Trimeric autotransporter adhesins driving chain-like adhesion diversify surface colonization strategies in Shiga toxin-producing Escherichia coli - Nature Communications

In this study, the authors demonstrate that trimeric autotransporter adhesins drive bacterial chain-like adhesion, expanding the surface colonization strategies of Shiga toxin-producing Escherichia co...

nature.com

A prehistoric East-Asian Yersinia pestis genome and a ~5.3 ka trans-Eurasian expansion of plague - Nature Communications

Plague, caused by the pathogen Yersinia pestis, has affected human societies for millennia. Here, the authors screened 1,400 ancient human remains from eastern Eurasia and recovered three prehistoric ...

nature.com

A syntenic pangenome of Gardnerella reveals novel plasmids and phage, taxonomic boundaries, and species-level stratification of metabolic and virulence potential - Nature Communications

Bacteria of the genus Gardnerella are associated with bacterial vaginosis. Here, the authors compile and analyse a reference set of high-quality Gardnerella genomes, revealing previously hidden specie...

nature.com

Purine bias in bacterial genes is driven by runaway transcription - Nature Microbiology

Purine bias is critical for gene expression in bacteria, preventing premature transcription in species that exhibit runaway transcription.

nature.com

High-Quality Genome Assembly, Metabolome, Pangenome, and Metabolic Models of Megasphaera hexanoica KCCM 43214T - Scientific Data

Scientific Data - High-Quality Genome Assembly, Metabolome, Pangenome, and Metabolic Models of Megasphaera hexanoica KCCM 43214T

nature.com

Long-term spatiotemporal evolution of drug-resistant Mycobacterium tuberculosis in China - Nature Communications

Antibiotics have been used to treat tuberculosis for over 80 years. Here, Chen et al. analyze over 18,000 Mycobacterium tuberculosis genomes to reconstruct the temporal and spatial evolution of drug r...

nature.com

PromoterAtlas: decoding regulatory sequences across Gammaproteobacteria using a transformer model - Nature Communications

Coppens & Ledesma-Amaro present a transformer-based computational model trained on 9 million bacterial sequences from over 3,000 species, which enables automated identification of diverse promoter...

nature.com

Glucose-dependent acidification strategy by nectar-dwelling bacteria mediates pollen tube burst - Nature Communications

Nectar bacteria turn floral sugar into a weapon: Acinetobacter converts glucose to gluconic acid, acidifies nectar, and triggers pollen tube burst, revealing a nectar-adapted strategy coupling glucose...

nature.com

Large extrachromosomal replicons are widespread across bacterial lineages and show coordinated replication termination and spatial coupling with the chromosome - Nature Communications

Bacterial genomes often include extrachromosomal replicons, ranging from small plasmids to chromosome-scale replicons. Here, Czarnecki et al. analyse more than 40,000 complete bacterial genomes and sh...

nature.com

Unravelling bacterial complexity at high resolution with single-cell transcriptomics - Nature Microbiology

This Review summarizes recent advances in bacterial single-cell transcriptomics approaches, while also discussing technological and computational challenges remaining to be met and the need for standa...

nature.com

Metabolomics-based and functional validation to explore the effect of the gut microbe-associated metabolite guanidinoacetic acid on rectal adenocarcinoma - Scientific Reports

Scientific Reports - Metabolomics-based and functional validation to explore the effect of the gut microbe-associated metabolite guanidinoacetic acid on rectal adenocarcinoma

nature.com

A microbiome catalog of Chinese traditional artisanal cheeses provides insights into functional and microbial diversity - Nature Communications

While cheese is enjoyed globally, most of the known physiochemical and microbial characteristics are from western cheeses. Here, the authors expand the global catalogue of cheeses by investigating 235...

nature.com

Global genomic and molecular epidemiology of carbapenem-resistant Enterobacter hormaechei - Communications Biology

Global genomic analysis of carbapenem-resistant Enterobacter hormaechei reveals blaNDM-1 and mcr-9 on IncHI2/IncX3 plasmids, with high-risk clones ST171/ST190 driving cross-border and cross-habitat tr...

nature.com

An ancient genome of Streptococcus pyogenes from a pre-Columbian Bolivian mummy - Nature Communications

Streptococcus pyogenes is a human pathogen responsible for a range of diseases. Here, the authors reconstruct an ancient S. pyogenes genome from a pre-Columbian Bolivian mummy, supporting that the pat...

nature.com

Evolution of pandemic cholera at its global source - Nature

The seventh cholera pandemic, driven by El Tor Vibrio cholerae, evolved separately in Bangladesh and India, with the Ganges Basin acting as the global source, and its evolution has been shaped by...

nature.com

Complete genome sequence of Sphingomonas sp. gentR, a high-level gentamicin-resistant bacterium - Scientific Data

Scientific Data - Complete genome sequence of Sphingomonas sp. gentR, a high-level gentamicin-resistant bacterium

nature.com

Integrating ANI and phylogenies for re-evaluation of Fusobacterium taxonomy and disease associations - Nature Communications

Bacteria of the genus Fusobacterium are associated with diverse diseases, but taxonomic ambiguities complicate species-level identification. Here, the authors describe practical methods for Fusobacter...

nature.com

Acinetobacter baumannii’s lifestyle includes soil-dwelling colonization of decaying plant material and airborne spread - Nature Communications

Little is known about the ecology and evolution of the nosocomial pathogen Acinetobacter baumannii outside the hospital. Here, Wilharm et al. show that the lifestyle of A. baumannii includes soil-dwel...

nature.com

Rapid dissemination of Staphylococcus aureus in the neonatal intensive care unit is associated with invasive infection - Nature Communications

In this work, authors use whole genome tracking in a neonatal intensive care unit to reveal a strong link between Staphylococcus aureus colonization and invasive infection, pinpointing critical new ta...

nature.com

A novel polyhydroxyalkanoate-storing bacterium Thauera carbonocopians sp. nov. isolated from a sequencing batch reactor fed with volatile fatty acids - Scientific Reports

Scientific Reports - A novel polyhydroxyalkanoate-storing bacterium Thauera carbonocopians sp. nov. isolated from a sequencing batch reactor fed with volatile fatty acids

nature.com

Genome contamination may lead to an overestimation of horizontal gene transfer inferences - Nature Communications

Nature Communications - Genome contamination may lead to an overestimation of horizontal gene transfer inferences

nature.com

Aeromonas in South Asia: genomic insights into an environmental pathogen and reservoir of antimicrobial resistance - Nature Communications

The bacterial genus Aeromonas includes emerging human pathogens, often misidentified as Vibrio cholerae. Here, the authors analyse genomic sequences of over 1,800 Aeromonas isolates, showing that clin...

nature.com

A comprehensive catalogue of receptor-binding domains in extracellular contractile injection systems - Nature Communications

Extracellular contractile injection systems (eCISs) are bacteriophage tail-derived toxin delivery complexes that are present in many prokaryotes. Here, the authors present an analysis of eCIS tail fib...

nature.com

Client Challenge

nature.com

Client Challenge

nature.com

Client Challenge

nature.com

Persistent virulent phages exist across bacterial isolates - Nature Microbiology

The long-term existence of diverse virulent phages within cultures of Escherichia coli and others challenges the virulent–temperate dichotomy and points to non-canonical phage lifestyles.

nature.com

High frequency body site translocation of nosocomial Pseudomonas aeruginosa - Nature Communications

Here, the authors report within-host diversity and body site translocation dynamics in hospital samples of Pseudomonas aeruginosa and reveal that body site sharing was likely due to within-patient tra...

nature.com

Introgression impacts the evolution of bacteria, but species borders are rarely fuzzy - Nature Communications

It is commonly thought that bacterial species borders tend to be fuzzy, due to frequent exchange of DNA. Here, Diop et al. quantify the patterns of gene flow between core genomes across 50 major bacte...

nature.com

Circulation of Salmonella spp. between humans, animals and the environment in animal-owning households in Malawi - Nature Communications

In this work, Wilson et al., examined sharing of Salmonella between humans, animals and the environment using household samples from Malawi. They revealed an interconnected web of Salmonella circulati...

nature.com