The design and analysis of transposon insertion sequencing experiments

MC Chao, S Abel, BM Davis, MK Waldor - Nature Reviews Microbiology, 2016 - nature.com
Transposon insertion sequencing (TIS) is a powerful approach that can be extensively
applied to the genome-wide definition of loci that are required for bacterial growth under …

DNA methyltransferases and epigenetic regulation in bacteria

S Adhikari, PD Curtis - FEMS microbiology reviews, 2016 - academic.oup.com
Epigenetics is a change in gene expression that is heritable without a change in DNA
sequence itself. This phenomenon is well studied in eukaryotes, particularly in humans for …

Comprehensive Essentiality Analysis of the Mycobacterium tuberculosis Genome via Saturating Transposon Mutagenesis

MA DeJesus, ER Gerrick, W Xu, SW Park, JE Long… - MBio, 2017 - Am Soc Microbiol
For decades, identifying the regions of a bacterial chromosome that are necessary for
viability has relied on mapping integration sites in libraries of random transposon mutants to …

DEG 15, an update of the Database of Essential Genes that includes built-in analysis tools

H Luo, Y Lin, T Liu, FL Lai, CT Zhang… - Nucleic acids …, 2021 - academic.oup.com
Essential genes refer to genes that are required by an organism to survive under specific
conditions. Studies of the minimal-gene-set for bacteria have elucidated fundamental …

Essential genome of Pseudomonas aeruginosa in cystic fibrosis sputum

KH Turner, AK Wessel, GC Palmer… - Proceedings of the …, 2015 - National Acad Sciences
Defining the essential genome of bacterial pathogens is central to developing an
understanding of the biological processes controlling disease. This has proven elusive for …

Functional genomics of the rapidly replicating bacterium Vibrio natriegens by CRISPRi

HH Lee, N Ostrov, BG Wong, MA Gold, AS Khalil… - Nature …, 2019 - nature.com
The fast-growing Gram-negative bacterium Vibrio natriegens is an attractive microbial
system for molecular biology and biotechnology due to its remarkably short generation time …

[HTML][HTML] Tn-Seq analysis of Vibrio cholerae intestinal colonization reveals a role for T6SS-mediated antibacterial activity in the host

Y Fu, MK Waldor, JJ Mekalanos - Cell host & microbe, 2013 - cell.com
Analysis of genes required for host infection will provide clues to the drivers of evolutionary
fitness of pathogens like Vibrio cholerae, a mounting threat to global heath. We used …

The essential gene set of a photosynthetic organism

BE Rubin, KM Wetmore, MN Price… - Proceedings of the …, 2015 - National Acad Sciences
Synechococcus elongatus PCC 7942 is a model organism used for studying photosynthesis
and the circadian clock, and it is being developed for the production of fuel, industrial …

Proteomic analysis of Vibrio cholerae outer membrane vesicles

E Altindis, Y Fu, JJ Mekalanos - Proceedings of the …, 2014 - National Acad Sciences
Outer membrane vesicles (OMVs) produced by Gram-negative bacteria provide an
interesting research material for defining cell-envelope proteins without experimental cell …

[HTML][HTML] ARTIST: high-resolution genome-wide assessment of fitness using transposon-insertion sequencing

JR Pritchard, MC Chao, S Abel, BM Davis… - PLoS …, 2014 - journals.plos.org
Transposon-insertion sequencing (TIS) is a powerful approach for deciphering genetic
requirements for bacterial growth in different conditions, as it enables simultaneous genome …