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Freeze-drying can r...
Freeze-drying can replace cold-chains for transport and storage of fecal microbiome samples
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- Bensch, Hanna (author)
- Linnéuniversitetet,Institutionen för biologi och miljö (BOM),Kalahari Research Centre, South Africa,Ctr Ecol & Evolut Microbial Model Syst EEMiS
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- Tolf, Conny (author)
- Linnéuniversitetet,Institutionen för biologi och miljö (BOM),Ctr Ecol & Evolut Microbial Model Syst EEMiS
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- Waldenström, Jonas, 1975- (author)
- Linnéuniversitetet,Institutionen för biologi och miljö (BOM),Ctr Ecol & Evolut Microbial Model Syst EEMiS
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- Lundin, Daniel, 1965- (author)
- Linnéuniversitetet,Institutionen för biologi och miljö (BOM),Ctr Ecol & Evolut Microbial Model Syst EEMiS
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- Zöttl, Markus (author)
- Linnéuniversitetet,Institutionen för biologi och miljö (BOM),Kalahari Research Centre, South Africa,Ctr Ecol & Evolut Microbial Model Syst EEMiS
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(creator_code:org_t)
- 2022-03-15
- 2022
- English.
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In: PeerJ. - : PeerJ. - 2167-8359. ; 10
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https://doi.org/10.7...
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https://lnu.diva-por... (primary) (Raw object)
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Abstract
Subject headings
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- Background: The transport and storage of samples in temperatures of minus 80 °C is commonly considered as the gold standard for microbiome studies. However, studies conducting sample collection at remote sites without a reliable cold-chain would benefit from a sample preservation method that allows transport and storage at ambient temperature.Methods: In this study we compare alpha diversity and 16S microbiome composition of 20 fecal sample replicates from Damaraland mole-rats (Fukomys damarensis) preserved in a minus 80 °C freezer and transported on dry ice to freeze-dried samples that were stored and transported in ambient temperature until DNA extraction.Results: We found strong correlations between relative abundances of Amplicon Sequence Variants (ASVs) between preservation treatments of the sample, no differences in alpha diversity measures between the two preservation treatments and minor effects of the preservation treatment on beta diversity measures. Our results show that freeze-drying samples can be a useful method for cost-effective transportation and storage of microbiome samples that yields quantitatively almost indistinguishable results in 16S microbiome analyses as those stored in minus 80 °C.
Subject headings
- NATURVETENSKAP -- Biologi -- Mikrobiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Microbiology (hsv//eng)
Keyword
- 16S
- Amplicon
- DNA metabarcoding
- Damaraland mole-rat
- Fecal samples
- Freeze-drying
- Fukomys damarensis
- Microbiome
- Ecology
- Ekologi
Publication and Content Type
- ref (subject category)
- art (subject category)
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