Biogeographic study of human gut-associated crAssphage suggests impacts from industrialization and recent expansion
Explore this paper's citation graph
Summary
It is found that crAssphage prevalence is low in traditional, hunter-gatherer populations, such as the Hadza from Tanzania and Matses from Peru, as compared to industrialized, urban populations, and the absence of strong biogeographic structuring within global crAss phage strains is likely due to a recent population expansion within this bacteriophage.
- Type
- preprint
- Published
- 2018-08-07
- Cited by
- 58
- References
- 72
- Access
- Open access
- OpenAlex
- https://openalex.org/W2887172725
- Semantic Scholar
- https://api.semanticscholar.org/CorpusID:91624926
Keywords
Biology, Population, Phylogenetic tree, Metagenomics, Phylogenetics
References
- RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
- Brief report on ecological momentary assessment: everyday states predict HIV prevention behaviors
- Evaluation of the novel crAssphage marker for sewage pollution tracking in storm drain outfalls in Tampa, Florida.
- Metagenome Sequencing of the Hadza Hunter-Gatherer Gut Microbiota.
- Application of the major capsid protein as a marker of the phylogenetic diversity of Emiliania huxleyi viruses.
- A highly abundant bacteriophage discovered in the unknown sequences of human faecal metagenomes
- Greengenes, a Chimera-Checked 16S rRNA Gene Database and Workbench Compatible with ARB
- Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes
- Richness of human gut microbiome correlates with metabolic markers
- The virome in mammalian physiology and disease
- The other microbiome
- Twelve previously unknown phage genera are ubiquitous in global oceans
- Consider something viral in your research
- Gut metagenome in European women with normal, impaired and diabetic glucose control
- Basic local alignment search tool.
- Subsistence strategies in traditional societies distinguish gut microbiomes
- A metagenome-wide association study of gut microbiota in type 2 diabetes
- QIIME allows analysis of high-throughput community sequencing data
- Phylogeny of capsid proteins of small icosahedral RNA plant viruses.
- Going viral: next generation sequencing applied to human gut phage populations
Cited by
- Critical Evaluation of CrAssphage as a Molecular Marker for Human-Derived Wastewater Contamination in the Aquatic Environment
- Shallow metagenomics with Nanopore sequencing in canine fecal microbiota improved bacterial taxonomy and identified an uncultured CrAssphage
- Acquisition, transmission and strain diversity of human gut-colonizing crAss-like phages
- Shining Light on Human Gut Bacteriophages
- Superior performance of human wastewater-associated viral markers compared to bacterial markers in tropical environments
- Transmission and persistence of crAssphage, a ubiquitous human-associated bacteriophage
- Performance of viral and bacterial genetic markers for sewage pollution tracking in tropical Thailand.
- Long-term persistence of crAss-like phage crAss001 is associated with phase variation in Bacteroides intestinalis
- Does over a century of aerobic phage work provide a solid framework for the study of phages in the gut?
- Microbial and Viral Indicators of Pathogens and Human Health Risks from Recreational Exposure to Waters Impaired by Fecal Contamination
- A Previously Undescribed Highly Prevalent Phage Identified in a Danish Enteric Virome Catalog
- The Human Gut Phageome: Origins and Roles in the Human Gut Microbiome
- Normalisation of SARS-CoV-2 concentrations in wastewater: the use of flow, conductivity and CrAssphages
- Evaluation of crAssphage as a human-specific microbial source-tracking marker in the Republic of Korea
- Surveillance of RNase P, PMMoV, and CrAssphage in wastewater as indicators of human fecal concentration across urban sewer neighborhoods, Kentucky
- Monitoring Human Viral Pathogens Reveals Potential Hazard for Treated Wastewater Discharge or Reuse
- Metagenomic analysis of wastewater phageome from a University Hospital in Turkey
- The role of virome in the gastrointestinal tract and beyond
- Features of the gut prokaryotic virome of Japanese patients with Crohn’s disease
- A loss of crAssphage stability in the human gut virome is associated with obesity and metabolic syndrome
Related papers
- Community Phylogenetics: Assessing Tree Reconstruction Methods and the Utility of DNA Barcodes
- For comparing phylogenetic diversity among communities, go ahead and use synthesis phylogenies
- A phylogenomics approach for selecting robust sets of phylogenetic markers
- For common community phylogenetic analyses, go ahead and use synthesis phylogenies
- Phylogenetic construction of 17 bacterial phyla by new method and carefully selected orthologs
- Prokaryotic phylogenies inferred from protein structural domains.
- HGT-Gen: a tool for generating a phylogenetic tree with horizontal gene transfer
- treespace: Statistical exploration of landscapes of phylogenetic trees
- [Intra-individual allele heterozygotes in phylogenetic analysis].
- An Evaluation of Four Phylogenetic Markers in Nostoc: Implications for Cyanobacterial Phylogenetic Studies at the Intrageneric Level