Spatial analysis of the root system coupled to microbial community inoculation shed light on rhizosphere bacterial community assembly
Research output: Contribution to journal › Journal article › Research › peer-review
Standard
Spatial analysis of the root system coupled to microbial community inoculation shed light on rhizosphere bacterial community assembly. / Wei, Shaodong; Jacquiod, Samuel; Philippot, Laurent; Blouin, Manuel; Sørensen, Søren Johannes.
In: Biology and Fertility of Soils, Vol. 57, No. 7, 2021, p. 973-989.Research output: Contribution to journal › Journal article › Research › peer-review
Harvard
APA
Vancouver
Author
Bibtex
}
RIS
TY - JOUR
T1 - Spatial analysis of the root system coupled to microbial community inoculation shed light on rhizosphere bacterial community assembly
AU - Wei, Shaodong
AU - Jacquiod, Samuel
AU - Philippot, Laurent
AU - Blouin, Manuel
AU - Sørensen, Søren Johannes
N1 - Publisher Copyright: © 2021, The Author(s), under exclusive licence to Springer-Verlag GmbH Germany, part of Springer Nature.
PY - 2021
Y1 - 2021
N2 - Although studied for more than a century, the spatial distribution of microorganisms in a root system still remains partly understood. In a repeated greenhouse experiment using the model plant Brachypodium distachyon, we investigated the composition and distribution of rhizosphere bacteria and their response to inoculation with artificially selected microbial communities, using two different sampling scales: root sections from distinct individual roots (apical, middle, and rear sections) and the remaining entire system recovered after homogenization. Using 16S rRNA gene sequencing, we identified that root section identity was the most influential factor on the microbiota composition (R2 = 44.4%), followed by batch (R2 = 34.4%), and plant identity (R2 = 15.2%). Apical sections were characterized by increased abundances for Firmicutes members, while the rear sections featured more Verrucomicrobia. Root section sampling showed better sensitivity at detecting significant effects of the inoculation on the microbiota composition (e.g., local influence of inoculation on rear sections), in contrast, the homogenized sampling showed improved reproducibility (e.g., smaller sample dispersion). The comparison of the two sampling strategies highlighted a clear tradeoff between reproducibility and sensitivity, encouraging to complement traditional approaches with fine-scale sampling to improve our capacity to understand biological effects that could be otherwise missed.
AB - Although studied for more than a century, the spatial distribution of microorganisms in a root system still remains partly understood. In a repeated greenhouse experiment using the model plant Brachypodium distachyon, we investigated the composition and distribution of rhizosphere bacteria and their response to inoculation with artificially selected microbial communities, using two different sampling scales: root sections from distinct individual roots (apical, middle, and rear sections) and the remaining entire system recovered after homogenization. Using 16S rRNA gene sequencing, we identified that root section identity was the most influential factor on the microbiota composition (R2 = 44.4%), followed by batch (R2 = 34.4%), and plant identity (R2 = 15.2%). Apical sections were characterized by increased abundances for Firmicutes members, while the rear sections featured more Verrucomicrobia. Root section sampling showed better sensitivity at detecting significant effects of the inoculation on the microbiota composition (e.g., local influence of inoculation on rear sections), in contrast, the homogenized sampling showed improved reproducibility (e.g., smaller sample dispersion). The comparison of the two sampling strategies highlighted a clear tradeoff between reproducibility and sensitivity, encouraging to complement traditional approaches with fine-scale sampling to improve our capacity to understand biological effects that could be otherwise missed.
KW - Microbial inoculation
KW - Rhizosphere microbiota
KW - Root axis
KW - Root system
KW - Sampling scale
U2 - 10.1007/s00374-021-01590-0
DO - 10.1007/s00374-021-01590-0
M3 - Journal article
AN - SCOPUS:85112708041
VL - 57
SP - 973
EP - 989
JO - Biology and Fertility of Soils
JF - Biology and Fertility of Soils
SN - 0178-2762
IS - 7
ER -
ID: 279117832