Best practices in metabarcoding of fungi: from experimental design to results

L Tedersoo, M Bahram, L Zinger, RH Nilsson… - Molecular …, 2022 - Wiley Online Library
The development of high‐throughput sequencing (HTS) technologies has greatly improved
our capacity to identify fungi and unveil their ecological roles across a variety of ecosystems …

[HTML][HTML] The gut microbiome in coronary artery disease and heart failure: Current knowledge and future directions

M Trøseid, GØ Andersen, K Broch, JR Hov - EBioMedicine, 2020 - thelancet.com
Host-microbiota interactions involving inflammatory and metabolic pathways have been
linked to the pathogenesis of multiple immune-mediated diseases and metabolic conditions …

Gut microbially produced indole-3-propionic acid inhibits atherosclerosis by promoting reverse cholesterol transport and its deficiency is causally related to …

H Xue, X Chen, C Yu, Y Deng, Y Zhang… - Circulation …, 2022 - Am Heart Assoc
Background: Accumulating evidence has shown that disorders in the gut microbiota and
derived metabolites affect the development of atherosclerotic cardiovascular disease …

Gut microbiota composition is related to AD pathology

BJH Verhaar, HMA Hendriksen, FA de Leeuw… - Frontiers in …, 2022 - frontiersin.org
Introduction Several studies have reported alterations in gut microbiota composition of
Alzheimer's disease (AD) patients. However, the observed differences are not consistent …

16S rRNA gene analysis with QIIME2

M Hall, RG Beiko - Microbiome analysis: methods and protocols, 2018 - Springer
Microbial marker-gene sequence data can be used to generate comprehensive taxonomic
profiles of the microorganisms present in a given community and for other community …

Antimicrobials from human skin commensal bacteria protect against Staphylococcus aureus and are deficient in atopic dermatitis

T Nakatsuji, TH Chen, S Narala, KA Chun… - Science translational …, 2017 - science.org
The microbiome can promote or disrupt human health by influencing both adaptive and
innate immune functions. We tested whether bacteria that normally reside on human skin …

The madness of microbiome: attempting to find consensus “best practice” for 16S microbiome studies

J Pollock, L Glendinning, T Wisedchanwet… - Applied and …, 2018 - Am Soc Microbiol
The development and continuous improvement of high-throughput sequencing platforms
have stimulated interest in the study of complex microbial communities. Currently, the most …

[HTML][HTML] Gut microbiota and metabolites associate with outcomes of immune checkpoint inhibitor–treated unresectable hepatocellular carcinoma

PC Lee, CJ Wu, YW Hung, CJ Lee, CT Chi… - … for immunotherapy of …, 2022 - ncbi.nlm.nih.gov
Background Immune checkpoint inhibitors (ICIs) are promising agents for unresectable
hepatocellular carcinoma (uHCC), but lack effective biomarker to predict outcomes. The gut …

Improved bacterial 16S rRNA gene (V4 and V4-5) and fungal internal transcribed spacer marker gene primers for microbial community surveys

W Walters, ER Hyde, D Berg-Lyons, G Ackermann… - Msystems, 2016 - Am Soc Microbiol
Designing primers for PCR-based taxonomic surveys that amplify a broad range of
phylotypes in varied community samples is a difficult challenge, and the comparability of …

Gut microbial metabolites limit the frequency of autoimmune T cells and protect against type 1 diabetes

E Mariño, JL Richards, KH McLeod, D Stanley… - Nature …, 2017 - nature.com
Gut dysbiosis might underlie the pathogenesis of type 1 diabetes. In mice of the non-obese
diabetic (NOD) strain, we found that key features of disease correlated inversely with blood …