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Community-level physiological profiling analyses show potential to identify the copiotrophic bacteria present in soil environments

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  • Salvador Lladó
  • Petr Baldrian

Abstract

Community-level physiological profiling (CLPP) analyses from very diverse environments are frequently used with the aim of characterizing the metabolic versatility of whole environmental bacterial communities. While the limitations of the methodology for the characterization of whole communities are well known, we propose that CLPP combined with high-throughput sequencing and qPCR can be utilized to identify the copiotrophic, fast-growing fraction of the bacterial community of soil environments, where oligotrophic taxa are usually dominant. In the present work we have used this approach to analyze samples of litter and soil from a coniferous forest in the Czech Republic using BIOLOG GN2 plates. Monosaccharides and amino acids were utilized significantly faster than other C substrates, such as organic acids, in both litter and soil samples. Bacterial biodiversity in CLPP wells was significantly lower than in the original community, independently of the carbon source. Bacterial communities became highly enriched in taxa that typically showed low abundance in the original soil, belonging mostly to the Gammaproteobacteria and the genus Pseudomonas, indicating that the copiotrophic strains, favoured by the high nutrient content, are rare in forest litter and soil. In contrast, taxa abundant in the original samples were rarely found to grow at sufficient rates under the CLPP conditions. Our results show that CLPP is useful to detect copiotrophic bacteria from the soil environments and that bacterial growth is substrate specific.

Suggested Citation

  • Salvador Lladó & Petr Baldrian, 2017. "Community-level physiological profiling analyses show potential to identify the copiotrophic bacteria present in soil environments," PLOS ONE, Public Library of Science, vol. 12(2), pages 1-15, February.
  • Handle: RePEc:plo:pone00:0171638
    DOI: 10.1371/journal.pone.0171638
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    Cited by:

    1. Chu-Chun Yu & Ting-Chieh Chang & Chien-Sen Liao & Yi-Tang Chang, 2019. "A Comparison of the Microbial Community and Functional Genes Present in Free-Living and Soil Particle-Attached Bacteria from an Aerobic Bioslurry Reactor Treating High-Molecular-Weight PAHs," Sustainability, MDPI, vol. 11(4), pages 1-18, February.
    2. Jarosław Grządziel & Karolina Furtak & Anna Gałązka, 2018. "Community-Level Physiological Profiles of Microorganisms from Different Types of Soil That Are Characteristic to Poland—A Long-Term Microplot Experiment," Sustainability, MDPI, vol. 11(1), pages 1-17, December.
    3. Anna Gałązka & Emilia Grzęda & Krzysztof Jończyk, 2019. "Changes of Microbial Diversity in Rhizosphere Soils of New Quality Varieties of Winter Wheat Cultivation in Organic Farming," Sustainability, MDPI, vol. 11(15), pages 1-20, July.

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