Detection of Clostridium botulinum group III in environmental samples from farms by real-time PCR using four commercial DNA extraction kits

OBJECTIVES: Few studies have tested DNA extraction methods to optimize the detection of Clostridium botulinum in environmental samples that can be collected during animal botulism outbreaks. In this study, we evaluated four commercial DNA extraction kits for the detection of C. botulinum group III i...

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Autores principales: Le Maréchal, Caroline, Fourour, Sarah, Ballan, Valentine, Rouxel, Sandra, Souillard, Rozenn, Chemaly, Marianne
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2018
Materias:
Research Note
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6030735/
https://www.ncbi.nlm.nih.gov/pubmed/29973253
http://dx.doi.org/10.1186/s13104-018-3549-5
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author Le Maréchal, Caroline
Fourour, Sarah
Ballan, Valentine
Rouxel, Sandra
Souillard, Rozenn
Chemaly, Marianne
author_facet Le Maréchal, Caroline
Fourour, Sarah
Ballan, Valentine
Rouxel, Sandra
Souillard, Rozenn
Chemaly, Marianne
author_sort Le Maréchal, Caroline
collection PubMed
description OBJECTIVES: Few studies have tested DNA extraction methods to optimize the detection of Clostridium botulinum in environmental samples that can be collected during animal botulism outbreaks. In this study, we evaluated four commercial DNA extraction kits for the detection of C. botulinum group III in 82 various environmental samples (9 manure, 53 swabs, 3 insects, 8 water, 1 silage and 8 soil samples) collected in a context of animal botulism outbreaks. RESULTS: The PowerSoil(®) kit was the most efficient for almost all matrices (83.6% of the 73 tested samples), except manure for which the NucleoSpin(®) Soil kit was the most efficient. The NucleoSpin(®) Soil kit enabled detection in 75.3%, the QIAamp(®) DNA Mini Kit in 68.5%, and the QIAamp(®) Fast DNA Stool Mini Kit in 45.2%. However, the NucleoSpin(®) Soil kit detected C. botulinum in 9 of the 9 manure samples tested, while the PowerSoil(®) kit found C. botulinum in only two samples, and the other two kits in none of the samples. This study showed that PowerSoil(®) can be recommended for DNA extraction from environmental samples except for manure, for which the NucleoSpin(®) Soil kit appeared to be far more appropriate.
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spelling pubmed-60307352018-07-09 Detection of Clostridium botulinum group III in environmental samples from farms by real-time PCR using four commercial DNA extraction kits Le Maréchal, Caroline Fourour, Sarah Ballan, Valentine Rouxel, Sandra Souillard, Rozenn Chemaly, Marianne BMC Res Notes Research Note OBJECTIVES: Few studies have tested DNA extraction methods to optimize the detection of Clostridium botulinum in environmental samples that can be collected during animal botulism outbreaks. In this study, we evaluated four commercial DNA extraction kits for the detection of C. botulinum group III in 82 various environmental samples (9 manure, 53 swabs, 3 insects, 8 water, 1 silage and 8 soil samples) collected in a context of animal botulism outbreaks. RESULTS: The PowerSoil(®) kit was the most efficient for almost all matrices (83.6% of the 73 tested samples), except manure for which the NucleoSpin(®) Soil kit was the most efficient. The NucleoSpin(®) Soil kit enabled detection in 75.3%, the QIAamp(®) DNA Mini Kit in 68.5%, and the QIAamp(®) Fast DNA Stool Mini Kit in 45.2%. However, the NucleoSpin(®) Soil kit detected C. botulinum in 9 of the 9 manure samples tested, while the PowerSoil(®) kit found C. botulinum in only two samples, and the other two kits in none of the samples. This study showed that PowerSoil(®) can be recommended for DNA extraction from environmental samples except for manure, for which the NucleoSpin(®) Soil kit appeared to be far more appropriate. BioMed Central 2018-07-04 /pmc/articles/PMC6030735/ /pubmed/29973253 http://dx.doi.org/10.1186/s13104-018-3549-5 Text en © The Author(s) 2018 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
spellingShingle Research Note
Le Maréchal, Caroline
Fourour, Sarah
Ballan, Valentine
Rouxel, Sandra
Souillard, Rozenn
Chemaly, Marianne
Detection of Clostridium botulinum group III in environmental samples from farms by real-time PCR using four commercial DNA extraction kits
title Detection of Clostridium botulinum group III in environmental samples from farms by real-time PCR using four commercial DNA extraction kits
title_full Detection of Clostridium botulinum group III in environmental samples from farms by real-time PCR using four commercial DNA extraction kits
title_fullStr Detection of Clostridium botulinum group III in environmental samples from farms by real-time PCR using four commercial DNA extraction kits
title_full_unstemmed Detection of Clostridium botulinum group III in environmental samples from farms by real-time PCR using four commercial DNA extraction kits
title_short Detection of Clostridium botulinum group III in environmental samples from farms by real-time PCR using four commercial DNA extraction kits
title_sort detection of clostridium botulinum group iii in environmental samples from farms by real-time pcr using four commercial dna extraction kits
topic Research Note
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6030735/
https://www.ncbi.nlm.nih.gov/pubmed/29973253
http://dx.doi.org/10.1186/s13104-018-3549-5
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