Competition and niche separation of pelagic bacteria in freshwater habitats

J Pernthaler - Environmental microbiology, 2017 - Wiley Online Library
Freshwater bacterioplankton assemblages are composed of sympatric populations that can
be delineated, for example, by ribosomal RNA gene relatedness and that differ in key …

Hidden in plain sight—highly abundant and diverse planktonic freshwater Chloroflexi

M Mehrshad, MM Salcher, Y Okazaki, S Nakano… - Microbiome, 2018 - Springer
Background Representatives of the phylum Chloroflexi, though reportedly highly abundant
in the extensive deep water habitats of both marine (SAR202 up to 30% of total prokaryotes) …

Evolution in action: habitat transition from sediment to the pelagial leads to genome streamlining in Methylophilaceae

MM Salcher, D Schaefle, M Kaspar… - The ISME …, 2019 - academic.oup.com
The most abundant aquatic microbes are small in cell and genome size. Genome-
streamlining theory predicts gene loss caused by evolutionary selection driven by …

Niche-directed evolution modulates genome architecture in freshwater Planctomycetes

AŞ Andrei, MM Salcher, M Mehrshad… - The ISME …, 2019 - academic.oup.com
Freshwater environments teem with microbes that do not have counterparts in culture
collections or genetic data available in genomic repositories. Currently, our apprehension of …

Reservoir water stratification and mixing affects microbial community structure and functional community composition in a stratified drinking reservoir

Z Shilei, S Yue, H Tinglin, C Ya, Y Xiao, Z Zizhen… - Journal of …, 2020 - Elsevier
To investigate how the aquatic bacterial community of a stratified reservoir drives the
evolution of water parameters, the microbial community structure and network characteristics …

Mixing‐driven changes in distributions and abundances of planktonic microorganisms in a large, oligotrophic lake

KA Evans, LM Peoples, JR Ranieri… - Limnology and …, 2024 - Wiley Online Library
Temperate lakes experience variation in mixing and stratification that affects the
distributions, activities, abundances, and diversity of plankton communities. We examined …

Long-read-resolved, ecosystem-wide exploration of nucleotide and structural microdiversity of lake bacterioplankton genomes

Y Okazaki, S Nakano, A Toyoda, H Tamaki - Msystems, 2022 - Am Soc Microbiol
Reconstruction of metagenome-assembled genomes (MAGs) has become a fundamental
approach in microbial ecology. However, a MAG is hardly complete and overlooks genomic …

Genome‐resolved viral and cellular metagenomes revealed potential key virus‐host interactions in a deep freshwater lake

Y Okazaki, Y Nishimura, T Yoshida… - Environmental …, 2019 - Wiley Online Library
Metagenomics has dramatically expanded the known virosphere, but freshwater viral
diversity and their ecological interaction with hosts remain poorly understood. Here, we …

Spatio-temporal changes of small protist and free-living bacterial communities in a temperate dimictic lake: insights from metabarcoding and machine learning

M Karlicki, A Bednarska, P Hałakuc… - FEMS Microbiology …, 2024 - academic.oup.com
Microbial communities, which include prokaryotes and protists, play an important role in
aquatic ecosystems and influence ecological processes. To understand these communities …

Microbial communities of the Laurentian Great Lakes reflect connectivity and local biogeochemistry

SF Paver, RJ Newton… - Environmental …, 2020 - Wiley Online Library
Summary The Laurentian Great Lakes are a vast, interconnected freshwater system
spanning strong physicochemical gradients, thus constituting a powerful natural laboratory …