Dataset Information

GNPS_P. brassicacearum R401 cultivation

ABSTRACT: Cultivation of P. brassicacearum R401 in iron-containing and iron-deficient media

INSTRUMENT(S): maXis II, micrOTOF-Q II

ORGANISM(S): Pseudomonas Brassicacearum Root 401

SUBMITTER: Prof. Till Schaeberle

PROVIDER: MSV000090791 | GNPS | Mon Nov 28 01:59:00 GMT 2022

REPOSITORIES: GNPS

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Publications

Cofunctioning of bacterial exometabolites drives root microbiota establishment.

Getzke Felix F Hassani M Amine MA Crüsemann Max M Malisic Milena M Zhang Pengfan P Ishigaki Yuji Y Böhringer Nils N Jiménez Fernández Alicia A Wang Lei L Ordon Jana J Ma Ka-Wai KW Thiergart Thorsten T Harbort Christopher J CJ Wesseler Hidde H Miyauchi Shingo S Garrido-Oter Ruben R Shirasu Ken K Schäberle Till F TF Hacquard Stéphane S Schulze-Lefert Paul P

Proceedings of the National Academy of Sciences of the United States of America 20230405 15

Soil-dwelling microbes are the principal inoculum for the root microbiota, but our understanding of microbe-microbe interactions in microbiota establishment remains fragmentary. We tested 39,204 binary interbacterial interactions for inhibitory activities in vitro, allowing us to identify taxonomic signatures in bacterial inhibition profiles. Using genetic and metabolomic approaches, we identified the antimicrobial 2,4-diacetylphloroglucinol (DAPG) and the iron chelator pyoverdine as exometaboli ...[more]

PMID: 37018204

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Project description:Transcriptional profile of whole roots of wild-type and pye-1 mutants exposed to 24 hours -Fe were generated Global population increases and climate change underscore the need for better comprehension of how plants acquire and process nutrients such as iron. A systems biology approach was taken to elucidate novel regulatory mechanisms involved in plant responses to iron deficiency (-Fe). Using cell-type specific transcriptional profiling we identified a pericycle-specific iron deficiency response, and a previously uncharacterized transcription factor, POPEYE (PYE), that plays an important role in this response. Functional analysis of PYE suggests that it positively regulates growth and development under iron deficient conditions. ChIP-on-chip analysis and transcriptional profiling reveal that PYE helps maintain iron homeostasis by directly and indirectly regulating the expression of ferric reductases, metal ion transporters, iron storage proteins, and other key iron homeostasis genes. In addition to PYE, we also identified a second protein BRUTUS (BTS), which appears to negatively regulate the response to iron deficiency. BTS is a unique putative E3 ligase protein, with metal ion binding and DNA binding domains. PYE and BTS are tightly co-regulated and physically interact with PYE paralogs, one of which is thought to positively regulate expression of genes involved in iron homeostasis. We propose that iron content is sensed within the pericycle where PYE, perhaps in conjunction with BTS and other regulatory proteins, is then activated to control a regulatory network involved in maintaining proper iron distribution in plants. Keywords: Expression analysis To determine how loss of PYE expression affects the transcriptional profile of whole roots, pye-1 mutants and wild-type seeds were germinated under standard growth conditions then transferred to standard media (control, MS media) or iron deficient media (-Fe, 0.3mM Ferrozine in MS media containing no ferrous sulfate). After 24 hours of exposure to +Fe or -Fe whole roots were collected and analyzed.