TY  - EJOUR
AU  - Novak, Vlastimil
AU  - Andeer, Peter F.
AU  - King, Eoghan
AU  - Calabria, Jacob
AU  - Fitzpatrick, Connor
AU  - Kelm, Jana
AU  - Wippel, Kathrin
AU  - Kosina, Suzanne M.
AU  - Daum, Chris
AU  - Zane, Matt
AU  - Yadav, Archana
AU  - Chen, Mingfei
AU  - Russ, Dor
AU  - Adams, Catharine A.
AU  - Owens, Trenton K.
AU  - Lee, Bradie
AU  - Ding, Yezhang
AU  - Sordo, Zineb
AU  - Chakraborty, Romy
AU  - Roux, Simon
AU  - Deutschbauer, Adam M.
AU  - Ushizima, Daniela
AU  - Zengler, Karsten
AU  - Arsova, Borjana
AU  - Dangl, Jeffery L.
AU  - Schulze-Lefert, Paul
AU  - Watt, Michelle
AU  - Vogel, John P.
AU  - Northen, Trent R.
TI  - Multi-laboratory Study Establishes Reproducible Methods for Plant-MicrobiomeResearch in Fabricated Ecosystems
M1  - FZJ-2025-00643
PY  - 2024
AB  - Inter-laboratory replicability is crucial yet challenging in microbiome research. Leveraging microbiomes to promote soil health and plant growth requires understanding underlying molecular mechanisms using reproducible experimental systems. In a global collaborative effort involving five laboratories, we aimed to help advance reproducibility in microbiome studies by testing our ability to replicate synthetic community assemblyexperiments. Our study compared fabricated ecosystems constructed using two different synthetic bacterial communities, the model grass Brachypodium distachyon, and sterile EcoFAB 2.0 devices. All participating laboratories observed consistent inoculum-dependent changes inplant phenotype, root exudate composition, and final bacterial community structure where Paraburkholderia sp. OAS925 could dramatically shift microbiome composition. Comparative genomics and exudate utilization linked the pH-dependent colonization ability ofParaburkholderia, which was further confirmed with motility assays. The study provides detailed protocols, benchmarking datasets, and best practices to help advance replicable science and inform future multi-laboratory reproducibility studies.
LB  - PUB:(DE-HGF)25
DO  - DOI:10.1101/2024.10.02.615924
UR  - https://juser.fz-juelich.de/record/1037322
ER  -