Comparative genomics and transcriptomic response to root exudates of six rice root-associated Burkholderia sensu lato speciesuse asterix (*) to get italics

Adrian Wallner, Agnieszka Klonowska, Ludivine Guigard, Isabelle Rimbault, Eddy LM Ngonkeu, Phuong V Nguyen, Gilles Bena, Lionel MoulinPlease use the format "First name initials family name" as in "Marie S. Curie, Niels H. D. Bohr, Albert Einstein, John R. R. Tolkien, Donna T. Strickland"

2023

<p>Beyond being a reliable nutrient provider, some bacteria will perceive the plant as a potential host and undertake root colonization leading to mutualistic or parasitic interactions. Bacteria of the <em>Burkholderia</em> and <em>Paraburkholderia</em> genera are frequently found in the rhizosphere of rice. While the latter are often described as plant growth promoting species, <em>Burkholderia</em> are often studied for their human opportunistic traits. Here, we used root exudate stimulation on three <em>Burkholderia</em> and three <em>Paraburkholderia</em> strains isolated from rice roots to characterize their preliminary adaptation to the rice host at the transcriptomic level. Instead of the awaited genus-dependent adaptation, we observed a strongly species-specific response for all tested strains. While all bacteria originate from the rice environment, there are great disparities in their levels of adaptation following the sensing of root exudates. We further report the shared major functions that were differentially regulated in this early step of bacterial adaptation to plant colonization, including amino acids and putrescine metabolism, the Entner-Doudoroff (ED) pathway as well as cyclic diguanylate monophosphate (c-di-GMP) cycling.</p>

https://www.ebi.ac.uk/ena/browser/view/PRJEB42574You should fill this box only if you chose 'All or part of the results presented in this preprint are based on data'. URL must start with http:// or https://

https://doi.org/10.5281/zenodo.7447236You should fill this box only if you chose 'Scripts were used to obtain or analyze the results'. URL must start with http:// or https://

PGPR, mutualism, Paraburkholderia, plant-microbe interactions, rhizosphere, Oryza

NonePlease indicate the methods that may require specialised expertise during the peer review process (use a comma to separate various required expertises).

Microbe-microbe and microbe-host interactions, Microbial symbiosis

Dr Barbara Pivato (barbara.pivato@inrae.fr), Dr Claudia Bartoli (claudia.bartoli-kautsky@inrae.fr), Pr Oscar P. Kuipers (o.p.kuipers@rug.nl), Pr Paulina Estrada-de los Santos (pestradadelossantos@gmail.com) , Dr Cara Helene Haney (cara.haney@msl.ubc.ca) No need for them to be recommenders of PCIMicrobiol. Please do not suggest reviewers for whom there might be a conflict of interest. Reviewers are not allowed to review preprints written by close colleagues (with whom they have published in the last four years, with whom they have received joint funding in the last four years, or with whom they are currently writing a manuscript, or submitting a grant proposal), or by family members, friends, or anyone for whom bias might affect the nature of the review - see the code of conduct

2022-10-06 09:48:59

Romain Barnard

Kateryna Zhalnina , Trent Northern , Oscar Kuipers , Cara Haney , Joëlle Schläpfer , Vittorio Venturi, Anonymous, Steffen Kolb, Paulina Estrada-de los Santos