IMPACTT Newsletter | November 2020

Dear Dr. reader,

This month was a fruitful month in terms of research capacity for faculties with the announcement of new infrastructures and research equipment across Canada. While the University of Calgary announced the re-opening of its BSL3 laboratory, the Canada Fund for Innovation also announced the successful institutions granted with new research equipment to support and develop their research.
Read more about this exciting news, and meet one of the main actors of UCalgary BSL3 reopening initiative, Dr. Paul Kubes, also IMPACTT expert. Finally, we gathered articles presenting cutting-edge technics and methods and also discoveries with translational perspectives.


Have a nice reading!

Meet our expert Dr. Paul Kubes

Dr Paul Kubes
Dr. Paul Kubes is a Professor at the Cumming School of Medicine and the Founding Director of the Snyder Institute for Chronic Diseases at the University of Calgary. As the head of the Infections, Inflammation & Chronic Diseases in the Changing Environment (IICD), Dr. Kubes led the development of the International Microbiome Centre with Dr. McCoy. Dr. Kubes is leading the IMPACTT platform supporting Gnotobiotic Animal Models to Elucidate Causal Mechanisms with Dr. McCoy and Dr. Gros. There he brings his expertise in utilizing real-time in vivo imaging to dissect innate immunity pathways in and understand fundamental mechanisms of immune cell behaviour.
Owing to their expertise, the Kubes' team made both fundamental and technological breakthroughs which could help improve the treatment of diseases, read more here, here and here. Dr. Kubes is also applying his skills to fighting SARS-CoV-2, see below. Learn more about some of his personal and professional insights in this enticing IMPACTT interview.

Canadian research capacity is increasing & being strenghtened

CFI-annoucement
UCalgary reopens its BLS3 to help with COVID-19. SARS-CoV-2 but not only - Discover, what does BLS3 means in terms of safety, which organisms and studies will be carried out in the BSL3 facility in this podcast from UCalgary 'We can answer that' featuring Dr. Kubes interviewed by Mike MacKinnon.

CFI announces new funding for equipment & tools provides researchers support across Canada,
79 projects supported across 52 Canadian institutes and UCalgaryMed BSL3 facility is granted a state-of-the-art microscope, the only one in Canada.

An informed decision regarding methods #Metagenomics #Bioinformatics

Assessment of In Vitro and In Silico Protocols for Sequence-Based Characterization of the Human Vaginal Microbiome. Hugerth LW, et al. mSphere. 2020 Nov 18.

Survey of metaproteomics software tools for functional microbiome analysis. Sajulga R, et al. PLoS One. 2020 Nov 10.

New methods #Highthroughput #Bioinformatics #Phageomics #Microbialecol.

Investigating host-microbiome interactions by droplet based microfluidics. Tauzin. S. Alexandra, et al., Microbiome, 2020 Oct 1. A new "ultra-high-throughput metagenomic approach based on droplet microfluidics" to study host-microbiome interactions" "compatible with all types of (meta)genomic libraries".

SuRF: A new method for sparse variable selection, with application in microbiome data analysis. Liu L, et al. Stat Med. 2020 Nov 20.

Transductomics: sequencing-based detection and analysis of transduced DNA in pure cultures and microbial communities. Kleiner M, et al. Microbiome. 2020 Nov 15.

Massively parallel screening of synthetic microbial communities. Kehe J, et al. Proc Natl Acad Sci . 2019 Jun 25. kCHIP "A droplets-based platform performs rapid, parallel, bottom-up construction & screening of synthetic microbial communities".

ChildHealth, Cohort & Clinical trial

Improve relevance & quality of child-health research & increase involvement in patient-oriented research - PORCCH offers a series of free online modules to help you learn about patient-oriented research in child health.

iPOP - The International Perinatal Outcomes in the Pandemic Study that investigates the impact of pandemic lockdowns on preterm birth and stillbirth, and assess the underlying causative factors.

Clinical trial from Norway - Early Gut Fungal and Bacterial Microbiota and Childhood Growth. Schei K, et al. Front Pediatr. 2020 Nov 9.

Proof of concepts - toward translational applications

Circadian influence on the microbiome improves heart failure outcomes. Mistry P, et al. J Mol Cell Cardiol. 2020 Sep 19. Using time-restricted feeding, the authors observed that wake time feeding of myocardial infarction (MI) mice improved heart failure outcomes. These benefits were not observed in MI mice fed during their sleep, demonstrating that circadian-mediated gut responses that benefit cardiac repair can be conferred by time-restricted feeding.

Autochthonous fecal viral transfer (FVT) impacts the murine microbiome after antibiotic perturbation. Draper LA, et al. BMC Biol. 2020 Nov 20. The authors investigate whether an autochthonous fecal viral transfer (FVT), could impact the recovery of a bacteriome disrupted by antibiotic treatment.

Spatial heterogeneity of bacterial colonization across different gut segments following inter-species microbiota transplantation. Zuo B, et al. Microbiome. 2020 Nov 18. The authors investigate whether whole-intestinal microbiota transplantation (WIMT), would be more effective for reshaping the entire intestinal microbiota than conventional fecal microbiota transplantation (FMT).
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