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The effects of the growth substrate on cultivable and total endophytic assemblages of Arabidopsis thaliana

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Abstract

Aims

We investigated the effect of different growth substrates, frequently used during production of Arabidopsis thaliana seeds, on the endophytic assemblage of this plant.

Methods

Arabidopsis thaliana was grown on sand and on a mixture of sand and potting soil. Seeds harvested on both substrates were sown again on the same substrate until the radicle emerged and until there were 3 week-old leaves. Cultivable soil bacteria and endophytic bacteria from seeds, radicles and leaves were isolated and identified using 16S rRNA gene sequencing. Total bacterial assemblages were investigated using a direct DNA extraction from soil, seeds, radicles and leaves, and pyrosequencing of the V5-V7 hypervariable region of the 16S rRNA gene.

Results

Despite differences in the soil bacterial assemblages, seed and radicle endophytic assemblages were similar. The leaf endophytic assemblage was mainly derived from the environment and not from the seed. The endophytic genera most abundant in the cultivable assemblage coincide with the genera frequently detected in the total assemblage.

Conclusions

Our results indicate that plants can select their seed endophytes. During plant growth, bacteria seem to be recruited from the environment to complement the endophytic population from which the seed endophytes of the next generation can again be selected.

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Acknowledgments

This work was funded by the Fund for Scientific Research Flanders (FWO-Vlaanderen), with Ph.D. grants for Sascha Truyens and Sofie Thijs and a post-doc grant for Nele Weyens. This work has been financially supported by the UHasselt Methusalem project 08M03VGRJ and by the European Commission under the Seventh Framework Programme for Research (FP7-KBBE-266124, GREENLAND).

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Authors and Affiliations

  1. Centre for Environmental Sciences, Hasselt University, Agoralaan building D, 3590, Diepenbeek, Belgium

    Sascha Truyens, Bram Beckers, Sofie Thijs, Nele Weyens, Ann Cuypers & Jaco Vangronsveld

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  1. Sascha Truyens
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  2. Bram Beckers
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  3. Sofie Thijs
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  4. Nele Weyens
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  5. Ann Cuypers
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  6. Jaco Vangronsveld
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Correspondence to Jaco Vangronsveld.

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Responsible Editor: Stéphane Compant.

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Fig. A1

Rarefaction curves for soil (blue), seed (red), radicle (yellow), and leaf (green) samples. Dotted lines are samples from sand; full lines are samples from potting soil. The vertical line indicates the number of sequences (2000) subsampled from each sample for further analysis (GIF 16 kb)

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Truyens, S., Beckers, B., Thijs, S. et al. The effects of the growth substrate on cultivable and total endophytic assemblages of Arabidopsis thaliana . Plant Soil 405, 325–336 (2016). https://doi.org/10.1007/s11104-015-2761-5

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