Today’s digest features a retrospective mini-review of mothur, study on gut microbiomes of over 900 vertebrate species [Spoiler alert: birds and bats share similarities in their microbiome], findings of fifteen-thousand-year-old viruses in glacier ice, and more. Happy reading!
Gut microbiome
Recording mobile DNA in the gut microbiota using an Escherichia coli CRISPR-Cas spacer acquisition platform – Christian Munck – Nature Communications
Microbial imbalance in inflammatory bowel disease patients at different taxonomic levels – Mohammad Tauqeer Alam – Gut Pathogens
Gut dysbiosis induces the development of pre-eclampsia through bacterial translocation– Xia Chen – Gut
Analysis of gut microbiota of obese individuals with type 2 diabetes and healthy individuals – Aftab Ahmad – PlosOne
Alterations of human lung and gut microbiome in non-small cell lung carcinomas and distant metastasis – Hui Lu – bioRxiv
The interplay between host genetics and the gut microbiome reveals common and distinct microbiome features for human complex diseases – Fengzhe Xu – bioRxiv
Oral microbiome
Acquisition of Oral Microbiota is Driven by Environment, Not Host Genetics – Chiranjit Mukherjee – bioRxiv
Animal microbiome
*Comparative Analyses of Vertebrate Gut Microbiomes Reveal Convergence between Birds and Bats– Se Jin Song – mBio
Comparative Genomics of Rumen Butyrivibrio spp. Uncovers a Continuum of Polysaccharide-Degrading Capabilities – Nikola Palevich – Applied and Environmental Microbiology
Inside out: microbiota dynamics during host-plant adaptation of whiteflies – Diego Santos-Garcia – The ISME Journal
Blood Loss Leads to Increase in Relative Abundance of Opportunistic Pathogens in the Gut Microbiome of Rabbits – Junjie Yang – Current Microbiology
Probiotics
In Vitro Probiotic Potential of Hemophilin-producing Strains of Haemophilus haemolyticus – Brianna Atto – bioRxiv
Quantifying and engineering mucus adhesion of probiotics – Zachary J. S. Mays – bioRxiv
Plant/root/soil microbiome
Temporal and spatial changes in phyllosphere microbiome of acacia trees growing in super arid environments – Ashraf Al-Ashhab – bioRxiv
Secreted metabolite-mediated interactions between rhizosphere bacteria and Trichoderma biocontrol agents – Ningxiao Li – PlosOne
Water microbiome
Quantification of nosZ genes and transcripts in activated sludge microbiomes with novel group-specific qPCR methods validated with metagenomic analyses – Daehyun Daniel Kim – bioRxiv
Viruses
*Glacier ice archives fifteen-thousand-year-old viruses – Zhi-Ping Zhong – bioRxiv
Meeting report: Viruses in the Built Environment (VIBE) meeting report – Aaron J. Prussin – Microbiome
Bioinformatics
*Minireview: Reintroducing mothur: 10 Years Later – Patrick D. Schloss – Applied and Environmental Microbiology
FunGeCo : A web based tool for estimation of Functional potential of bacterial genomes and microbiomes using Gene Context information – Swadha Anand – Bioinformatics