[HTML][HTML] 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 …

A practical guide to amplicon and metagenomic analysis of microbiome data

YX Liu, Y Qin, T Chen, M Lu, X Qian, X Guo… - Protein & cell, 2021 - academic.oup.com
Advances in high-throughput sequencing (HTS) have fostered rapid developments in the
field of microbiome research, and massive microbiome datasets are now being generated …

microeco: an R package for data mining in microbial community ecology

C Liu, Y Cui, X Li, M Yao - FEMS microbiology ecology, 2021 - academic.oup.com
ABSTRACT A large amount of sequencing data is produced in microbial community ecology
studies using the high-throughput sequencing technique, especially amplicon-sequencing …

Soil plastispheres as hotspots of antibiotic resistance genes and potential pathogens

D Zhu, J Ma, G Li, MC Rillig, YG Zhu - The ISME journal, 2022 - academic.oup.com
In the Anthropocene, increasing pervasive plastic pollution is creating a new environmental
compartment, the plastisphere. How the plastisphere affects microbial communities and …

iNAP: an integrated network analysis pipeline for microbiome studies

K Feng, X Peng, Z Zhang, S Gu, Q He, W Shen, Z Wang… - imeta, 2022 - Wiley Online Library
Integrated network analysis pipeline (iNAP) is an online analysis pipeline for generating and
analyzing comprehensive ecological networks in microbiome studies. It is implemented in …

[HTML][HTML] Gut microbiome of multiple sclerosis patients and paired household healthy controls reveal associations with disease risk and course

X Zhou, R Baumann, X Gao, M Mendoza, S Singh… - Cell, 2022 - cell.com
Changes in gut microbiota have been associated with several diseases. Here, the
International Multiple Sclerosis Microbiome Study (iMSMS) studied the gut microbiome of …

Using MicrobiomeAnalyst for comprehensive statistical, functional, and meta-analysis of microbiome data

J Chong, P Liu, G Zhou, J Xia - Nature protocols, 2020 - nature.com
MicrobiomeAnalyst is an easy-to-use, web-based platform for comprehensive analysis of
common data outputs generated from current microbiome studies. It enables researchers …

[HTML][HTML] Fungal-bacterial diversity and microbiome complexity predict ecosystem functioning

C Wagg, K Schlaeppi, S Banerjee, EE Kuramae… - Nature …, 2019 - nature.com
The soil microbiome is highly diverse and comprises up to one quarter of Earth's diversity.
Yet, how such a diverse and functionally complex microbiome influences ecosystem …

[HTML][HTML] Mother-to-infant microbiota transmission and infant microbiota development across multiple body sites

D Bogaert, GJ Van Beveren, EM de Koff, PL Parga… - Cell Host & Microbe, 2023 - cell.com
Early-life microbiota seeding and subsequent development is crucial to future health.
Cesarean-section (CS) birth, as opposed to vaginal delivery, affects early mother-to-infant …

[HTML][HTML] A quantitative framework reveals ecological drivers of grassland microbial community assembly in response to warming

D Ning, M Yuan, L Wu, Y Zhang, X Guo, X Zhou… - Nature …, 2020 - nature.com
Unraveling the drivers controlling community assembly is a central issue in ecology.
Although it is generally accepted that selection, dispersal, diversification and drift are major …