Tracy Raivio
@traivio
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Bacterial adaptation 🧫 Host-microbe interactions 🔬 Inclusive science🥼#ualberta 🇨🇦🐼🐻 Here for community & diverse viewpoints 🫶🏼
Edmonton, Alberta
Joined June 2011
RT @SPBombaci: New paper out:."Shaping scientists: How faculty values influence graduate student recruitment and diversity, equity, and inc….
academic.oup.com
Abstract. Recruitment is central to diversity, equity, and inclusion (DEI) initiatives within higher education, but how faculty recruit their graduate stud
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RT @ADiaz_PhD: Mentoring is sharing. Sharing knowledge, resources, network, and space for our mentees to take control of their careers an….
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I'm so grateful for all the deeply satisfying interactions, relationships and discovery that have happened across MANY #gradstudent and #postdoc journeys!! 🙏.
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I hope the #structure in this paper will spur further #research into understanding not only how bacteria "see" changes, but how we can use this knowledge to come up with approaches that cripple #pathogens and provide new avenues for #antimicrobial development 💊.
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Finally, this work grew through a genius collaboration between #PhDstudents @TimCho17 and Cameron Murray gaining insights through #AI and #AlphaFold that unlocked a novel dimer arrangement that unifies 3 decades of work!! 👀.
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It started with solving the #crystalstructure of the CpxA sensing domain and characterizing it using classical #biochemical and #genetic approaches.
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A quarter century of research supported by #TriCouncil funding from #CIHR and the Natural Sciences and Engineering Research Council of Canada (NSERC) and a long and amazing collaboration with University of Alberta colleague Mark Glover led us to this #publication.
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We now know that this protein, CpxA, is important across many microbes for adapting to host environments and that it is important for #microbial #colonization of animal #hosts. Importantly - CpxA has been validated as a #therapeutictarget for #infectiousdisease 🏥.
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It started with curiosity about how #bacteria understand and respond to changes in their environments, and the localization of mutations affecting this ability to a specific part of a specific protein called CpxA using VERY old-fashioned slab gel nucleotide sequencing techniques.
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This paper started over 25 years ago, with my first publication as a post-doc, in the year that the first author of this paper, Timothy Cho, was born! 😱.
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Its out!! 😍 🙌 💥 🤸♀️ . A 🧵…. The sensor of the bacterial histidine kinase CpxA is a novel dimer of extracytoplasmic Per-ARNT-Sim (PAS) domains - Journal of Biological Chemistry
jbc.org
Histidine kinases are key bacterial sensors that recognize diverse environmental stimuli. While mechanisms of phosphorylation and phosphotransfer by cytoplasmic kinase domains are relatively well-c...
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Interesting story about a bacterial anti-toxin ATPase that has been adapted to serve as an infection sensor that induces dormancy upon phage infection 💤 🦠. Architecture and infection-sensing mechanism of the bacterial PARIS defense system
pubmed.ncbi.nlm.nih.gov
Bacteria and the viruses that infect them (bacteriophages or phages) are engaged in an evolutionary arms race that has resulted in the development of hundreds of bacterial defense systems and myriad...
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This is an interesting concept - could it help us solve the still illusive problem of determining the signals sensed by bacterial histidine kinases??. A bacterial sensor taxonomy across earth ecosystems for machine learning applications
pubmed.ncbi.nlm.nih.gov
Microbial communities have evolved to colonize all ecosystems of the planet, from the deep sea to the human gut. Microbes survive by sensing, responding, and adapting to immediate environmental cues....
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Love this! . An in vitro medium for modeling gut dysbiosis associated with cystic fibrosis
pubmed.ncbi.nlm.nih.gov
The gut physiology of pediatric and adult persons with cystic fibrosis (pwCF) is altered relative to healthy persons. The CF gut is characterized, in part, as having excess mucus, increased fat...
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Amazing study over 75,000 generations across in 12 different lineages of E. coli! Gene essentiality is contextual and changing over time. 🧫⌛️. Changing fitness effects of mutations through long-term bacterial evolution
science.org
Predictable and parallel changes occur in the fitness effects of mutations in Escherichia coli over 50,000 generations.
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RT @FabriceJPierre: Happy to share this protocol that myself and my Ph.D student @SarahP4464 work on! This in vitro polymicrobial model is….
biorxiv.org
Most in vitro models lack the capacity to fully probe bacterial phenotypes emerging from the complex interactions observed in real-life environments. This is particularly true in the context of...
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Another class of phage-based elements found in marine bacteria! 🦠 🌊 . Phage-inducible chromosomal minimalist islands (PICMIs), a novel family of small marine satellites of virulent phag…
pubmed.ncbi.nlm.nih.gov
Phage satellites are bacterial genetic elements that co-opt phage machinery for their own dissemination. Here we identify a family of satellites, named Phage-Inducible Chromosomal Minimalist Islands...
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