[HTML][HTML] Environmental DNA metabarcoding for benthic monitoring: A review of sediment sampling and DNA extraction methods
Environmental DNA (eDNA) metabarcoding (parallel sequencing of DNA/RNA for
identification of whole communities within a targeted group) is revolutionizing the field of …
identification of whole communities within a targeted group) is revolutionizing the field of …
Multi-level analysis of the gut–brain axis shows autism spectrum disorder-associated molecular and microbial profiles
Autism spectrum disorder (ASD) is a neurodevelopmental disorder characterized by
heterogeneous cognitive, behavioral and communication impairments. Disruption of the gut …
heterogeneous cognitive, behavioral and communication impairments. Disruption of the gut …
A pan-cancer mycobiome analysis reveals fungal involvement in gastrointestinal and lung tumors
AB Dohlman, J Klug, M Mesko, IH Gao, SM Lipkin… - Cell, 2022 - cell.com
Fungal microorganisms (mycobiota) comprise a small but immunoreactive component of the
human microbiome, yet little is known about their role in human cancers. Pan-cancer …
human microbiome, yet little is known about their role in human cancers. Pan-cancer …
Exploring and exploiting the rice phytobiome to tackle climate change challenges
The future of agriculture is uncertain under the current climate change scenario. Climate
change directly and indirectly affects the biotic and abiotic elements that control …
change directly and indirectly affects the biotic and abiotic elements that control …
Waste not, want not: revisiting the analysis that called into question the practice of rarefaction
PD Schloss - Msphere, 2024 - Am Soc Microbiol
ABSTRACT In 2014, McMurdie and Holmes published the provocatively titled “Waste not,
want not: why rarefying microbiome data is inadmissible.” The claims of their study have …
want not: why rarefying microbiome data is inadmissible.” The claims of their study have …
Rare prokaryotic sub-communities dominate the complexity of ecological networks and soil multinutrient cycling during long-term secondary succession in China's …
Unraveling the succession of microbial communities is a core ecological research topic. Yet
few studies have focused on how long-term secondary succession affects the functional …
few studies have focused on how long-term secondary succession affects the functional …
Time after time: temporal variation in the effects of grass and forb species on soil bacterial and fungal communities
SE Hannula, AM Kielak, K Steinauer, M Huberty… - MBio, 2019 - Am Soc Microbiol
Microorganisms are found everywhere and have critical roles in most ecosystems, but
compared to plants and animals, little is known about their temporal dynamics. Here, we …
compared to plants and animals, little is known about their temporal dynamics. Here, we …
Rarefaction is currently the best approach to control for uneven sequencing effort in amplicon sequence analyses
PD Schloss - Msphere, 2024 - Am Soc Microbiol
Considering it is common to find as much as 100-fold variation in the number of 16S rRNA
gene sequences across samples in a study, researchers need to control for the effect of …
gene sequences across samples in a study, researchers need to control for the effect of …
Primary nasal influenza infection rewires tissue-scale memory response dynamics
The nasal mucosa is often the initial site of respiratory viral infection, replication, and
transmission. Understanding how infection shapes tissue-scale primary and memory …
transmission. Understanding how infection shapes tissue-scale primary and memory …
Chinese Liquor Fermentation: Identification of Key Flavor-Producing Lactobacillus spp. by Quantitative Profiling with Indigenous Internal Standards
R Du, Q Wu, Y Xu - Applied and Environmental Microbiology, 2020 - Am Soc Microbiol
Identifying the functional microbes in spontaneous food fermentation is important for
improving food quality. To identify the key flavor producers in Chinese liquor fermentation …
improving food quality. To identify the key flavor producers in Chinese liquor fermentation …