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High-throughput sequencing shows inconsistent results with a microscope-based analysis of the soil prokaryotic community
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2014 (English)In: Soil Biology and Biochemistry, ISSN 0038-0717, E-ISSN 1879-3428, Vol. 76, no Supplement C, p. 53-56Article in journal (Refereed) Published
Abstract [en]

In the present study, we perform the first direct analysis on how the composition of the prokaryotic soil community differs depending on whether high-throughput sequencing or fluorescent in situ hybridization (FISH) coupled with catalyzed reporter deposition (CARD) is used. Soil samples were collected along short (<3 m) tundra vegetation gradients from Northern Sweden. Relative abundances of Acidobacteria and Bacteroidetes estimated by the high-throughput sequencing were higher than those estimated by CARD–FISH, while relative abundances of Archaea and α-Proteobacteria estimated by high-throughput sequencing were lower than those estimated by CARD-FISH. The results indicated that the high-throughput sequencing overestimates/underestimates the relative abundance of some microbial taxa if we assume that CARD-FISH can provide potentially more quantitative data. Great caution should be taken when interpreting data generated by molecular technologies (both of high-throughput sequencing and CARD-FISH), and supports by multiple approaches are necessary to make a robust conclusion.

Place, publisher, year, edition, pages
2014. Vol. 76, no Supplement C, p. 53-56
Keyword [en]
Archaea, Bacteria, CARD-FISH, High-throughput sequencing, Soil prokaryotic community, Tundra ecosystem
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Natural Sciences
Identifiers
URN: urn:nbn:se:polar:diva-4107DOI: 10.1016/j.soilbio.2014.05.010OAI: oai:DiVA.org:polar-4107DiVA, id: diva2:1170014
Available from: 2018-01-02 Created: 2018-01-02 Last updated: 2018-01-02

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