ArticleNature microbiology2023
Widespread extinctions of co-diversified primate gut bacterial symbionts from humans.
Article in Nature microbiology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 39 papers, 1 of them a synthesis that pooled it.
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Who cites it
39 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Partner fidelity, not geography, drives co-diversification of gut microbiota with hominids.Biology letters · 2025Pooled it
- Article
- Community-wide adaptive evolution of gut bacteria during dietary transitions.bioRxiv : the preprint server for biology · 2026Article
- Animal gut microbes and microbiomes in the 21st century and beyond.Science China. Life sciences · 2026Review
- How do anthropogenic changes affect wildlife microbiomes?PLoS biology · 2026Article
- Ancient Species Diversity and Niche Adaptation in Tannerella and Porphyromonas Revealed Through Pangenomics.Genome biology and evolution · 2026Article
- Isolation by distance promotes gut microbial strain divergence in wild mouse populations.Nature ecology & evolution · 2026Article
- Humans as an extended phenotype of their microbiota.Theory in biosciences = Theorie in den Biowissenschaften · 2026Article
- Genomic-microbial coevolution in human development: chromosome 2 fusion, and human accelerated regions.Mammalian genome : official journal of the International Mammalian Genome Society · 2026Review
- Human gut microbiota and brain evolution.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- A Hadza-enrichedGut microbes reports · 2026Article
- Genomic and functional co-diversification imprint African Hominidae microbiomes to signal dietary and lifestyle adaptations.Gut microbes · 2025Article
- Selection and transmission of the gut microbiome alone can shift mammalian behavior.Nature communications · 2025Article
- Industrialization drives convergent microbial and physiological shifts in the human metaorganism.bioRxiv : the preprint server for biology · 2025Article
- Evolution of gut microbiota across honeybee species revealed by comparative metagenomics.Nature communications · 2025Article
- The mouse gut microbiota responds to predator odor and predicts host behavior.bioRxiv : the preprint server for biology · 2025Article
- Isolation by distance promotes strain diversification in the wild mouse gut microbiota.bioRxiv : the preprint server for biology · 2025Article
- Gut fungal profiles reveal phylosymbiosis and codiversification across humans and nonhuman primates.PLoS biology · 2025Article
- A comprehensive atlas of the bonobo gut bacteriome and its associated host and exposome factors.Cell reports · 2025Article
- A three-country analysis of the gut microbiome indicates taxon associations with diet vary by taxon resolution and population.mSystems · 2025Article
Corrections and comments
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Authors and funding
13 authors.
Funding
Abstract
Humans and other primates harbour complex gut bacterial communities that influence health and disease, but the evolutionary histories of these symbioses remain unclear. This is partly due to limited information about the microbiota of ancestral primates. Here, using phylogenetic analyses of metagenome-assembled genomes (MAGs), we show that hundreds of gut bacterial clades diversified in parallel (that is, co-diversified) with primate species over millions of years, but that humans have experienced widespread losses of these ancestral symbionts. Analyses of 9,460 human and non-human primate MAGs, including newly generated MAGs from chimpanzees and bonobos, revealed significant co-diversification within ten gut bacterial phyla, including Firmicutes, Actinobacteriota and Bacteroidota. Strikingly, ~44% of the co-diversifying clades detected in African apes were absent from available metagenomic data from humans and ~54% were absent from industrialized human populations. In contrast, only ~3% of non-co-diversifying clades detected in African apes were absent from humans. Co-diversifying clades present in both humans and chimpanzees displayed consistent genomic signatures of natural selection between the two host species but differed in functional content from co-diversifying clades lost from humans, consistent with selection against certain functions. This study discovers host-species-specific bacterial symbionts that predate hominid diversification, many of which have undergone accelerated extinctions from human populations.
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