxin genes were observed in log⁡10⁡2.7 (cdtA) and log⁡10⁡3.7 (cdtB). Moreover, in nondiarrhea samplestcdA was detected from log⁡10⁡1.3 to log⁡10⁡3.6 andtcdB from log⁡10⁡3.2 to log⁡10⁡5.3. The specific primer/probe sets here used showed an accurate standard curve over a 5-log-unit linear range that permitted the copy number determination from standard amplifications and detection to a limit of the 100 copies of the target DNA in unknown samples. In this study,C. difficile was detected in diarrhea (18.2%) and nondiarrhea (24.6%) stool samples.


## 4. Discussion

In Brazil, there are few epidemiological studies involving this pathogen as a cause of diarrhea in children [4, 8]. Since a stool sample harbored the profile of toxigenicitytcdA+/tcdB− and anothercdtA+/cdtB+, it suggested a low circulation of toxigenicC. difficile in Brazilian children, and the acute diarrhea in children could have been caused by other enteropathogens thanC. difficile, like typical viral or bacterial pathogens, such asNorovirus,Rotavirus,Salmonella, orCampylobacter, and this needs to be investigated.The presence of toxins A/B and binary toxin-producingC. difficile in diarrhea outbreak has been associated to severe CDAD processes [9]. On the other hand, it is possible that strains can harbor toxins A/B and/or binary toxin genes without any expression, and it could explain the failure to detect the presence of toxins when the EIA was used.The quantitative PCR by using the TaqMan system provided a direct detection oftcdA/tcdB andcdtA/cdtB from diarrhea and nondiarrhea stool samples, and it could determine a rapid bacterial screening in patients with acute diarrhea, and, due to the high sensitivity to detectingC. difficile strains, this assay has been useful in surveillance of nosocomial diarrhea when required [10, 11].The presence of toxin genes (tcdA+/tcdB+) in stool samples obtained from three children without diarrhea suggests that they were asymptomatic carriers of toxigenic strains. In addition, an asymptomatic colonization by toxigenicC. difficile was recently described in neonates, suggesting that healthy children display some tolerance to toxigenic strains, and it could play a role in the development of the intestinal immune system [12–15].Our results suggest that more studies are necessary to determine the real role of toxigenicC. difficile strains and their asymptomatic colonization in the human intestinal tract, mainly in children.



---

*Source: 594014-2014-04-29.xml*