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001037322 0247_ $$2datacite_doi$$a10.34734/FZJ-2025-00643
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001037322 1001_ $$0P:(DE-HGF)0$$aNovak, Vlastimil$$b0
001037322 245__ $$aMulti-laboratory Study Establishes Reproducible Methods for Plant-MicrobiomeResearch in Fabricated Ecosystems
001037322 260__ $$c2024
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001037322 520__ $$aInter-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.
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001037322 7001_ $$0P:(DE-HGF)0$$aAndeer, Peter F.$$b1
001037322 7001_ $$0P:(DE-HGF)0$$aKing, Eoghan$$b2
001037322 7001_ $$0P:(DE-HGF)0$$aCalabria, Jacob$$b3
001037322 7001_ $$0P:(DE-HGF)0$$aFitzpatrick, Connor$$b4
001037322 7001_ $$0P:(DE-Juel1)164816$$aKelm, Jana$$b5$$ufzj
001037322 7001_ $$0P:(DE-HGF)0$$aWippel, Kathrin$$b6
001037322 7001_ $$0P:(DE-HGF)0$$aKosina, Suzanne M.$$b7
001037322 7001_ $$0P:(DE-HGF)0$$aDaum, Chris$$b8
001037322 7001_ $$0P:(DE-HGF)0$$aZane, Matt$$b9
001037322 7001_ $$0P:(DE-HGF)0$$aYadav, Archana$$b10
001037322 7001_ $$0P:(DE-HGF)0$$aChen, Mingfei$$b11
001037322 7001_ $$0P:(DE-HGF)0$$aRuss, Dor$$b12
001037322 7001_ $$0P:(DE-HGF)0$$aAdams, Catharine A.$$b13
001037322 7001_ $$0P:(DE-HGF)0$$aOwens, Trenton K.$$b14
001037322 7001_ $$0P:(DE-HGF)0$$aLee, Bradie$$b15
001037322 7001_ $$0P:(DE-HGF)0$$aDing, Yezhang$$b16
001037322 7001_ $$0P:(DE-HGF)0$$aSordo, Zineb$$b17
001037322 7001_ $$0P:(DE-HGF)0$$aChakraborty, Romy$$b18
001037322 7001_ $$0P:(DE-HGF)0$$aRoux, Simon$$b19
001037322 7001_ $$0P:(DE-HGF)0$$aDeutschbauer, Adam M.$$b20
001037322 7001_ $$0P:(DE-HGF)0$$aUshizima, Daniela$$b21
001037322 7001_ $$0P:(DE-HGF)0$$aZengler, Karsten$$b22
001037322 7001_ $$0P:(DE-Juel1)165155$$aArsova, Borjana$$b23$$ufzj
001037322 7001_ $$0P:(DE-HGF)0$$aDangl, Jeffery L.$$b24
001037322 7001_ $$0P:(DE-HGF)0$$aSchulze-Lefert, Paul$$b25
001037322 7001_ $$0P:(DE-Juel1)166460$$aWatt, Michelle$$b26
001037322 7001_ $$0P:(DE-HGF)0$$aVogel, John P.$$b27$$eCorresponding author
001037322 7001_ $$0P:(DE-HGF)0$$aNorthen, Trent R.$$b28$$eCorresponding author
001037322 773__ $$a10.1101/2024.10.02.615924
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