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Full text 2025

Targeted probe capture metagenomics-enabled surveillance of multidrug-resistant organisms and antimicrobial resistance genes in post-handwashing areas of public washrooms

Lam AY, Lau CH, Tam WY, et al.

<h4>Background</h4>Public washrooms (toilets) are potential hubs for pathogen transmission, yet the risk of microbial re-contamination via post-handwashing surfaces remains understudied. We characterized the prevalence and distribution of multidrug-resistant organisms (MDROs) and antimicrobial resistance genes (ARGs) …

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Metagenomics
Full text 2025

Lung microbiome dynamics in health and lung cancer

Kanteres T, Angelakopoulou IM, Angelakopoulou EA, et al.

Application of culture-independent sequencing technologies has revealed the presence of a low-biomass, high-diversity microbiome within healthy human lungs. This community is highly dynamic, with microbes constantly being introduced into and cleared from healthy airways, and …

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Metagenomics
Full text 2026

Taxonomy bias in metagenome-assembled genome recovery

Nebauer DJ, Nelson T, Romanis C, et al.

The recovery of metagenome-assembled genomes (MAGs) from shotgun metagenomic sequencing is rapidly expanding the availability of representative genomes. However, this practice may skew the representation of specific taxa in real-world datasets. This bias is attributed …

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Metagenomics
Full text 2025

Metagenomic insights into viral dynamics and funcation in Baijiu

Zhang H, Zhang H, Du H, et al.

Baijiu fermentation represents a sophisticated microbial-driven biochemical process mediated by complex microbial consortium. Despite extensive characterization of bacterial and fungal roles in fermentation systems, the virus remains a critical knowledge gap. In this study,we employed …

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Metagenomics
Full text 2026

MicroAgroBiome: a toolkit for exploring specialized metabolism and ecological interactions in rhizosphere microbiomes of cultivated crops

Aguilar C, Fontove-Herrera F, Pashkov A, et al.

The microbiome is crucial to agroecosystems, as it influences plant nutrition, resilience, and overall health. Recent advances in metagenomics have expanded our understanding of plant-microbe interactions, yet curated, high-resolution data capturing the global diversity of …

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Metagenomics
Full text 2026

Draft genome sequences of the pathogenic fungi &lt;i&gt;Scedosporium aurantiacum&lt;/i&gt; and &lt;i&gt;Scedosporium apiospermum&lt;/i&gt; from clinical isolates

Montgomery ST, Rezaee H, Sbaraini N, et al.

<i>Scedosporium</i> species are filamentous fungi with inherent broad antifungal resistance that pose opportunistic infection threats. We present draft genome assemblies of <i>S. aurantiacum</i> (11 contigs) and <i>S. apiospermum</i> (9 contigs), derived from Oxford Nanopore sequencing …

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Nanopore Sequencing