ArticleFrontiers in microbiology2021
Toward Best Practice in Livestock Microbiota Research: A Comprehensive Comparison of Sample Storage and DNA Extraction Strategies.
Article in Frontiers in microbiology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed.
- Strengths and weaknesses in techniques employed to measure the effects of dietary modulation on intestinal microbiota composition and function.Animal nutrition (Zhongguo xu mu shou yi xue hui) · 2026Review
- Characterization of fecal bacterial microbiomes according to fecal color, consistency, and sample type in piglets before and after weaning.Frontiers in veterinary science · 2026Article
- Do we need a standardized 16S rRNA gene amplicon sequencing analysis protocol for poultry microbiota research?Poultry science · 2025Review
- Gut Microbiota of Ruminants and Monogastric Livestock: An Overview.Animals : an open access journal from MDPI · 2025Review
- Comparison of different microbiome analysis pipelines to validate their reproducibility of gastric mucosal microbiome composition.mSystems · 2025Article
- Quantification of ovine gammaherpesvirus 2 in clinical cases of cattle with sheep-associated malignant catarrhal fever.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2024Article
- Big Data for a Small World: A Review on Databases and Resources for Studying Microbiomes.Journal of the Indian Institute of Science · 2023Review
- Host DNA depletion can increase the sensitivity ofFrontiers in microbiology · 2022Article
- Dose-dependent impact of enrofloxacin on broiler chicken gut resistome is mitigated by synbiotic application.Frontiers in microbiology · 2022Article
- Stabilization of swine faecal samples influences taxonomic and functional results in microbiome analyses.MethodsX · 2022Article
- A review of the resistome within the digestive tract of livestock.Journal of animal science and biotechnology · 2021Review
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Authors and funding
5 authors.
Funding
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Abstract
Understanding the roles of microorganisms in the animal gastrointestinal microenvironment is highly important for the development of effective strategies to manage and manipulate these microbial communities. In order to guide future animal gut microbiota research projects and standardization efforts, we have conducted a systematic comparison of 10 currently used sample preservation and DNA extraction approaches for pig and chicken microbiota samples and quantified their effects on bacterial DNA yield, quality, integrity, and on the resulting sequence-based bacterial composition estimates. The results showed how key stages of conducting a microbiota study, including the sample storage and DNA extraction, can substantially affect DNA recovery from the microbial community, and therefore, biological interpretation in a matrix-dependent manner. Our results highlight the fact that the influence of storage and extraction methods on the resulting microbial community structure differed by sample type, even within the same species. As the effects of these technical steps are potentially large compared with the real biological variability to be explained, standardization is crucial for accelerating progress in the area of livestock microbiota research. This study provided a framework to assist future animal gut microbiota research projects and standardization efforts.
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