Mastodawn

Helmholtz Institute Würzburg Feb 6, 2024

#HIRI researchers deployed #CRISPRi for the first time for the functional characterization of the gut mutualist Bacteroides thetaiotaomicron. They identified an sRNA that modulates the microorganisms' growth in the presence of bile. The findings should contribute to a better understanding of the bacterium’s lifestyle in its native environment, the human intestine, and to the development of clinical applications. The study was published in @PNASNews: https://www.helmholtz-hiri.de/en/newsroom/news/detail/news/bacteroides-thetaiotaomicron-physiology-under-bile-stress/

Intestinal health: New findings on B. thetaiotaomicron physiology under bile stress

A small RNA modulates the growth of the microbes | Study out in "PNAS"

Helmholtz Institute for RNA-based Infection Research

CellBioNews Jan 22, 2024

Bar-coding #bacteriophages: New method could unleash powerful #biotechnology applications.

#CRISPRi #genomics

https://phys.org/news/2024-01-bar-coding-bacteriophages-method-unleash.html

Bar-coding bacteriophages: New method could unleash powerful biotechnology applications

Barcodes at the supermarket allow fast and easy product identification, often including such valuable information as location, quantity, and tracking.

Phys.org

CellBioNews Jan 11, 2024

#Bioinformatics: Researchers develop a new #machine_learning approach.

#CRISPRi #bacteria #AI

https://phys.org/news/2024-01-bioinformatics-machine-approach.html

Bioinformatics: Researchers develop a new machine learning approach

To combat viruses, bacteria and other pathogens, synthetic biology offers new technological approaches whose performance is being validated in experiments. Researchers from the Würzburg Helmholtz Institute for RNA-based Infection Research and the Helmholtz AI Cooperative applied data integration and artificial intelligence (AI) to develop a machine learning approach that can predict the efficacy of CRISPR technologies more accurately than before.

Phys.org

CellBioNews Jan 10, 2024

How pioneer #transcription_factors blaze the one trail that determines #cell_fate.

#transcriptomics #CRISPRi #FOXA #OCT4 #epigenetics

https://phys.org/news/2024-01-transcription-factors-blaze-trail-cell.html

How pioneer transcription factors blaze the one trail that determines cell fate

One of the important breakthroughs that made it possible to program or reprogram cell fate more efficiently and with higher fidelity in a dish was discovering how to make use of a small set of molecular cowboys called pioneer transcription factors (TFs).

Phys.org

PLOS Biology Dec 5, 2023

#Phages are key drivers of #MicrobialEvolution, but many #phage genes are poorly understood. @denish_piya @AdamArkinLab @vivek_mutalik &co use arrayed genome-wide #CRISPRi to map gene the essentiality landscape in the iconic coliphages λ & P1. #PLOSBiology https://plos.io/3uLtzgU

Systematic and scalable genome-wide essentiality mapping to identify nonessential genes in phages

In this work, authors use an arrayed genome-wide CRISPR interference assay to map gene essentiality landscape in the canonical coliphages λ and P1.

Regenerative Research Fdn/NSCI Apr 19, 2023

Today, Dr. Rosa Mino shared her beautiful work on clathrin-mediated endocytosis, a key process that regulates availability of cell surface molecules in the central nervous system, cancer & other cell types. Thank you, Dr. Mino!
#CRISPRi #tirfmicroscopy
@Nous_MRE
@HustonTillotson

Vivek Mutalik Feb 2, 2023

#Genome-wide #CRISPRi screen identifies enhanced autolithotrophic phenotypes in acetogenic bacterium Eubacterium limosum | PNAS

https://www.pnas.org/doi/10.1073/pnas.2216244120

Vivek Mutalik Jan 17, 2023

Inducible #CRISPRi-based operon silencing and selective in trans gene #complementation in #Borrelia burgdorferi | bioRxiv
#genetictools
https://www.biorxiv.org/content/10.1101/2022.12.05.519228v1

Vivek Mutalik Jan 16, 2023

#High-throughput retrieval of target sequences from complex clone libraries using #CRISPRi | Nature #Biotechnology

https://www.nature.com/articles/s41587-022-01531-8

High-throughput retrieval of target sequences from complex clone libraries using CRISPRi - Nature Biotechnology

A CRISPRi method retrieves sequences of interest from large metagenomic libraries.

Nature

Vivek Mutalik Jan 4, 2023

#CRISPRi-based #programmable logic inverter cascade for #antibiotic-free #selection and maintenance of multiple #plasmids | Nucleic Acids Research | Oxford Academic

https://academic.oup.com/nar/article/50/22/13155/6895192