Linking plant secondary metabolites and plant microbiomes: a review

Z Pang, J Chen, T Wang, C Gao, Z Li, L Guo… - Frontiers in plant …, 2021 - frontiersin.org
Plant secondary metabolites (PSMs) play many roles including defense against pathogens,
pests, and herbivores; response to environmental stresses, and mediating organismal …

An updated review on bacterial community composition of traditional fermented milk products: what next-generation sequencing has revealed so far?

GV de Melo Pereira, DP de Carvalho Neto… - Critical Reviews in …, 2022 - Taylor & Francis
The emergence of next-generation sequencing (NGS) technologies has revolutionized the
way to investigate the microbial diversity in traditional fermentations. In the field of food …

Statistical and machine learning techniques in human microbiome studies: contemporary challenges and solutions

I Moreno-Indias, L Lahti, M Nedyalkova… - Frontiers in …, 2021 - frontiersin.org
The human microbiome has emerged as a central research topic in human biology and
biomedicine. Current microbiome studies generate high-throughput omics data across …

Long-term soil management practices influence the rhizosphere microbial community structure and bacterial function of hilly apple orchard soil

B Xie, Y Chen, C Cheng, R Ma, D Zhao, Z Li, Y Li… - Applied Soil …, 2022 - Elsevier
Long-term traditional clean tillage (CT) causes soil nutrient losses in hilly apple orchards.
Thus, suitable soil management practices are needed to reduce these losses and achieve …

Bioinformatics: new tools and applications in life science and personalized medicine

I Branco, A Choupina - Applied microbiology and biotechnology, 2021 - Springer
While we have a basic understanding of the functioning of the gene when coding sequences
of specific proteins, we feel the lack of information on the role that DNA has on specific …

Biochar mitigates the negative effect of chloropicrin fumigation on beneficial soil microorganisms

W Fang, Z Song, S Tao, D Zhang, B Huang… - Science of the Total …, 2020 - Elsevier
Chloropicrin (CP) is the most commonly used soil fumigant worldwide. Although CP
effectively controls soilborne pathogens, it is also detrimental to beneficial soil …

Cascabel: A Scalable and Versatile Amplicon Sequence Data Analysis Pipeline Delivering Reproducible and Documented Results

A Abdala Asbun, MA Besseling, S Balzano… - Frontiers in …, 2020 - frontiersin.org
Marker gene sequencing of the rRNA operon (16S, 18S, ITS) or cytochrome c oxidase I
(CO1) is a popular means to assess microbial communities of the environment, microbiomes …

Namco: a microbiome explorer

A Dietrich, MS Matchado, M Zwiebel… - Microbial …, 2022 - microbiologyresearch.org
16S rRNA gene profiling is currently the most widely used technique in microbiome research
and allows the study of microbial diversity, taxonomic profiling, phylogenetics, functional and …

BIOCOM-PIPE: a new user-friendly metabarcoding pipeline for the characterization of microbial diversity from 16S, 18S and 23S rRNA gene amplicons

C Djemiel, S Dequiedt, B Karimi, A Cottin, T Girier… - BMC …, 2020 - Springer
Background The ability to compare samples or studies easily using metabarcoding so as to
better interpret microbial ecology results is an upcoming challenge. A growing number of …

An insight into vaginal microbiome techniques

M Sharma, C Chopra, M Mehta, V Sharma… - Life, 2021 - mdpi.com
Background There is a unique microbial community in the female lower genital tract known
as the vaginal microbiota, which varies in composition and density and provides significant …