An antiplasmid system drives antibiotic resistance gene integration in carbapenemase-producing Escherichia coli lineages

Nature Communications, Journal Year: 2024, Volume and Issue: 15(1)

Published: May 15, 2024

Abstract Plasmids carrying antibiotic resistance genes (ARG) are the main mechanism of dissemination in Enterobacterales. However, fitness-resistance trade-off may result their elimination. Chromosomal integration ARGs preserves advantage while relieving selective pressure for keeping costly plasmids. In some bacterial lineages, such as carbapenemase producing sequence type ST38 Escherichia coli , most chromosomally integrated. Here we reproduce by experimental evolution mobilisation bla OXA-48 gene from pOXA-48 plasmid into chromosome. We demonstrate that this depends on a plasmid-induced fitness cost, mobile genetic structure embedding ARG and novel antiplasmid system ApsAB actively involved destabilization. show targets high low-copy number combines nuclease/helicase protein Argonaute-like protein. It belongs to family defense systems broadly distributed among bacteria, which might have strong ecological impact diffusion.

Language: Английский

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The immune modules conserved across the tree of life: Towards a definition of ancestral immunity

PLoS Biology, Journal Year: 2024, Volume and Issue: 22(7), P. e3002717 - e3002717

Published: July 15, 2024

Immune defence mechanisms exist across the tree of life in such diversity that prokaryotic antiviral responses have historically been considered unrelated to eukaryotic immunity. Mechanisms divergent eukaryotes were similarly believed be largely clade specific. However, recent data indicate a subset modules (domains and proteins) from prokaryote systems are conserved populate many stages innate immune pathways. In this Essay, we propose notion ancestral immunity, which corresponds set between prokaryotes eukaryotes. After offering typology speculate on selective pressures could led differential conservation specific domains life. The exploration immunity is its infancy appears full promises illuminate evolution, also identify decipher economic, ecological, therapeutic importance.

Language: Английский

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Comparative analysis of 43 distinct RNA modifications by nanopore tRNA sequencing

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: July 24, 2024

Abstract Transfer RNAs are the fundamental adapter molecules of protein synthesis and most abundant heterogeneous class noncoding RNA in cells. The study tRNA repertoires remains challenging, complicated by presence dozens post transcriptional modifications. Nanopore sequencing is an emerging technology with promise for both detection modifications; however, such studies have been limited throughput accuracy direct methods. Moreover, complete set modifications nanopore challenging. Here we show that recent updates to chemistry (RNA004) combined our own optimizations protocols analysis workflows enable high coverage characterization signals produced 43 distinct We share best practices further report successful low abundance mitochondrial viral tRNAs, providing proof concept use populations context infection organelle biology. This work provides a roadmap guide future efforts towards de novo across multiple organisms using sequencing.

Language: Английский

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Hijackers, hitchhikers, or co-drivers? The mysteries of mobilizable genetic elements

PLoS Biology, Journal Year: 2024, Volume and Issue: 22(8), P. e3002796 - e3002796

Published: Aug. 29, 2024

Mobile genetic elements shape microbial gene repertoires and populations. Recent results reveal that many, possibly most, mobile require helpers to transfer between genomes, which we refer as Hitcher Genetic Elements (hitchers or HGEs). They may be a large fraction of pathogenicity resistance genomic islands, whose mechanisms have remained enigmatic for decades. Together with their helper bacterial hosts, hitchers form tripartite networks interactions evolve rapidly within parasitism–mutualism continuum. In this emerging view genomes communities many questions arise. Which are being moved, by whom, how? How often costly hyper-parasites beneficial mutualists? What is the evolutionary origin hitchers? Are there key advantages associated hitchers’ lifestyle justify unexpected abundance? And why systematically smaller than helpers? essay, start answering these point ways ahead understanding principles, origin, mechanisms, impact in ecology evolution.

Language: Английский

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Advances in lasso peptide discovery, biosynthesis, and function

Trends in Genetics, Journal Year: 2024, Volume and Issue: 40(11), P. 950 - 968

Published: Aug. 31, 2024

Language: Английский

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