COVID19
Preprint: Lack of Reinfection in Rhesus Macaques Infected with SARS-CoV-2 – Bao – Biorxiv

Events and jobs

Call for papers: BMC Health Policy and the Management of Antimicrobial Resistance in LMICs

Pregnancy and early life

Hospital Regimens Including Probiotics Guide the Individual Development of the Gut Microbiome of Very Low Birth Weight Infants in the First Two Weeks of Life – Kurath-Koller – Nutrients

Maternal H. pylori is associated with differential fecal microbiota in infants born by vaginal delivery – Hernandez – Scientific Reports

Human gut microbiome

Review: The link between autism spectrum disorder and gut microbiota: A scoping review – Nitschke – Autism

Intestinal Dysbiosis in Carriers of Carbapenem-Resistant Enterobacteriaceae – Korach-Rechtman – mSphere

Human oral microbiome
Review: Oral microbiome: possible harbinger for children’s health – Xiao – International Journal of Oral Science

Animal experiments

Komagataeibacter hansenii CGMCC 3917 Alleviates Alcohol-Induced Liver Injury by Regulating Fatty Acid Metabolism and Intestinal Microbiota Diversity in Mice – Lin – Royal Society of Chemistry

Putting the microbiota to work: Epigenetic effects of early life antibiotic treatment are associated with immune-related pathways and reduced epithelial necrosis following Salmonella Typhimurium challenge in vitro – Costa – PlosOne

Combined Prebiotic and Microbial Intervention Improves Oral Cholera Vaccination Responses in a Mouse Model of Childhood Undernutrition – Di Luccia – Cell Host & Microbe

Animal microbiome

Establishment and Stability of the Murine Oral Microbiome – Abusleme – Journal of Dental Research

Effect of stocking density and effective fiber on the ruminal bacterial communities in lactating Holstein cows – Clemmons – PeerJ

Plant, root, and soil microbiome

Long-term continuously monocropped peanut significantly changed the abundance and composition of soil bacterial communities – Chen – PeerJ

Compared to conventional, ecological intensive management promotes beneficial proteolytic soil microbial communities for agro-ecosystem functioning under climate change-induced rain regimes – Lori – Scientific Reports

Organic mulching positively regulates the soil microbial communities and ecosystem functions in tea plantation – Zhang – BMC Microbiology

Water and extremophile microbiome (sea, rivers, lakes, glaciers, permafrost, high-salt)

Aequorivita sinensis sp. nov., isolated from sediment of the East China Sea, and reclassification of Vitellibacter todarodis as Aequorivita todarodis comb. nov. and Vitellibacter aquimaris as Aequorivita aquimaris comb. nov. – Wang – Microbiology Society

Bioprospecting and characterization of pigmented halophilic archaeal strains from Algerian hypersaline environments with analysis of carotenoids produced by Halorubrum sp. BS2 – Sahli – Journal of Basic Microbiology

Effects of a deep-sea mining experiment on seafloor microbial communities and functions after 26 years – Vonnahme – Science Advances

Food microbiology

Review: Traditionally fermented pickles: How the microbial diversity associated with their nutritional and health benefits? – Behera – Journal of Functional Foods

Bioinformatics

Incorporating Phylogenetic Information in Microbiome Differential Abundance Studies Has No Effect on Detection Power and FDR Control – Bichat – Frontiers in Microbiology

Techniques
Preprint: Freshwater monitoring by nanopore sequencing – Urban – Biorxiv

Hello everyone! I hope you are all staying safe and healthy.

COVID-19/SARS-CoV-2

[Preprint]: Evaluation of 19 antiviral drugs against SARS-CoV-2 Infection – Liu et al.

Multi-site human microbiome

[Preprint] Topologically correct synthetic reconstruction of pathogen social behavior found in deep tissue sites – Clark et al.

Human gut microbiome

Association of Short-Chain Fatty Acids in the Gut Microbiome With Clinical Response to Treatment With Nivolumab or Pembrolizumab in Patients With Solid Cancer Tumors – Nomura et al. – JAMA Network

Genetic and metabolic links between the murine microbiome and memory – Mao et al. – BMC

Drosophila as a model for the gut microbiome – Ludington & Ja – PLOS Pathogens

Human respiratory microbiome

Combined bacterial and fungal targeted amplicon sequencing of respiratory samples: Does the DNA extraction method matter? – Angebault et al. – PLOS One

Human oral microbiome

Oral Microbiome Profiling in Smokers with and without Head and Neck Cancer Reveals Variations Between Health and Disease – Sharma et al. – Cancer Prevention Research

Animal microbiome

Coculturing of Mosquito‐Microbiome Bacteria Promotes Heme Degradation in Elizabethkingia anophelis – Ganely et al. – Chemistry Europe

Plant and soil microbiome

The responses of the soil bacterial communities and enzyme activities to the edaphic properties of coal mining areas in Central China – Sun et al. – PLOS One

Water and extremophile microbiome

Network-directed efficient isolation of previously uncultivated Chloroflexi and related bacteria in hot spring microbial mats – Xian et al – Nature

Microbes in space

Crewmember microbiome may influence microbial composition of ISS habitable surfaces – Avila-Herrera et al. – PLOS One

Phages

Structure and conformational cycle of a bacteriophage-encoded chaperonin – Bracher et al. – PLOS One

Technology

An open-source robotic platform that enables automated monitoring of replicated biofilm cultivations using optical coherence tomography – Gierl et al. – Nature

Hello Everyone. Today the Microbiome Digest brings you the latest on Plant-microbial interaction together with a variety of your usual microbiome related research publications. Enjoy.

COVID-19:

Neuraxial anaesthesia and peripheral nerve blocks during the COVID-19 pandemic: a literature review and practice recommendations. – Uppal V. et al. – Anaesthesia.

General microbiome:

The link between autism spectrum disorder and gut microbiota: A scoping review – Nitschke A. et al. – Autism.

General microbiome:

Combined bacterial and fungal targeted amplicon sequencing of respiratory samples: Does the DNA extraction method matter? – Angebault C. et al. – PloS One.

Randomised clinical trial: faecal microbiota transplantation versus autologous placebo administered via colonoscopy in irritable bowel syndrome. – Lahtinen et al. – Aliment Pharmacol Ther.

High L-carnitine ingestion impairs liver function by disordering gut bacteria composition in mice. – Wu Q. et al. – J Agric Food Chem.

Plant, root, and soil microbiome:

Microbiome-Mediated Stress Resistance in Plants – Liu H et al. – Trends in Plant Science.

A plant genetic network for preventing dysbiosis in the phyllosphere – Chen T et al. – Nature.

Harnessing rhizosphere microbiomes for drought-resilient crop production – de Vries et al. – Science

Plant nutrient‐acquisition strategies drive topsoil microbiome structure and function – Bahram et al. – New Phytologist.

Impacts of directed evolution and soil management legacy on the maize rhizobiome – Schmidt JE et al. – Soil Biology and Biochemistry.

Environmental microbiome:

Metal-induced bacterial interactions promote diversity in river-sediment microbiomes. – Cyriaque V. et al. – FEMW Microbiol Ecol.