[HTML][HTML] Multi-omics analysis of CRISPRi-knockdowns identifies mechanisms that buffer decreases of enzymes in E. coli metabolism

S Donati, M Kuntz, V Pahl, N Farke, D Beuter, T Glatter… - Cell Systems, 2021 - cell.com
Enzymes maintain metabolism, and their concentration affects cellular fitness: high enzyme
levels are costly, and low enzyme levels can limit metabolic flux. Here, we used CRISPR …

[HTML][HTML] Improved prediction of bacterial CRISPRi guide efficiency from depletion screens through mixed-effect machine learning and data integration

Y Yu, S Gawlitt, LB de Andrade e Sousa, E Merdivan… - Genome Biology, 2024 - Springer
CRISPR interference (CRISPRi) is the leading technique to silence gene expression in
bacteria; however, design rules remain poorly defined. We develop a best-in-class …

Morphological and transcriptional responses to CRISPRi knockdown of essential genes in Escherichia coli

MR Silvis, M Rajendram, H Shi, H Osadnik, AN Gray… - MBio, 2021 - Am Soc Microbiol
ABSTRACT CRISPR interference (CRISPRi) has facilitated the study of essential genes in
diverse organisms using both high-throughput and targeted approaches. Despite the …

Genome editing of lactic acid bacteria: opportunities for food, feed, pharma and biotech

RA Börner, V Kandasamy, AM Axelsen… - FEMS microbiology …, 2019 - academic.oup.com
This mini-review provides a perspective of traditional, emerging and future applications of
lactic acid bacteria (LAB) and how genome editing tools can be used to overcome current …

Bacterial genome reduction for optimal chassis of synthetic biology: a review

S Ma, T Su, X Lu, Q Qi - Critical Reviews in Biotechnology, 2024 - Taylor & Francis
Bacteria with streamlined genomes, that harbor full functional genes for essential metabolic
networks, are able to synthesize the desired products more effectively and thus have …

Editing the microbiome the CRISPR way

G Ramachandran, D Bikard - … Transactions of the …, 2019 - royalsocietypublishing.org
Our bodies are colonized by a complex ecosystem of bacteria, unicellular eukaryotes and
their viruses that together play a major role in our health. Over the past few years tools …

[HTML][HTML] Theragnostic application of nanoparticle and CRISPR against food-borne multi-drug resistant pathogens

R Bhattacharjee, A Nandi, P Mitra, K Saha, P Patel… - Materials Today Bio, 2022 - Elsevier
Foodborne infection is one of the leading sources of infections spreading across the world.
Foodborne pathogens are recognized as multidrug-resistant (MDR) pathogens posing a …

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

D Piya, N Nolan, ML Moore… - PLoS …, 2023 - journals.plos.org
Phages are one of the key ecological drivers of microbial community dynamics, function, and
evolution. Despite their importance in bacterial ecology and evolutionary processes, phage …

CRISPRi-microfluidics screening enables genome-scale target identification for high-titer protein production and secretion

X Yu, S Li, H Feng, X Liao, XH Xing, Z Bai, X Liu… - Metabolic …, 2023 - Elsevier
Genome-scale target identification promises to guide microbial cell factory engineering for
higher-titer production of biomolecules such as recombinant proteins (r-protein), but …

Bacterial CRISPR screens for gene function

H Todor, MR Silvis, H Osadnik, CA Gross - Current opinion in microbiology, 2021 - Elsevier
Highlights•Bacterial CRISPR approaches are used for gene editing, repression, and
activation.•CRISPRi, which blocks transcription of targeted genes, is the main bacterial …