Strategies for tailoring functional microbial synthetic communities

J **g, P Garbeva, JM Raaijmakers… - The ISME …, 2024 - academic.oup.com
Natural ecosystems harbor a huge reservoir of taxonomically diverse microbes that are
important for plant growth and health. The vast diversity of soil microorganisms and their …

Phage-plasmids promote recombination and emergence of phages and plasmids

E Pfeifer, EPC Rocha - Nature Communications, 2024 - nature.com
Phages and plasmids are regarded as distinct types of mobile genetic elements that drive
bacterial evolution by horizontal gene transfer. However, the distinction between both types …

Toward Microbiome Engineering: expanding the repertoire of genetically tractable members of the human gut Microbiome

JW Marsh, C Kirk, RE Ley - Annual Review of Microbiology, 2023 - annualreviews.org
Genetic manipulation is necessary to interrogate the functions of microbes in their
environments, such as the human gut microbiome. Yet, the vast majority of human gut …

Prediction of strain level phage–host interactions across the Escherichia genus using only genomic information

B Gaborieau, H Vaysset, F Tesson, I Charachon… - Nature …, 2024 - nature.com
Predicting bacteriophage infection of specific bacterial strains promises advancements in
phage therapy and microbial ecology. Whether the dynamics of well-established phage …

Phage-inducible chromosomal minimalist islands (PICMIs), a novel family of small marine satellites of virulent phages

R Barcia-Cruz, D Goudenège… - Nature …, 2024 - nature.com
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 …

Genomic epidemiology reveals multidrug resistant plasmid spread between Vibrio cholerae lineages in Yemen

F Lassalle, S Al-Shalali, M Al-Hakimi, E Njamkepo… - Nature …, 2023 - nature.com
Since 2016, Yemen has been experiencing the largest cholera outbreak in modern history.
Multidrug resistance (MDR) emerged among Vibrio cholerae isolates from cholera patients …

Identification and characterization of thousands of bacteriophage satellites across bacteria

JAM de Sousa, A Fillol-Salom, JR Penadés… - Nucleic Acids …, 2023 - academic.oup.com
Bacteriophage–bacteria interactions are affected by phage satellites, elements that exploit
phages for transfer between bacteria. Satellites can encode defense systems, antibiotic …

Exploring the diversity of anti-defense systems across prokaryotes, phages and mobile genetic elements

F Tesson, E Huiting, L Wei, J Ren… - Nucleic Acids …, 2025 - academic.oup.com
The co-evolution of prokaryotes, phages and mobile genetic elements (MGEs) has driven
the diversification of defense and anti-defense systems alike. Anti-defense proteins have …

[HTML][HTML] A comprehensive resource for exploring antiphage defense: DefenseFinder webservice, Wiki and databases

F Tesson, R Planel, AA Egorov… - Peer Community …, 2024 - peercommunityjournal.org
In recent years, a vast number of novel antiphage defense mechanisms were uncovered. To
facilitate the exploration of mechanistic, ecological, and evolutionary aspects related to …

Phage defence loci of Streptococcus thermophilus—tip of the anti-phage iceberg?<?mode longmeta?>

P Kelleher, G Ortiz Charneco, Z Kampff… - Nucleic Acids …, 2024 - academic.oup.com
Bacteria possess (bacterio) phage defence systems to ensure their survival. The
thermophilic lactic acid bacterium, Streptococcus thermophilus, which is used in dairy …