ArticleFrontiers in microbiology2016
Quantifying the Relative Importance of Phylogeny and Environmental Preferences As Drivers of Gene Content in Prokaryotic Microorganisms.
Article in Frontiers in microbiology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed.
- Deciphering global patterns of marine microbial community assembly and network stability.mSystems · 2026Article
- Cross-biome microbial networks reveal functional redundancy and suggest genome reduction through functional complementarity.Communications biology · 2024Article
- Genomics-based identification of a cold adapted clade in Deinococcus.BMC biology · 2024Article
- A global survey of prokaryotic genomes reveals the eco-evolutionary pressures driving horizontal gene transfer.Nature ecology & evolution · 2024Article
- Quantifying microbial guilds.ISME communications · 2024Article
- Article
- Elevated temperature and CONature communications · 2023Article
- Assessment of phylo-functional coherence along the bacterial phylogeny and taxonomy.Scientific reports · 2021Article
- Disentangling the impact of environmental and phylogenetic constraints on prokaryotic within-species diversity.The ISME journal · 2020Article
- Assessing the performance of different approaches for functional and taxonomic annotation of metagenomes.BMC genomics · 2019Article
- Microdiversity ensures the maintenance of functional microbial communities under changing environmental conditions.The ISME journal · 2019Article
- A conceptual framework for the phylogenetically constrained assembly of microbial communities.Microbiome · 2019Article
- Exploring the rearrangement of sensory intelligence in proteobacteria: insight of Pho regulon.World journal of microbiology & biotechnology · 2018Article
- Relating genomic characteristics to environmental preferences and ubiquity in different microbial taxa.BMC genomics · 2017Article
- The Ecological Coherence of Temperature and Salinity Tolerance Interaction and Pigmentation in a Non-marineFrontiers in microbiology · 2016Article
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Authors and funding
4 authors.
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Abstract
Two complementary forces shape microbial genomes: vertical inheritance of genes by phylogenetic descent, and acquisition of new genes related to adaptation to particular habitats and lifestyles. Quantification of the relative importance of each driving force proved difficult. We determined the contribution of each factor, and identified particular genes or biochemical/cellular processes linked to environmental preferences (i.e., propensity of a taxon to live in particular habitats). Three types of data were confronted: (i) complete genomes, which provide gene content of different taxa; (ii) phylogenetic information, via alignment of 16S rRNA sequences, which allowed determination of the distance between taxa, and (iii) distribution of species in environments via 16S rRNA sampling experiments, reflecting environmental preferences of different taxa. The combination of these three datasets made it possible to describe and quantify the relationships among them. We found that, although phylogenetic descent was responsible for shaping most genomes, a discernible part of the latter was correlated to environmental adaptations. Particular families of genes were identified as environmental markers, as supported by direct studies such as metagenomic sequencing. These genes are likely important for adaptation of bacteria to particular conditions or habitats, such as carbohydrate or glycan metabolism genes being linked to host-associated environments.
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