Sept 15, 2020

We have got a human gut microbiome heavy edition today, with two reviews of the early life microbiome and its affects on physiological development.

I also want to highlight the work of Chen et al. 2020, who nicely demonstrate that the zebra finch early-life microbiome converges upon the microbiome of the parent that reared them (rather than their genetic parent) in cross-fostering experiments. This is important as cross-fostering experiments have been a staple in studies of avian micro-evolution and eco-physiology in captive and free-living system. Therefore, variation in offspring phenotypes attributable to the ‘early life environment’, ‘nest effects’, or ‘foster parent effects’ might in some cases be partly proximately driven by microbiome variation. This is an important point of clarification since, as Chen et al. 2020 and other researchers have demonstrated, the microbiome can be vertically transmittedβ€”unlike most early-life environment sources of phenotypic variation. Thanks for indulging me in my musings πŸ˜‰

Enjoy today’s list!

Human respiratory microbiome
Adhesion of Staphylococcus aureus to epithelial cells: an in vitro approach to study interactions within the nasal microbiota – MΓ©nard et al. 2020 – Journal of Medical Microbiology

Human skin microbiome
Early development of the skin microbiome: therapeutic opportunities – Casterline and Paller 2020 – Pediatric Research

Human gut microbiome
Antibiotics create a shift from mutualism to competition in human gut communities with a longer-lasting impact on fungi than bacteria – Seelbinder et al. 2020 – Microbiome

Multi-omics analysis reveals the influence of genetic and environmental risk factors on developing gut microbiota in infants at risk of celiac disease – Leonard et al. 2020 – Microbiome

The effects of different dietary fiber pectin structures on the gastrointestinal immune barrier: impact via gut microbiota and direct effects on immune cells – Beukema et al. 2020 – Experimental & Molecular Medicine

Roles of the Polyphenol–Gut Microbiota Interaction in Alleviating Colitis and Preventing Colitis-Associated Colorectal Cancer – Zhao and Jiang – Advances in Nutrition

Stomach microbiota, Helicobacter pylori, and group 2 innate lymphoid cells – Ohno and Satoh-Takayama 2020 – Experimental & Molecular Medicine

Maternal supplementation with Bifidobacterium breve M-16V prevents their offspring from allergic airway inflammation accelerated by the prenatal exposure to an air pollutant aerosol – Terada-Ikeda et al. 2020 – PLOS ONE

[Review] Early Life Stress and the Development of the Infant Gut Microbiota: Implications for Mental Health and Neurocognitive Development – Vogel et al. 2020 – Current Psychiatry Reports

[Review] Early life interaction between the microbiota and the Enteric Nervous System – Foong et al. 2020 – Gastrointestinal and Liver Physiology

Animal experiments
Maternal gut microbes shape the early-life assembly of gut microbiota in passerine chicks via nests – Chen et al. 2020 – Microbiome

Impact of industrial production system parameters on chicken microbiomes: mechanisms to improve performance and reduce Campylobacter – McKenna et al. 2020 –

Animal microbiome
Elucidation of Gut Microbiota in Mud Crab Scylla paramamosain Challenged to WSSV and Aeromonas hydrophila – Lin et al. 2020 – Marine Biotechnology

Plant, root, and soil microbiome
Soil microbial communities respond to an environmental gradient of grazing intensity in south Patagonia Argentina – Santiago et al. 2020 – Journal of Arid Environments

Different maturities drive proteomic and metabolomic changes in Chinese black truffle – Zhang et al. 2020 – Food Chemistry: X

Fungal Volatile Organic Compounds: More Than Just a Funky Smell? – Inamdar et al. 2020 – Annual Review of Microbiology

Phages and viruses
Potential applications of human viral metagenomics and reference materials:Β 2 considerations for current and future viruses – Santiago-Rodriguez and Hollister 2020 – Applied and Environmental Microbiology

Bioinformatics
Estimating the quality of eukaryotic genomes recovered from metagenomic analysis with EukCC – Saary et al. 2020 – Genome Biology

Techniques
Hill-based dissimilarity indices and null models for analysis of microbial community assembly – Modin et al. 2020 –

A gene prioritization method based on a swine multi-omics knowledgebase and a deep learning model – Fu et al. 2020 – Communications Biology

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