[HTML][HTML] 25 years of serving the community with ribosomal RNA gene reference databases and tools
FO Glöckner, P Yilmaz, C Quast, J Gerken… - Journal of …, 2017 - Elsevier
SILVA (lat. forest) is a comprehensive web resource, providing services around up to date,
high-quality datasets of aligned ribosomal RNA gene (rDNA) sequences from the Bacteria …
high-quality datasets of aligned ribosomal RNA gene (rDNA) sequences from the Bacteria …
Reintroducing mothur: 10 years later
PD Schloss - Applied and environmental microbiology, 2020 - Am Soc Microbiol
More than 10 years ago, we published the paper describing the mothur software package in
Applied and Environmental Microbiology. Our goal was to create a comprehensive package …
Applied and Environmental Microbiology. Our goal was to create a comprehensive package …
Lactobacillus gallinarum modulates the gut microbiota and produces anti-cancer metabolites to protect against colorectal tumourigenesis
Objective Using faecal shotgun metagenomic sequencing, we identified the depletion of
Lactobacillus gallinarum in patients with colorectal cancer (CRC). We aimed to determine …
Lactobacillus gallinarum in patients with colorectal cancer (CRC). We aimed to determine …
Physiological response of maize plants and its rhizospheric microbiome under the influence of potential bioinoculants and nanochitosan
U Agri, P Chaudhary, A Sharma, B Kukreti - Plant and Soil, 2022 - Springer
Background and aims Agriculture production is necessary to ensure food security for
overgrowing human population. Chemical manures are extensively used in agriculture …
overgrowing human population. Chemical manures are extensively used in agriculture …
Updating the 97% identity threshold for 16S ribosomal RNA OTUs
RC Edgar - Bioinformatics, 2018 - academic.oup.com
Abstract Motivation The 16S ribosomal RNA (rRNA) gene is widely used to survey microbial
communities. Sequences are often clustered into Operational Taxonomic Units (OTUs) as …
communities. Sequences are often clustered into Operational Taxonomic Units (OTUs) as …
[HTML][HTML] Gavage of fecal samples from patients with colorectal cancer promotes intestinal carcinogenesis in germ-free and conventional mice
Background & Aims Altered gut microbiota is implicated in development of colorectal cancer
(CRC). Some intestinal bacteria have been reported to potentiate intestinal carcinogenesis …
(CRC). Some intestinal bacteria have been reported to potentiate intestinal carcinogenesis …
Gut microbiota dysbiosis in patients with non-alcoholic fatty liver disease
F Shen, RD Zheng, XQ Sun, WJ Ding, XY Wang… - … & Pancreatic Diseases …, 2017 - Elsevier
Background Gut microbiota plays a significant role in the pathogenesis of non-alcoholic fatty
liver disease (NAFLD). This study aimed to assess the contribution of gut microbiota …
liver disease (NAFLD). This study aimed to assess the contribution of gut microbiota …
[HTML][HTML] Modulation of gut microbiota by berberine and metformin during the treatment of high-fat diet-induced obesity in rats
Accumulating evidence suggests that the gut microbiota is an important factor in mediating
the development of obesity-related metabolic disorders, including type 2 diabetes. Metformin …
the development of obesity-related metabolic disorders, including type 2 diabetes. Metformin …
[HTML][HTML] The links between ecosystem multifunctionality and above-and belowground biodiversity are mediated by climate
Plant biodiversity is often correlated with ecosystem functioning in terrestrial ecosystems.
However, we know little about the relative and combined effects of above-and belowground …
However, we know little about the relative and combined effects of above-and belowground …
[HTML][HTML] phyloseq: an R package for reproducible interactive analysis and graphics of microbiome census data
PJ McMurdie, S Holmes - PloS one, 2013 - journals.plos.org
Background The analysis of microbial communities through DNA sequencing brings many
challenges: the integration of different types of data with methods from ecology, genetics …
challenges: the integration of different types of data with methods from ecology, genetics …