[HTML][HTML] Network analysis methods for studying microbial communities: A mini review

MS Matchado, M Lauber, S Reitmeier… - Computational and …, 2021 - Elsevier
Microorganisms including bacteria, fungi, viruses, protists and archaea live as communities
in complex and contiguous environments. They engage in numerous inter-and intra …

Methods for biological data integration: perspectives and challenges

V Gligorijević, N Pržulj - Journal of the Royal Society …, 2015 - royalsocietypublishing.org
Rapid technological advances have led to the production of different types of biological data
and enabled construction of complex networks with various types of interactions between …

Climate warming enhances microbial network complexity and stability

MM Yuan, X Guo, L Wu, YA Zhang, N Xiao… - Nature Climate …, 2021 - nature.com
Unravelling the relationships between network complexity and stability under changing
climate is a challenging topic in theoretical ecology that remains understudied in the field of …

Important ecophysiological roles of non-dominant Actinobacteria in plant residue decomposition, especially in less fertile soils

Y Bao, J Dolfing, Z Guo, R Chen, M Wu, Z Li, X Lin… - Microbiome, 2021 - Springer
Background Microbial-driven decomposition of plant residues is integral to carbon
sequestration in terrestrial ecosystems. Actinobacteria, one of the most widely distributed …

Response of soil microbial communities and microbial interactions to long-term heavy metal contamination

X Li, D Meng, J Li, H Yin, H Liu, X Liu, C Cheng… - Environmental …, 2017 - Elsevier
Due to the persistence of metals in the ecosystem and their threat to all living organisms,
effects of heavy metal on soil microbial communities were widely studied. However, little was …

Biodiversity and species competition regulate the resilience of microbial biofilm community

K Feng, Z Zhang, W Cai, W Liu, M Xu, H Yin… - Molecular …, 2017 - Wiley Online Library
The relationship between biodiversity and ecosystem stability is poorly understood in
microbial communities. Biofilm communities in small bioreactors called microbial electrolysis …

Vitamin B12 produced by Cetobacterium somerae improves host resistance against pathogen infection through strengthening the interactions within gut microbiota

X Qi, Y Zhang, Y Zhang, F Luo, K Song, G Wang, F Ling - Microbiome, 2023 - Springer
Background Pathogen infections seriously affect host health, and the use of antibiotics
increases the risk of the emergence of drug-resistant bacteria and also increases …

[HTML][HTML] Biochar-based fertilizer amendments improve the soil microbial community structure in a karst mountainous area

T Yan, J Xue, Z Zhou, Y Wu - Science of the Total Environment, 2021 - Elsevier
Biochar-based fertilizer amendment can improve soil properties partly due to stimulated
microbial activities and growths. The karst ecosystem is prone to degradation and accounts …

Molecular ecological network analyses

Y Deng, YH Jiang, Y Yang, Z He, F Luo, J Zhou - BMC bioinformatics, 2012 - Springer
Background Understanding the interaction among different species within a community and
their responses to environmental changes is a central goal in ecology. However, defining …

Network succession reveals the importance of competition in response to emulsified vegetable oil amendment for uranium bioremediation

Y Deng, P Zhang, Y Qin, Q Tu, Y Yang… - Environmental …, 2016 - Wiley Online Library
Discerning network interactions among different species/populations in microbial
communities has evoked substantial interests in recent years, but little information is …