Ecogenomics sheds light on diverse lifestyle strategies in freshwater CPR.

0558631 - BC 2023 RIV GB eng J - Journal Article
Chiriac, Maria-Cecilia - Bulzu, Paul-Adrian - Andrei, A.S. - Okazaki, Y. - Nakano, S. - Haber, Markus - Kavagutti, Vinicius Silva - Layoun, Paul - Ghai, Rohit - Salcher, Michaela M.
Ecogenomics sheds light on diverse lifestyle strategies in freshwater CPR.
Microbiome. Roč. 10, č. 1 (2022), č. článku 84. ISSN 2049-2618. E-ISSN 2049-2618
R&D Projects: GA ČR(CZ) GA21-21990S; GA ČR(CZ) GA19-23469S; GA ČR(CZ) GX20-12496X
Institutional support: RVO:60077344
Keywords : multiple sequence alignment * in-situ hybridization * ribosomal-rna * protein secretion * database * genome * identification * bacteria * symbionts * resource * Patescibacteria * cpr * Freshwater lakes * Metagenomics * Genome reduction * Metabolism * Lifestyle * card-fish
OECD category: Ecology
Impact factor: 15.5, year: 2022
Method of publishing: Open access
https://doi.org/10.1186/s40168-022-01274-3

Background: The increased use of metagenomics and single-cell genomics led to the discovery of organisms from phyla with no cultivated representatives and proposed new microbial lineages such as the candidate phyla radiation (CPR or Patescibacteria). These bacteria have peculiar ribosomal structures, reduced metabolic capacities, small genome, and cell sizes, and a general host-associated lifestyle was proposed for the radiation. So far, most CPR genomes were obtained from groundwaters., however, their diversity, abundance, and role in surface freshwaters is largely unexplored. Here, we attempt to close these knowledge gaps by deep metagenomic sequencing of 119 samples of 17 different freshwater lakes located in Europe and Asia. Moreover, we applied Fluorescence in situ Hybridization followed by Catalyzed Reporter Deposition (CARD-FISH) for a first visualization of distinct CPR lineages in freshwater samples.
Permanent Link: https://hdl.handle.net/11104/0340290