Bile acids and the gut microbiota: metabolic interactions and impacts on disease

SL Collins, JG Stine, JE Bisanz, CD Okafor… - Nature Reviews …, 2023 - nature.com
Despite decades of bile acid research, diverse biological roles for bile acids have been
discovered recently due to developments in understanding the human microbiota. As …

Gut microbiota in colorectal cancer development and therapy

CC Wong, J Yu - Nature Reviews Clinical Oncology, 2023 - nature.com
Colorectal cancer (CRC) is one of the commonest cancers globally. A unique aspect of CRC
is its intimate association with the gut microbiota, which forms an essential part of the tumour …

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 …

Nucleotide Transformer: building and evaluating robust foundation models for human genomics

H Dalla-Torre, L Gonzalez, J Mendoza-Revilla… - Nature …, 2024 - nature.com
The prediction of molecular phenotypes from DNA sequences remains a longstanding
challenge in genomics, often driven by limited annotated data and the inability to transfer …

Oral microbiota in human systematic diseases

X Peng, L Cheng, Y You, C Tang, B Ren, Y Li… - International journal of …, 2022 - nature.com
Oral bacteria directly affect the disease status of dental caries and periodontal diseases. The
dynamic oral microbiota cooperates with the host to reflect the information and status of …

Cross-feeding in the gut microbiome: ecology and mechanisms

EJ Culp, AL Goodman - Cell host & microbe, 2023 - cell.com
Microbial communities are shaped by positive and negative interactions ranging from
competition to mutualism. In the context of the mammalian gut and its microbial inhabitants …

Defining and quantifying the core microbiome: challenges and prospects

AT Neu, EE Allen, K Roy - Proceedings of the National …, 2021 - National Acad Sciences
The term “core microbiome” has become widely used in microbial ecology over the last
decade. Broadly, the core microbiome refers to any set of microbial taxa, or the genomic and …

[HTML][HTML] MicrobiotaProcess: A comprehensive R package for deep mining microbiome

S Xu, L Zhan, W Tang, Q Wang, Z Dai, L Zhou, T Feng… - The Innovation, 2023 - cell.com
The data output from microbiome research is growing at an accelerating rate, yet mining the
data quickly and efficiently remains difficult. There is still a lack of an effective data structure …

High-fat, western-style diet, systemic inflammation, and gut microbiota: a narrative review

IJ Malesza, M Malesza, J Walkowiak, N Mussin… - Cells, 2021 - mdpi.com
The gut microbiota is responsible for recovering energy from food, providing hosts with
vitamins, and providing a barrier function against exogenous pathogens. In addition, it is …

Vaginal microbiota and the potential of Lactobacillus derivatives in maintaining vaginal health

WJY Chee, SY Chew, LTL Than - Microbial cell factories, 2020 - Springer
Human vagina is colonised by a diverse array of microorganisms that make up the normal
microbiota and mycobiota. Lactobacillus is the most frequently isolated microorganism from …