Literature highlights 03/05/2022

My shout out to an amazing cover goes to Glass et al. Cell Reports. An acrylic painting representing their study of human B cell diversity of IL-10+ B cell states.

Environmental factors shaping the gut microbiome in a Dutch population – Nature

This represents a significant resource for studying the human gut microbiome.

  • Metagenomics of >8,000 people from >2000 families + meta data on 241 host and environmental factors, including diet. 
  • Found the microbiome is shaped primarily by the environment and cohabitation. 
  • Less than 7% of taxa are heritable, 
  • Almost half of variation is explained by cohabitation. 

Three-dimensional imaging for the quantification of spatial patterns in microbiota of the intestinal mucosa – PNAS

Reporting on the development of a novel spatial omics platform for studying host-microbe interactions. The authors use this approach to investigate bacterial colonization of crypts

Early-life viral infections are associated with disadvantageous immune and microbiota profiles and recurrent respiratory infections – Nature Microbiology 

Fascinating study combining 16S data with RNASeq & data collected on early life viral infections. Integrating 16S and RNASeq data is growing more and more common but not sure I’ve ever seen it integrated with data on viral infections like this. Also have to hand it to the authors for their presentation of the data in this study. Simple yet highly effective visualisations that don’t sacrifice style. Figure 5A is particularly pretty.  

Human enteric viruses autonomously shape inflammatory bowel disease phenotype through divergent innate immunomodulation – Science Immunology. 

  • A major mechanistic study demonstrating how the gut virome directly shapes the immune system. 
  • Mice humanized with non-IBD colon tissue viromes were protected from intestinal inflammation, whereas IBD virome mice exhibited exacerbated inflammation in a nucleic acid sensing–dependent fashion
  • There’s been several association studies of the virome and IBD, nice to see it a more causative mechanistic investigation. 

Systematically assessing microbiome–disease associations identifies drivers of inconsistency in metagenomic research – PLOS Biology

I love microbiome meta analyses and this is no exception. I think this quote sums up the main findings nicely: 

“>90% of published findings for type 1 diabetes (T1D) and type 2 diabetes (T2D) were particularly nonrobust”

Reviews

Other articles to highlight

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