CRISPR interference to interrogate genes that control biofilm formation in Pseudomonas fluorescens

Noirot-Gros, Marie-Francoise; Forrester, Sara; Malato, Grace; Larsen, Peter E.; Noirot, Philippe

doi:10.1038/s41598-019-52400-5

CRISPR interference to interrogate genes that control biofilm formation in Pseudomonas fluorescens

Journal Article · Sun Nov 03 23:00:00 EST 2019 · Scientific Reports

DOI:https://doi.org/10.1038/s41598-019-52400-5· OSTI ID:1578041

^[1]; Forrester, Sara ^[1]; Malato, Grace ^[1]; Larsen, Peter E. ^[2]; Noirot, Philippe ^[1]

Argonne National Lab. (ANL), Argonne, IL (United States)
Argonne National Lab. (ANL), Argonne, IL (United States); Univ. of Illinois, Chicago, IL (United States)

Bacterial biofilm formation involves signaling and regulatory pathways that control the transition from motile to sessile lifestyle, production of extracellular polymeric matrix, and maturation of the biofilm 3D structure. Biofilms are extensively studied because of their importance in biomedical, ecological and industrial settings. Gene inactivation is a powerful approach for functional studies but it is often labor intensive, limiting systematic gene surveys to the most tractable bacterial hosts. Here, we adapted the CRISPR interference (CRISPRi) system for use in diverse strain isolates of P. fluorescens, SBW25, WH6 and Pf0-1. We found that CRISPRi is applicable to study complex phenotypes such as cell morphology, motility and biofilm formation over extended periods of time. In SBW25, CRISPRi-mediated silencing of genes encoding the GacA/S two-component system and regulatory proteins associated with the cylic di-GMP signaling messenger produced swarming and biofilm phenotypes similar to those obtained after gene inactivation. Combined with detailed confocal microscopy of biofilms, our study also revealed novel phenotypes associated with extracellular matrix biosynthesis as well as the potent inhibition of SBW25 biofilm formation mediated by the PFLU1114 operon. We conclude that CRISPRi is a reliable and scalable approach to investigate gene networks in the diverse P. fluorescens group.

View Accepted Manuscript (DOE)

Research Organization:: Argonne National Laboratory (ANL), Argonne, IL (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23)

Grant/Contract Number:: AC02-06CH11357

OSTI ID:: 1578041

Journal Information:: Scientific Reports, Journal Name: Scientific Reports Journal Issue: 1 Vol. 9; ISSN 2045-2322

Publisher:: Nature Publishing GroupCopyright Statement

Country of Publication:: United States

Language:: English

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The Gac-Rsm and SadB Signal Transduction Pathways Converge on AlgU to Downregulate Motility in Pseudomonas fluorescens Martínez-Granero, Francisco; Navazo, Ana; Barahona, Emma PLoS ONE, Vol. 7, Issue 2 https://doi.org/10.1371/journal.pone.0031765	journal	February 2012
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Dynamics of Aspen Roots Colonization by Pseudomonads Reveals Strain-Specific and Mycorrhizal-Specific Patterns of Biofilm Formation Noirot-Gros, Marie-Francoise; Shinde, Shalaka; Larsen, Peter E. Frontiers in Microbiology, Vol. 9 https://doi.org/10.3389/fmicb.2018.00853	journal	May 2018
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Genome Comparison of Pseudomonas fluorescens UM270 with Related Fluorescent Strains Unveils Genes Involved in Rhizosphere Competence and Colonization Hernández-Salmerón, Julie E.; Moreno-Hagelsieb, Gabriel; Santoyo, Gustavo Journal of Genomics, Vol. 5 https://doi.org/10.7150/jgen.21588	journal	January 2017
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