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Patkó Dániel
Understanding the root-microbe interactions

Aug 29 - kedd

11:45 – 12:00

Modern biofizikai módszerek

E11

Understanding the root-microbe interactions

Dániel Patkó¹, Yangminghao Liu², Ilonka Engelhardt³, Lourdes Basabe-Desmonts^1,4, Fernando Benito-Lopez¹ and Lionel X. Dupuy^3,4

¹ Microfluidics Cluster UPV/EHU, University of the Basque Country UPV/EHU, Leioa, Spain

² The James Hutton Institute, Dundee, UK

³ NEIKER, Derio, Spain

⁴ IKERBASQUE, Basque Foundation for Science, Bilbao, Spain

Modern agriculture is enabled by the heavy usage of irrigation, herbicides, pesticides and fertilisers. Such practises are not sustainable due to their ecological impact, and it is believed that engineering microbial interactions in soil could reduce the need for synthetic agrochemicals while preserving soil quality. Candidate microorganisms are known, but the challenge is to maintain lasting root colonisation. Hence, it is essential to gain a fundamental understanding on how root-microbe interactions evolve during the development of the root system.

Here we present various approaches for the screening of plant roots and rhizosphere interactions. We combine polymer matrix based artificial soil system, environmental control, a live quantitative imaging system and paper based microfluidic system for chemical sensing. The soil is designed to match the refractive index of its liquid solution to create an optically clear environment for imaging under realistic conditions [1,2]. A plastic waste based sensing soil was also developed to investigate pH changes in the vicinity of the root [3]. Patterned paper microfluidic system provides a simple, cost effective, easy to use way to investigate root exudates spatially and temporally. Using our system, we reveal the fascinating complexity of bacterial mobility in soil and reveal how chemical heterogeneity [3,4,5] created by the exudation of the root might explain these complex migrations. The combined application of optical and microfluidic technologies to crops is recent. Results in this study show there is great potential for such technologies to assist with the transition towards sustainable agriculture.

Acknowledgment

This work was supported by the European Commission’s EXCELLENT SCIENCE - Marie Skłodowska-Curie Actions program, RhizoSheet MSCAIF, grant agreement number: 101028242; European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (Grant agreement No. 647857-SENSOILS); The support from “Ministerio de Ciencia y Educación de España” under grant PID2020-120313GB-I00 / AIE / 10.13039/501100011033 and “Gobierno Vasco” grant IT1633-22.

References

[1] Y. Liu, D. Patko, I. Engelhardt, T.S. George, N. Stanley-Wall, V. Ladmiral, B. Ameduri, T.J. Daniell, N. Holden, M.P. MacDonald, L.X. Dupuy, Plant-environment microscopy tracks interactions of Bacillus subtilis with plant roots across the entire rhizosphere, Proc Natl Acad Sci U S A. 118 (2021)

[2] I.C. Engelhardt, D. Patko, Y. Liu, M. Mimault, G. de las Heras Martinez, T.S. George, M. MacDonald, M. Ptashnyk, T. Sukhodub, N.R. Stanley-Wall, N. Holden, T.J. Daniell, L.X. Dupuy, Novel form of collective movement by soil bacteria, ISME J. 16 (2022) 2337–2347.

[3] D. Patko, Q. Yang, Y. Liu, P. Falireas, B. Briou, B. V Tawade, T.S. George, T.J. Daniell, M.P. MacDonald, V. Ladmiral, B. Ameduri, L.X. Dupuy, Smart soils to observe hidden rhizosphere processes, BioRxiv. (2021)

[4] C.Y. Jones, I. Engelhardt, D. Patko, L. Dupuy, N. Holden, W.G.T. Willats, High-resolution 3D mapping of rhizosphere glycan patterning using molecular probes in a transparent soil system, The Cell Surface. (2021) 100059.

[5] D. Patko, U.B. Gunatilake, L. X. Dupuy, L. Basabe-Desmonts and F. Benito-Lopez, Spatial and temporal detection of root exudates with a paper-based microfluidic device, manuscript is under preparation