[HTML][HTML] Next-generation sequencing: insights to advance clinical investigations of the microbiome

CR Wensel, JL Pluznick, SL Salzberg… - The Journal of clinical …, 2022 - Am Soc Clin Investig
Next-generation sequencing (NGS) technology has advanced our understanding of the
human microbiome by allowing for the discovery and characterization of unculturable …

Prevotella diversity, niches and interactions with the human host

A Tett, E Pasolli, G Masetti, D Ercolini… - Nature Reviews …, 2021 - nature.com
The genus Prevotella includes more than 50 characterized species that occur in varied
natural habitats, although most Prevotella spp. are associated with humans. In the human …

[HTML][HTML] Extending and improving metagenomic taxonomic profiling with uncharacterized species using MetaPhlAn 4

A Blanco-Míguez, F Beghini, F Cumbo, LJ McIver… - Nature …, 2023 - nature.com
Metagenomic assembly enables new organism discovery from microbial communities, but it
can only capture few abundant organisms from most metagenomes. Here we present …

Environmental factors shaping the gut microbiome in a Dutch population

R Gacesa, A Kurilshikov, A Vich Vila, T Sinha… - Nature, 2022 - nature.com
The gut microbiome is associated with diverse diseases,–, but a universal signature of a
healthy or unhealthy microbiome has not been identified, and there is a need to understand …

[HTML][HTML] Influence of the microbiome, diet and genetics on inter-individual variation in the human plasma metabolome

L Chen, DV Zhernakova, A Kurilshikov… - Nature medicine, 2022 - nature.com
The levels of the thousands of metabolites in the human plasma metabolome are strongly
influenced by an individual's genetics and the composition of their diet and gut microbiome …

Majorbio Cloud: A one‐stop, comprehensive bioinformatic platform for multiomics analyses

Y Ren, G Yu, C Shi, L Liu, Q Guo, C Han, D Zhang… - IMeta, 2022 - Wiley Online Library
The rapid developments of high‐throughput sequencing technology in the last decade
allowed the emergence of multiomics analyses. Analytic platforms for high‐throughput omics …

[HTML][HTML] Genome-scale metabolic reconstruction of 7,302 human microorganisms for personalized medicine

A Heinken, J Hertel, G Acharya, DA Ravcheev… - Nature …, 2023 - nature.com
The human microbiome influences the efficacy and safety of a wide variety of commonly
prescribed drugs. Designing precision medicine approaches that incorporate microbial …

[HTML][HTML] Cross-cohort gut microbiome associations with immune checkpoint inhibitor response in advanced melanoma

KA Lee, AM Thomas, LA Bolte, JR Björk… - Nature Medicine, 2022 - nature.com
The composition of the gut microbiome has been associated with clinical responses to
immune checkpoint inhibitor (ICI) treatment, but there is limited consensus on the specific …

[HTML][HTML] Autism-related dietary preferences mediate autism-gut microbiome associations

CX Yap, AK Henders, GA Alvares, DLA Wood… - Cell, 2021 - cell.com
There is increasing interest in the potential contribution of the gut microbiome to autism
spectrum disorder (ASD). However, previous studies have been underpowered and have …

[HTML][HTML] Design, construction, and in vivo augmentation of a complex gut microbiome

AG Cheng, PY Ho, A Aranda-Díaz, S Jain, BY Feiqiao… - Cell, 2022 - cell.com
Efforts to model the human gut microbiome in mice have led to important insights into the
mechanisms of host-microbe interactions. However, the model communities studied to date …