Defining and quantifying the core microbiome: challenges and prospects
AT Neu, EE Allen, K Roy - Proceedings of the National …, 2021 - National Acad Sciences
The term “core microbiome” has become widely used in microbial ecology over the last
decade. Broadly, the core microbiome refers to any set of microbial taxa, or the genomic and …
decade. Broadly, the core microbiome refers to any set of microbial taxa, or the genomic and …
Correlation and association analyses in microbiome study integrating multiomics in health and disease
Y **a - Progress in molecular biology and translational …, 2020 - Elsevier
Correlation and association analyses are one of the most widely used statistical methods in
research fields, including microbiome and integrative multiomics studies. Correlation and …
research fields, including microbiome and integrative multiomics studies. Correlation and …
Acidification suppresses the natural capacity of soil microbiome to fight pathogenic Fusarium infections
Soil-borne pathogens pose a major threat to food production worldwide, particularly under
global change and with growing populations. Yet, we still know very little about how the soil …
global change and with growing populations. Yet, we still know very little about how the soil …
Using MicrobiomeAnalyst for comprehensive statistical, functional, and meta-analysis of microbiome data
MicrobiomeAnalyst is an easy-to-use, web-based platform for comprehensive analysis of
common data outputs generated from current microbiome studies. It enables researchers …
common data outputs generated from current microbiome studies. It enables researchers …
Multivariable association discovery in population-scale meta-omics studies
It is challenging to associate features such as human health outcomes, diet, environmental
conditions, or other metadata to microbial community measurements, due in part to their …
conditions, or other metadata to microbial community measurements, due in part to their …
Enhancing diversity analysis by repeatedly rarefying next generation sequencing data describing microbial communities
Amplicon sequencing has revolutionized our ability to study DNA collected from
environmental samples by providing a rapid and sensitive technique for microbial …
environmental samples by providing a rapid and sensitive technique for microbial …
Predicting measures of soil health using the microbiome and supervised machine learning
Soil health encompasses a range of biological, chemical, and physical soil properties that
sustain the commercial and ecological value of agroecosystems. Monitoring soil health …
sustain the commercial and ecological value of agroecosystems. Monitoring soil health …
Seed-transmitted bacteria and fungi dominate juvenile plant microbiomes
D Johnston-Monje, JP Gutiérrez… - Frontiers in …, 2021 - frontiersin.org
Plant microbiomes play an important role in agricultural productivity, but there is still much to
learn about their provenance, diversity, and organization. In order to study the role of vertical …
learn about their provenance, diversity, and organization. In order to study the role of vertical …
Fossil-fuel-dependent scenarios could lead to a significant decline of global plant-beneficial bacteria abundance in soils by 2100
Exploiting the potential benefits of plant-associated microbes represents a sustainable
approach to enhancing crop productivity. Plant-beneficial bacteria (PBB) provide multiple …
approach to enhancing crop productivity. Plant-beneficial bacteria (PBB) provide multiple …
[HTML][HTML] ITS alchemy: on the use of ITS as a DNA marker in fungal ecology
H Kauserud - Fungal Ecology, 2023 - Elsevier
High throughput sequencing of PCR amplicons derived from environmental DNA (aka DNA
metabarcoding) has become an integral part of fungal ecology, enabling in-depth …
metabarcoding) has become an integral part of fungal ecology, enabling in-depth …