Header

UZH-Logo

Maintenance Infos

Niche-directed evolution modulates genome architecture in freshwater Planctomycetes


Andrei, Adrian-Ştefan; Salcher, Michaela M; Mehrshad, Maliheh; Rychtecký, Pavel; Znachor, Petr; Ghai, Rohit (2019). Niche-directed evolution modulates genome architecture in freshwater Planctomycetes. The ISME journal, 13(4):1056-1071.

Abstract

Freshwater environments teem with microbes that do not have counterparts in culture collections or genetic data available in genomic repositories. Currently, our apprehension of evolutionary ecology of freshwater bacteria is hampered by the difficulty to establish organism models for the most representative clades. To circumvent the bottlenecks inherent to the cultivation-based techniques, we applied ecogenomics approaches in order to unravel the evolutionary history and the processes that drive genome architecture in hallmark freshwater lineages from the phylum Planctomycetes. The evolutionary history inferences showed that sediment/soil Planctomycetes transitioned to aquatic environments, where they gave rise to new freshwater-specific clades. The most abundant lineage was found to have the most specialised lifestyle (increased regulatory genetic circuits, metabolism tuned for mineralization of proteinaceous sinking aggregates, psychrotrophic behaviour) within the analysed clades and to harbour the smallest freshwater Planctomycetes genomes, highlighting a genomic architecture shaped by niche-directed evolution (through loss of functions and pathways not needed in the newly acquired freshwater niche).

Abstract

Freshwater environments teem with microbes that do not have counterparts in culture collections or genetic data available in genomic repositories. Currently, our apprehension of evolutionary ecology of freshwater bacteria is hampered by the difficulty to establish organism models for the most representative clades. To circumvent the bottlenecks inherent to the cultivation-based techniques, we applied ecogenomics approaches in order to unravel the evolutionary history and the processes that drive genome architecture in hallmark freshwater lineages from the phylum Planctomycetes. The evolutionary history inferences showed that sediment/soil Planctomycetes transitioned to aquatic environments, where they gave rise to new freshwater-specific clades. The most abundant lineage was found to have the most specialised lifestyle (increased regulatory genetic circuits, metabolism tuned for mineralization of proteinaceous sinking aggregates, psychrotrophic behaviour) within the analysed clades and to harbour the smallest freshwater Planctomycetes genomes, highlighting a genomic architecture shaped by niche-directed evolution (through loss of functions and pathways not needed in the newly acquired freshwater niche).

Statistics

Citations

Dimensions.ai Metrics
17 citations in Web of Science®
19 citations in Scopus®
Google Scholar™

Altmetrics

Downloads

33 downloads since deposited on 14 Mar 2019
8 downloads since 12 months
Detailed statistics

Additional indexing

Item Type:Journal Article, refereed, original work
Communities & Collections:07 Faculty of Science > Department of Plant and Microbial Biology
Dewey Decimal Classification:580 Plants (Botany)
Scopus Subject Areas:Life Sciences > Microbiology
Life Sciences > Ecology, Evolution, Behavior and Systematics
Uncontrolled Keywords:Ecology, Evolution, Behavior and Systematics, Microbiology
Language:English
Date:1 April 2019
Deposited On:14 Mar 2019 10:11
Last Modified:29 Jul 2020 09:32
Publisher:Nature Publishing Group
ISSN:1751-7362
OA Status:Hybrid
Free access at:Publisher DOI. An embargo period may apply.
Publisher DOI:https://doi.org/10.1038/s41396-018-0332-5

Download

Hybrid Open Access

Download PDF  'Niche-directed evolution modulates genome architecture in freshwater Planctomycetes'.
Preview
Content: Published Version
Filetype: PDF
Size: 1MB
View at publisher
Licence: Creative Commons: Attribution 4.0 International (CC BY 4.0)