High-throughput sequencing shows inconsistent results with a microscope-based analysis of the soil prokaryotic community
2014 (English)In: Soil Biology and Biochemistry, ISSN 0038-0717, E-ISSN 1879-3428, Vol. 76, 53-56 p.Article in journal (Refereed) Published
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 Acid-obacteria and Bacteroidetes estimated by the high-throughput sequencing were higher than those estimated by CARD-FISH, while relative abundances of Archaea and alpha-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. (C) 2014 Elsevier Ltd. All rights reserved.
Place, publisher, year, edition, pages
Elsevier, 2014. Vol. 76, 53-56 p.
Archaea, Bacteria, CARD-FISH, High-throughput sequencing, Soil prokaryotic community, Tundra ecosystem
Ecology Earth and Related Environmental Sciences
IdentifiersURN: urn:nbn:se:umu:diva-92906DOI: 10.1016/j.soilbio.2014.05.010ISI: 000339695900007OAI: oai:DiVA.org:umu-92906DiVA: diva2:748189