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Article
Open AccessMicrobiome confounders and quantitative profiling challenge predicted microbial targets in colorectal cancer development
Despite substantial progress in cancer microbiome research, recognized confounders and advances in absolute microbiome quantification remain underused; this raises concerns regarding potential spurious associa...
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Article
Open AccessEvidence of a causal and modifiable relationship between kidney function and circulating trimethylamine N-oxide
The host-microbiota co-metabolite trimethylamine N-oxide (TMAO) is linked to increased cardiovascular risk but how its circulating levels are regulated remains unclear. We applied “explainable” machine learning, ...
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Open AccessThe gut microbiota contributes to the pathogenesis of anorexia nervosa in humans and mice
Anorexia nervosa (AN) is an eating disorder with a high mortality. About 95% of cases are women and it has a population prevalence of about 1%, but evidence-based treatment is lacking. The pathogenesis of AN p...
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Open AccessEffect of cryopreservation medium conditions on growth and isolation of gut anaerobes from human faecal samples
Novel strategies for anaerobic bacterial isolations from human faecal samples and various initiatives to generate culture collections of gut-derived bacteria have instigated considerable interest for the devel...
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Open AccessMicrobiome and metabolome features of the cardiometabolic disease spectrum
Previous microbiome and metabolome analyses exploring non-communicable diseases have paid scant attention to major confounders of study outcomes, such as common, pre-morbid and co-morbid conditions, or polypha...
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Article
Open AccessVariation and transmission of the human gut microbiota across multiple familial generations
Although the composition and functional potential of the human gut microbiota evolve over the lifespan, kinship has been identified as a key covariate of microbial community diversification. However, to date, ...
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Article
Combinatorial, additive and dose-dependent drug–microbiome associations
During the transition from a healthy state to cardiometabolic disease, patients become heavily medicated, which leads to an increasingly aberrant gut microbiome and serum metabolome, and complicates biomarker ...
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Article
Open AccessNovel insights into the genetically obese (ob/ob) and diabetic (db/db) mice: two sides of the same coin
Leptin-deficient ob/ob mice and leptin receptor-deficient db/db mice are commonly used mice models mimicking the conditions of obesity and type 2 diabetes development. However, although ob/ob and db/db mice are s...
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Open AccessBenchmarking microbiome transformations favors experimental quantitative approaches to address compositionality and sampling depth biases
While metagenomic sequencing has become the tool of preference to study host-associated microbial communities, downstream analyses and clinical interpretation of microbiome data remains challenging due to the ...
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Large-scale association analyses identify host factors influencing human gut microbiome composition
To study the effect of host genetics on gut microbiome composition, the MiBioGen consortium curated and analyzed genome-wide genotypes and 16S fecal microbiome data from 18,340 individuals (24 cohorts). Microb...
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Open AccessAuthor Correction: Imidazole propionate is increased in diabetes and associated with dietary patterns and altered microbial ecology
A Correction to this paper has been published: https://doi.org/10.1038/s41467-020-20412-9.
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Open AccessImidazole propionate is increased in diabetes and associated with dietary patterns and altered microbial ecology
Microbiota-host-diet interactions contribute to the development of metabolic diseases. Imidazole propionate is a novel microbially produced metabolite from histidine, which impairs glucose metabolism. Here, we...
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Article
Genome-wide associations of human gut microbiome variation and implications for causal inference analyses
Recent population-based1–4 and clinical studies5 have identified a range of factors associated with human gut microbiome variation. Murine quantitative trait loci6, human twin studies7 and microbiome genome-wide ...
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Statin therapy is associated with lower prevalence of gut microbiota dysbiosis
Microbiome community ty** analyses have recently identified the Bacteroides2 (Bact2) enterotype, an intestinal microbiota configuration that is associated with systemic inflammation and has a high prevalence in...
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Quantitative microbiome profiling disentangles inflammation- and bile duct obstruction-associated microbiota alterations across PSC/IBD diagnoses
Recent work has highlighted the importance of confounder control in microbiome association studies1,2. For instance, multiple pathologies previously linked to gut ecosystem dysbiosis display concomitant changes i...
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Supplementation with Akkermansia muciniphila in overweight and obese human volunteers: a proof-of-concept exploratory study
Metabolic syndrome is characterized by a constellation of comorbidities that predispose individuals to an increased risk of develo** cardiovascular pathologies as well as type 2 diabetes mellitus1. The gut micr...
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The neuroactive potential of the human gut microbiota in quality of life and depression
The relationship between gut microbial metabolism and mental health is one of the most intriguing and controversial topics in microbiome research. Bidirectional microbiota–gut–brain communication has mostly be...
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Open AccessA low-gluten diet induces changes in the intestinal microbiome of healthy Danish adults
Adherence to a low-gluten diet has become increasingly common in parts of the general population. However, the effects of reducing gluten-rich food items including wheat, barley and rye cereals in healthy adul...
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Richness and ecosystem development across faecal snapshots of the gut microbiota
Faecal microbiota richness is considered a hallmark of gut health and stability. However, in healthy hosts, richness would primarily reflect the stage of ecosystem development through the gut, rather than comm...
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Quantitative microbiome profiling links gut community variation to microbial load
Quantitive microbiome profiling reveals that total microbial load is an important determinant of enterotypes and may be a key driver of microbiota alterations in patients with Crohn’s disease.
