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 …

Identifying biases and their potential solutions in human microbiome studies

JT Nearing, AM Comeau, MGI Langille - Microbiome, 2021 - Springer
Advances in DNA sequencing technology have vastly improved the ability of researchers to
explore the microbial inhabitants of the human body. Unfortunately, while these studies have …

Defining the core Arabidopsis thaliana root microbiome

DS Lundberg, SL Lebeis, SH Paredes, S Yourstone… - Nature, 2012 - nature.com
Land plants associate with a root microbiota distinct from the complex microbial community
present in surrounding soil. The microbiota colonizing the rhizosphere (immediately …

Ribosomal Database Project: data and tools for high throughput rRNA analysis

JR Cole, Q Wang, JA Fish, B Chai… - Nucleic acids …, 2014 - academic.oup.com
Abstract Ribosomal Database Project (RDP; http://rdp. cme. msu. edu/) provides the
research community with aligned and annotated rRNA gene sequence data, along with tools …

[HTML][HTML] Metabolic functions of gut microbes associate with efficacy of tumor necrosis factor antagonists in patients with inflammatory bowel diseases

K Aden, A Rehman, S Waschina, WH Pan, A Walker… - Gastroenterology, 2019 - Elsevier
Background & Aims Altered interactions between the mucosal immune system and intestinal
microbiota contribute to pathogenesis of inflammatory bowel diseases (IBD). It is not clear …

The role of the intestinal microbiota in type 1 diabetes mellitus

M Knip, H Siljander - Nature Reviews Endocrinology, 2016 - nature.com
Type 1 diabetes mellitus (T1DM) is a chronic immune-mediated disease with a subclinical
prodromal period, characterized by selective loss of insulin-producing-β cells in the …

Conversion of the Amazon rainforest to agriculture results in biotic homogenization of soil bacterial communities

JLM Rodrigues, VH Pellizari… - Proceedings of the …, 2013 - National Acad Sciences
The Amazon rainforest is the Earth's largest reservoir of plant and animal diversity, and it has
been subjected to especially high rates of land use change, primarily to cattle pasture. This …

Contemporary environmental variation determines microbial diversity patterns in acid mine drainage

JL Kuang, LN Huang, LX Chen, ZS Hua, SJ Li… - The ISME …, 2013 - academic.oup.com
A wide array of microorganisms survive and thrive in extreme environments. However, we
know little about the patterns of, and controls over, their large-scale ecological distribution …

Analysis of the mouse gut microbiome using full-length 16S rRNA amplicon sequencing

J Shin, S Lee, MJ Go, SY Lee, SC Kim, CH Lee… - Scientific reports, 2016 - nature.com
Demands for faster and more accurate methods to analyze microbial communities from
natural and clinical samples have been increasing in the medical and healthcare industry …

Impact of next generation sequencing techniques in food microbiology

B Mayo, C TCC Rachid, Á Alegría, A MO Leite… - Current …, 2014 - ingentaconnect.com
Understanding the Maxam-Gilbert and Sanger sequencing as the first generation, in recent
years there has been an explosion of newly-developed sequencing strategies, which are …