[HTML][HTML] Gut microbiota beyond bacteria—mycobiome, virome, archaeome, and eukaryotic parasites in IBD

M Matijašić, T Meštrović, H Čipčić Paljetak… - International journal of …, 2020 - mdpi.com
The human microbiota is a diverse microbial ecosystem associated with many beneficial
physiological functions as well as numerous disease etiologies. Dominated by bacteria, the …

Forgotten fungi—the gut mycobiome in human health and disease

CE Huseyin, PW O'Toole, PD Cotter… - FEMS Microbiology …, 2017 - academic.oup.com
The human body is home to a complex and diverse microbial ecosystem that plays a central
role in host health. This includes a diversity of fungal species that is collectively referred to …

[HTML][HTML] Microplastics affect sedimentary microbial communities and nitrogen cycling

ME Seeley, B Song, R Passie, RC Hale - Nature communications, 2020 - nature.com
Microplastics are ubiquitous in estuarine, coastal, and deep sea sediments. The impacts of
microplastics on sedimentary microbial ecosystems and biogeochemical carbon and …

[HTML][HTML] Standardized multi-omics of Earth's microbiomes reveals microbial and metabolite diversity

JP Shaffer, LF Nothias, LR Thompson, JG Sanders… - Nature …, 2022 - nature.com
Despite advances in sequencing, lack of standardization makes comparisons across studies
challenging and hampers insights into the structure and function of microbial communities …

[HTML][HTML] Bifidobacteria-mediated immune system imprinting early in life

BM Henrick, L Rodriguez, T Lakshmikanth, C Pou… - Cell, 2021 - cell.com
Immune-microbe interactions early in life influence the risk of allergies, asthma, and other
inflammatory diseases. Breastfeeding guides healthier immune-microbe relationships by …

The fungal mycobiome promotes pancreatic oncogenesis via activation of MBL

B Aykut, S Pushalkar, R Chen, Q Li, R Abengozar… - Nature, 2019 - nature.com
Bacterial dysbiosis accompanies carcinogenesis in malignancies such as colon and liver
cancer, and has recently been implicated in the pathogenesis of pancreatic ductal …

Structure and function of the global topsoil microbiome

M Bahram, F Hildebrand, SK Forslund, JL Anderson… - Nature, 2018 - nature.com
Soils harbour some of the most diverse microbiomes on Earth and are essential for both
nutrient cycling and carbon storage. To understand soil functioning, it is necessary to model …

Regional variation limits applications of healthy gut microbiome reference ranges and disease models

Y He, W Wu, HM Zheng, P Li, D McDonald, HF Sheng… - Nature medicine, 2018 - nature.com
Dysbiosis, departure of the gut microbiome from a healthy state, has been suggested to be a
powerful biomarker of disease incidence and progression,–. Diagnostic applications have …

[HTML][HTML] Simple statistical identification and removal of contaminant sequences in marker-gene and metagenomics data

NM Davis, DM Proctor, SP Holmes, DA Relman… - Microbiome, 2018 - Springer
Background The accuracy of microbial community surveys based on marker-gene and
metagenomic sequencing (MGS) suffers from the presence of contaminants—DNA …

Identification of environmental factors that promote intestinal inflammation

LM Sanmarco, CC Chao, YC Wang, JE Kenison, Z Li… - Nature, 2022 - nature.com
Genome-wide association studies have identified risk loci linked to inflammatory bowel
disease (IBD)—a complex chronic inflammatory disorder of the gastrointestinal tract. The …