Genomic surveillance for antimicrobial resistance—a One Health perspective
SP Djordjevic, VM Jarocki, T Seemann… - Nature Reviews …, 2024 - nature.com
Antimicrobial resistance (AMR)—the ability of microorganisms to adapt and survive under
diverse chemical selection pressures—is influenced by complex interactions between …
diverse chemical selection pressures—is influenced by complex interactions between …
Challenges and opportunities in sharing microbiome data and analyses
Microbiome data, metadata and analytical workflows have become 'big'in terms of volume
and complexity. Although the infrastructure and technologies to share data have been …
and complexity. Although the infrastructure and technologies to share data have been …
Metagenomics of Parkinson's disease implicates the gut microbiome in multiple disease mechanisms
Parkinson's disease (PD) may start in the gut and spread to the brain. To investigate the role
of gut microbiome, we conducted a large-scale study, at high taxonomic resolution, using …
of gut microbiome, we conducted a large-scale study, at high taxonomic resolution, using …
Standardized multi-omics of Earth's microbiomes reveals microbial and metabolite diversity
Despite advances in sequencing, lack of standardization makes comparisons across studies
challenging and hampers insights into the structure and function of microbial communities …
challenging and hampers insights into the structure and function of microbial communities …
[HTML][HTML] Biosynthetic potential of the global ocean microbiome
Natural microbial communities are phylogenetically and metabolically diverse. In addition to
underexplored organismal groups, this diversity encompasses a rich discovery potential for …
underexplored organismal groups, this diversity encompasses a rich discovery potential for …
A deep siamese neural network improves metagenome-assembled genomes in microbiome datasets across different environments
Metagenomic binning is the step in building metagenome-assembled genomes (MAGs)
when sequences predicted to originate from the same genome are automatically grouped …
when sequences predicted to originate from the same genome are automatically grouped …
<? mode longmeta?> SPIRE: a Searchable, Planetary-scale mIcrobiome REsource
Meta'omic data on microbial diversity and function accrue exponentially in public
repositories, but derived information is often siloed according to data type, study or sampled …
repositories, but derived information is often siloed according to data type, study or sampled …
Emu: species-level microbial community profiling of full-length 16S rRNA Oxford Nanopore sequencing data
Abstract 16S ribosomal RNA-based analysis is the established standard for elucidating the
composition of microbial communities. While short-read 16S rRNA analyses are largely …
composition of microbial communities. While short-read 16S rRNA analyses are largely …
[HTML][HTML] A review of computational tools for generating metagenome-assembled genomes from metagenomic sequencing data
Metagenomic sequencing provides a culture-independent avenue to investigate the
complex microbial communities by constructing metagenome-assembled genomes (MAGs) …
complex microbial communities by constructing metagenome-assembled genomes (MAGs) …
Benchmarking second and third-generation sequencing platforms for microbial metagenomics
Shotgun metagenomic sequencing is a common approach for studying the taxonomic
diversity and metabolic potential of complex microbial communities. Current methods …
diversity and metabolic potential of complex microbial communities. Current methods …