The firmicutes/bacteroidetes ratio: a relevant marker of gut dysbiosis in obese patients?
The gut microbiota is emerging as a promising target for the management or prevention of
inflammatory and metabolic disorders in humans. Many of the current research efforts are …
inflammatory and metabolic disorders in humans. Many of the current research efforts are …
Limitations and opportunities of technologies for the analysis of cell-free DNA in cancer diagnostics
Cell-free DNA (cfDNA) in the circulating blood plasma of patients with cancer contains
tumour-derived DNA sequences that can serve as biomarkers for guiding therapy, for the …
tumour-derived DNA sequences that can serve as biomarkers for guiding therapy, for the …
Optimizing taxonomic classification of marker-gene amplicon sequences with QIIME 2's q2-feature-classifier plugin
Background Taxonomic classification of marker-gene sequences is an important step in
microbiome analysis. Results We present q2-feature-classifier (https://github. com/qiime2/q2 …
microbiome analysis. Results We present q2-feature-classifier (https://github. com/qiime2/q2 …
Soil pH mediates the balance between stochastic and deterministic assembly of bacteria
Little is known about the factors affecting the relative influences of stochastic and
deterministic processes that govern the assembly of microbial communities in successional …
deterministic processes that govern the assembly of microbial communities in successional …
An amplicon-based sequencing framework for accurately measuring intrahost virus diversity using PrimalSeq and iVar
How viruses evolve within hosts can dictate infection outcomes; however, reconstructing this
process is challenging. We evaluate our multiplexed amplicon approach, PrimalSeq, to …
process is challenging. We evaluate our multiplexed amplicon approach, PrimalSeq, to …
Revisiting plant–microbe interactions and microbial consortia application for enhancing sustainable agriculture: a review
K Vishwakarma, N Kumar, C Shandilya… - Frontiers in …, 2020 - frontiersin.org
The present scenario of agricultural sector is dependent hugely on the use of chemical-
based fertilizers and pesticides that impact the nutritional quality, health status, and …
based fertilizers and pesticides that impact the nutritional quality, health status, and …
UNOISE2: improved error-correction for Illumina 16S and ITS amplicon sequencing
RC Edgar - BioRxiv, 2016 - biorxiv.org
Amplicon sequencing of tags such as 16S and ITS ribosomal RNA is a popular method for
investigating microbial populations. In such experiments, sequence errors caused by PCR …
investigating microbial populations. In such experiments, sequence errors caused by PCR …
DNA metabarcoding—Need for robust experimental designs to draw sound ecological conclusions
DNA metabarcoding, especially when coupled with high‐through‐put DNA sequencing, is
currently revolutionizing our capacity to assess biodiversity across a full range of taxa and …
currently revolutionizing our capacity to assess biodiversity across a full range of taxa and …
[HTML][HTML] The future of biotic indices in the ecogenomic era: Integrating (e) DNA metabarcoding in biological assessment of aquatic ecosystems
The bioassessment of aquatic ecosystems is currently based on various biotic indices that
use the occurrence and/or abundance of selected taxonomic groups to define ecological …
use the occurrence and/or abundance of selected taxonomic groups to define ecological …
UMI-tools: modeling sequencing errors in Unique Molecular Identifiers to improve quantification accuracy
Unique Molecular Identifiers (UMIs) are random oligonucleotide barcodes that are
increasingly used in high-throughput sequencing experiments. Through a UMI, identical …
increasingly used in high-throughput sequencing experiments. Through a UMI, identical …