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Biology subjects

Brock, M.

Publications and source records attributed to Brock, M..

3 recordsLinked to original sources

A FeuP-FeuQ-Dependent Regulatory Module Integrating Envelope Stress and Host-Associated Behaviors in Agrobacterium tumefaciens

Agrobacterium tumefaciens is an important plant pathogen, the causative agent of crown gall disease, and a foundational technology used for genetic transformation of plant tissue. More recently, A. tumefaciens has been adopted as a genetically tractable model organism for studying bacterial cell cycle regulation, developmental pathways, and niche construction. The transition from a free-living bacterium within the rhizosphere to association with a plant host and subsequent transformation of plant tissue is one aspect of A. tumefaciens life history that encompasses all three of these processes. Such events are coordinated by multiple regulatory modules which must sense external and/or internal cues, integrate these inputs, and effect appropriate changes in gene expression and cellular responses to maximize fitness. Here, we evaluate the contribution of the two-component system, FeuP-FeuQ, to gene expression and developmental phenotypes including surface attachment/biofilm formation, swimming motility, and tumorigenesis. feuPQ operon organization suggests translational coupling during expression of the response regulator, FeuP (Atu0970), and sensor kinase, FeuQ (Atu0971). In-frame, non-polar deletion of feuP or feuQ individually, or the entire feuPQ operon, resulted in reduced biofilm formation, swimming motility, and tumor formation, without adversely affecting planktonic growth. Transcriptomic profiling identified [~]300 differentially expressed genes when the feuPQ locus was disrupted, including genes affecting flagellar motility, succinoglycan production, and type VI secretion. Phenotype profiling emphasized the contribution of feuPQ to withstanding osmotic, ionic, and antimicrobial stressors. Together, these data highlight FeuPQ as a global regulator of cellular responses which likely contribute to overall fitness during rhizosphere lifestyle transitions. IMPORTANCEAgrobacterium tumefaciens is an important plant pathogen able to genetically transform numerous plant species. In the rhizosphere, this bacterium encounters many challenges ranging from antagonistic and competing microbes, to plant host defenses, to rapidly changing environmental conditions. Efficient host interaction leading to plant transformation requires coordination of bacterial motility, attachment, and defense mechanisms, among other processes. This work identifies two proteins, FeuP and FeuQ, that together contribute to such coordination. The importance of this work is in identifying the FeuPQ system as a global regulator of these and other processes, possibly enabling targeted interventions to promote or inhibit plant transformation.

microbiology↗

CRISPR-based tools for genetic manipulation in pathogenic Sporothrix species

Sporothrix brasiliensis is an emerging fungal pathogen frequently associated with zoonotic transmission of sporotrichosis. Although certain virulence factors have been proposed as potential sporotrichosis determinants, the scarcity of molecular tools for reverse genetics studies on Sporothrix has significantly impeded the dissection of mechanisms underlying the disease. Here, we demonstrate that PEG-mediated protoplast transformation is a powerful method for heterologous expression in S. brasiliensis, S. schenckii and S. chilensis. Combined with CRISPR/Cas9 gene editing, this transformation protocol allowed the deletion of the putative DHN-melanin synthase gene pks1, which is a proposed virulence factor of Sporothrix species. To improve in locus integration of deletion constructs, we deleted the KU80 homologue that is critical for non-homologous end-joining DNA repair. The use of S. brasiliensis {Delta}ku80 strains enhanced homologous-directed repair during transformation resulting in increased targeted gene deletion. In conclusion, our CRISPR/Cas9-based transformation protocol provides an efficient tool for targeted gene manipulation in Sporothrix species.

molecular biology↗

Impact of bead-beating intensity on microbiome recovery in mouse and human stool: Optimization of DNA extraction

DNA extraction methods play an important role in the acquisition of accurate and reproducible 16S sequencing data in microbiome studies. In this study, we assessed the impact of bead-beating intensity during DNA extraction on microbiome recovery in mouse and human stool. We observed a higher DNA yield, better DNA integrity, higher Shannons entropy and Simpsons index in samples beaten for 4 and 9 minutes as compared to unbeaten samples. 16S sequencing data showed that bead beating has a statistically-significant (p<0.05) impact on the recovery of many clinically relevant microbes that live in the mouse and human gut, including Bifidobacterium, Sutterella and Veillonella. It was observed that 4 minutes of bead beating promotes recovery of about 70% of OTUs in mouse and human stool, while the remaining 30% requires longer bead beating. In conclusion, our study indicates adjustments in bead beating treatment based on the composition of the specimen and the targeted bacteria.

microbiology↗