Molecular analysis of three Clostridium difficile strain genomes isolated from pig farm-related samples

I. Martín-Burriel*, S. Andrés-Lasheras, F. Harders, R.C. Mainar-Jaime, B. Ranera, P. Zaragoza, V. Falceto, Y. Bolea, E.J. Kuijper, R. Bolea, A. Bossers, M. Chirino-Trejo

*Corresponding author for this work

Research output: Contribution to journalArticleAcademicpeer-review

2 Citations (Scopus)

Abstract

Clostridium difficile is an anaerobic spore-forming bacillus that usually causes gastrointestinal disorders in man and other animal species. Most of the strains isolated from animals are toxigenic being the virulent ribotype (RT) 078 predominant in several animal species. Although C. difficile is pathogenic to both humans and animals, there is no direct evidence of zoonosis. Deep genome sequencing provides sufficient resolution to analyse which strains found in animals might be related to human pathogens. So far, there are only a few fully sequenced genomes of C. difficile strains isolated from domestic and wild animals. Using Illumina technology, we have sequenced the genome of three isolates; a strain isolated from the vagina of a sow (5754), one from rat (Rattus spp) intestinal content (RC10) and a third one isolated from environmental rat faeces (RF17). Both, rat and rat faeces were sampled in fattening pig farms. Our study reveals a close genetic relationship of two of these isolates with the virulent strain M120 (RT078) isolated from a human patient. The analysis of the sequences has revealed the presence of antibiotic resistance genes, mobile elements, including the transposon linked with virulence Tn6164, and the similarity of virulence factors between these isolates and human strains. This is the first study focused on the sequencing of C. difficile genomes obtained from wild animals like rats, which can be considered as potential reservoirs for humans and other animal species. This study can help to understand the genome composition and epidemiology of this bacterium species.

Original languageEnglish
Pages (from-to)224-231
JournalAnaerobe
Volume48
DOIs
Publication statusPublished - 2017

Fingerprint

Clostridium difficile
Swine
Genome
Wild Animals
Feces
Ribotyping
High-Throughput Nucleotide Sequencing
Gastrointestinal Contents
Domestic Animals
Zoonoses
Vagina
Virulence Factors
Microbial Drug Resistance
Spores
Bacillus
Sequence Analysis
Virulence
Farms
Epidemiology
Technology

Keywords

  • Clostridium difficile
  • Environment
  • Genome sequencing
  • PCR-ribotype 078
  • Pig
  • Rat

Cite this

Martín-Burriel, I., Andrés-Lasheras, S., Harders, F., Mainar-Jaime, R. C., Ranera, B., Zaragoza, P., ... Chirino-Trejo, M. (2017). Molecular analysis of three Clostridium difficile strain genomes isolated from pig farm-related samples. Anaerobe, 48, 224-231. https://doi.org/10.1016/j.anaerobe.2017.09.002
Martín-Burriel, I. ; Andrés-Lasheras, S. ; Harders, F. ; Mainar-Jaime, R.C. ; Ranera, B. ; Zaragoza, P. ; Falceto, V. ; Bolea, Y. ; Kuijper, E.J. ; Bolea, R. ; Bossers, A. ; Chirino-Trejo, M. / Molecular analysis of three Clostridium difficile strain genomes isolated from pig farm-related samples. In: Anaerobe. 2017 ; Vol. 48. pp. 224-231.
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abstract = "Clostridium difficile is an anaerobic spore-forming bacillus that usually causes gastrointestinal disorders in man and other animal species. Most of the strains isolated from animals are toxigenic being the virulent ribotype (RT) 078 predominant in several animal species. Although C. difficile is pathogenic to both humans and animals, there is no direct evidence of zoonosis. Deep genome sequencing provides sufficient resolution to analyse which strains found in animals might be related to human pathogens. So far, there are only a few fully sequenced genomes of C. difficile strains isolated from domestic and wild animals. Using Illumina technology, we have sequenced the genome of three isolates; a strain isolated from the vagina of a sow (5754), one from rat (Rattus spp) intestinal content (RC10) and a third one isolated from environmental rat faeces (RF17). Both, rat and rat faeces were sampled in fattening pig farms. Our study reveals a close genetic relationship of two of these isolates with the virulent strain M120 (RT078) isolated from a human patient. The analysis of the sequences has revealed the presence of antibiotic resistance genes, mobile elements, including the transposon linked with virulence Tn6164, and the similarity of virulence factors between these isolates and human strains. This is the first study focused on the sequencing of C. difficile genomes obtained from wild animals like rats, which can be considered as potential reservoirs for humans and other animal species. This study can help to understand the genome composition and epidemiology of this bacterium species.",
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Martín-Burriel, I, Andrés-Lasheras, S, Harders, F, Mainar-Jaime, RC, Ranera, B, Zaragoza, P, Falceto, V, Bolea, Y, Kuijper, EJ, Bolea, R, Bossers, A & Chirino-Trejo, M 2017, 'Molecular analysis of three Clostridium difficile strain genomes isolated from pig farm-related samples', Anaerobe, vol. 48, pp. 224-231. https://doi.org/10.1016/j.anaerobe.2017.09.002

Molecular analysis of three Clostridium difficile strain genomes isolated from pig farm-related samples. / Martín-Burriel, I.; Andrés-Lasheras, S.; Harders, F.; Mainar-Jaime, R.C.; Ranera, B.; Zaragoza, P.; Falceto, V.; Bolea, Y.; Kuijper, E.J.; Bolea, R.; Bossers, A.; Chirino-Trejo, M.

In: Anaerobe, Vol. 48, 2017, p. 224-231.

Research output: Contribution to journalArticleAcademicpeer-review

TY - JOUR

T1 - Molecular analysis of three Clostridium difficile strain genomes isolated from pig farm-related samples

AU - Martín-Burriel, I.

AU - Andrés-Lasheras, S.

AU - Harders, F.

AU - Mainar-Jaime, R.C.

AU - Ranera, B.

AU - Zaragoza, P.

AU - Falceto, V.

AU - Bolea, Y.

AU - Kuijper, E.J.

AU - Bolea, R.

AU - Bossers, A.

AU - Chirino-Trejo, M.

PY - 2017

Y1 - 2017

N2 - Clostridium difficile is an anaerobic spore-forming bacillus that usually causes gastrointestinal disorders in man and other animal species. Most of the strains isolated from animals are toxigenic being the virulent ribotype (RT) 078 predominant in several animal species. Although C. difficile is pathogenic to both humans and animals, there is no direct evidence of zoonosis. Deep genome sequencing provides sufficient resolution to analyse which strains found in animals might be related to human pathogens. So far, there are only a few fully sequenced genomes of C. difficile strains isolated from domestic and wild animals. Using Illumina technology, we have sequenced the genome of three isolates; a strain isolated from the vagina of a sow (5754), one from rat (Rattus spp) intestinal content (RC10) and a third one isolated from environmental rat faeces (RF17). Both, rat and rat faeces were sampled in fattening pig farms. Our study reveals a close genetic relationship of two of these isolates with the virulent strain M120 (RT078) isolated from a human patient. The analysis of the sequences has revealed the presence of antibiotic resistance genes, mobile elements, including the transposon linked with virulence Tn6164, and the similarity of virulence factors between these isolates and human strains. This is the first study focused on the sequencing of C. difficile genomes obtained from wild animals like rats, which can be considered as potential reservoirs for humans and other animal species. This study can help to understand the genome composition and epidemiology of this bacterium species.

AB - Clostridium difficile is an anaerobic spore-forming bacillus that usually causes gastrointestinal disorders in man and other animal species. Most of the strains isolated from animals are toxigenic being the virulent ribotype (RT) 078 predominant in several animal species. Although C. difficile is pathogenic to both humans and animals, there is no direct evidence of zoonosis. Deep genome sequencing provides sufficient resolution to analyse which strains found in animals might be related to human pathogens. So far, there are only a few fully sequenced genomes of C. difficile strains isolated from domestic and wild animals. Using Illumina technology, we have sequenced the genome of three isolates; a strain isolated from the vagina of a sow (5754), one from rat (Rattus spp) intestinal content (RC10) and a third one isolated from environmental rat faeces (RF17). Both, rat and rat faeces were sampled in fattening pig farms. Our study reveals a close genetic relationship of two of these isolates with the virulent strain M120 (RT078) isolated from a human patient. The analysis of the sequences has revealed the presence of antibiotic resistance genes, mobile elements, including the transposon linked with virulence Tn6164, and the similarity of virulence factors between these isolates and human strains. This is the first study focused on the sequencing of C. difficile genomes obtained from wild animals like rats, which can be considered as potential reservoirs for humans and other animal species. This study can help to understand the genome composition and epidemiology of this bacterium species.

KW - Clostridium difficile

KW - Environment

KW - Genome sequencing

KW - PCR-ribotype 078

KW - Pig

KW - Rat

U2 - 10.1016/j.anaerobe.2017.09.002

DO - 10.1016/j.anaerobe.2017.09.002

M3 - Article

VL - 48

SP - 224

EP - 231

JO - Anaerobe

JF - Anaerobe

SN - 1075-9964

ER -

Martín-Burriel I, Andrés-Lasheras S, Harders F, Mainar-Jaime RC, Ranera B, Zaragoza P et al. Molecular analysis of three Clostridium difficile strain genomes isolated from pig farm-related samples. Anaerobe. 2017;48:224-231. https://doi.org/10.1016/j.anaerobe.2017.09.002