Soil bacteria show different tolerance ranges to an unprecedented disturbance

Inês Nunes, Stephanie Jurburg, Samuel Jacquiod, Asker Brejnrod, Joana Falcão Salles, Anders Priemé, Søren J. Sørensen

Research output: Contribution to journalArticleAcademicpeer-review

6 Citations (Scopus)

Abstract

Soil microbial communities have remarkable capacities to cope with ceaseless environmental changes, but little is known about their adaptation potential when facing an unprecedented disturbance. We tested the effect of incremental dose of microwaving on soil bacteria as a model of unprecedented stress. 16S rRNA gene qPCR at both the DNA and cDNA levels was used to characterize the total (DNA) and transcriptionally active (cDNA) fractions of the bacterial community. Amplicon sequencing of 16S rRNA gene transcripts was performed to decipher tolerance ranges within the community using the concept of functional response groups (FRGs). Increasing microwaving doses resulted in 90% loss in total and transcriptionally active bacterial communities after 6.8 and 4.7 min, respectively. Four distinct FRGs with peculiar phylogenetic signatures were identified, revealing a link between taxonomy and increasing stress doses. FRG1, the most sensitive group, was dominated by Actinobacteria. FRG2 and FRG3, with intermediate tolerance, displayed prevalence of Proteobacteria, while FRG4, the most resistant group, was driven by Firmicutes. While the most sensitive FRGs showed predictable responses linked to changes in temperature and soil water content associated with microwaving, more tolerant FRG4 members exhibited a stochastic response nested within the Firmicutes phylum, potentially revealing bet-hedging strategists. The concept of FRGs based on 16S rRNA gene transcripts stood as an efficient tool for unraveling bacterial survival strategies and tolerance ranges triggered by incremental doses of an unprecedented stress, with regard to phylogeny linkages.
Original languageEnglish
Pages (from-to)189-202
JournalBiology and Fertility of Soils
Volume54
Issue number2
Early online date6 Nov 2017
DOIs
Publication statusPublished - Feb 2018

Fingerprint

functional response
soil bacteria
rRNA Genes
Soil
tolerance
Bacteria
disturbance
bacterium
Firmicutes
ribosomal RNA
Complementary DNA
dosage
bacterial communities
gene
Proteobacteria
soil
Actinobacteria
DNA
Phylogeny
bet-hedging

Keywords

  • Bet-hedging
  • Biodiversity
  • Disturbance
  • Functional response group
  • RNA
  • Soil bacteria

Cite this

Nunes, I., Jurburg, S., Jacquiod, S., Brejnrod, A., Falcão Salles, J., Priemé, A., & Sørensen, S. J. (2018). Soil bacteria show different tolerance ranges to an unprecedented disturbance. Biology and Fertility of Soils, 54(2), 189-202. https://doi.org/10.1007/s00374-017-1255-4
Nunes, Inês ; Jurburg, Stephanie ; Jacquiod, Samuel ; Brejnrod, Asker ; Falcão Salles, Joana ; Priemé, Anders ; Sørensen, Søren J. / Soil bacteria show different tolerance ranges to an unprecedented disturbance. In: Biology and Fertility of Soils. 2018 ; Vol. 54, No. 2. pp. 189-202.
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Nunes, I, Jurburg, S, Jacquiod, S, Brejnrod, A, Falcão Salles, J, Priemé, A & Sørensen, SJ 2018, 'Soil bacteria show different tolerance ranges to an unprecedented disturbance' Biology and Fertility of Soils, vol. 54, no. 2, pp. 189-202. https://doi.org/10.1007/s00374-017-1255-4

Soil bacteria show different tolerance ranges to an unprecedented disturbance. / Nunes, Inês; Jurburg, Stephanie; Jacquiod, Samuel; Brejnrod, Asker; Falcão Salles, Joana; Priemé, Anders; Sørensen, Søren J.

In: Biology and Fertility of Soils, Vol. 54, No. 2, 02.2018, p. 189-202.

Research output: Contribution to journalArticleAcademicpeer-review

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T1 - Soil bacteria show different tolerance ranges to an unprecedented disturbance

AU - Nunes, Inês

AU - Jurburg, Stephanie

AU - Jacquiod, Samuel

AU - Brejnrod, Asker

AU - Falcão Salles, Joana

AU - Priemé, Anders

AU - Sørensen, Søren J.

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AB - Soil microbial communities have remarkable capacities to cope with ceaseless environmental changes, but little is known about their adaptation potential when facing an unprecedented disturbance. We tested the effect of incremental dose of microwaving on soil bacteria as a model of unprecedented stress. 16S rRNA gene qPCR at both the DNA and cDNA levels was used to characterize the total (DNA) and transcriptionally active (cDNA) fractions of the bacterial community. Amplicon sequencing of 16S rRNA gene transcripts was performed to decipher tolerance ranges within the community using the concept of functional response groups (FRGs). Increasing microwaving doses resulted in 90% loss in total and transcriptionally active bacterial communities after 6.8 and 4.7 min, respectively. Four distinct FRGs with peculiar phylogenetic signatures were identified, revealing a link between taxonomy and increasing stress doses. FRG1, the most sensitive group, was dominated by Actinobacteria. FRG2 and FRG3, with intermediate tolerance, displayed prevalence of Proteobacteria, while FRG4, the most resistant group, was driven by Firmicutes. While the most sensitive FRGs showed predictable responses linked to changes in temperature and soil water content associated with microwaving, more tolerant FRG4 members exhibited a stochastic response nested within the Firmicutes phylum, potentially revealing bet-hedging strategists. The concept of FRGs based on 16S rRNA gene transcripts stood as an efficient tool for unraveling bacterial survival strategies and tolerance ranges triggered by incremental doses of an unprecedented stress, with regard to phylogeny linkages.

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KW - Biodiversity

KW - Disturbance

KW - Functional response group

KW - RNA

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DO - 10.1007/s00374-017-1255-4

M3 - Article

VL - 54

SP - 189

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JO - Biology and Fertility of Soils

JF - Biology and Fertility of Soils

SN - 0178-2762

IS - 2

ER -

Nunes I, Jurburg S, Jacquiod S, Brejnrod A, Falcão Salles J, Priemé A et al. Soil bacteria show different tolerance ranges to an unprecedented disturbance. Biology and Fertility of Soils. 2018 Feb;54(2):189-202. https://doi.org/10.1007/s00374-017-1255-4