Fourteen new Polynucleobacter species: P. brandtiae sp. nov., P. kasalickyi sp. nov., P. antarcticus sp. nov., P. arcticus sp. nov., P. tropicus sp. nov., P. bastaniensis sp. nov., P. corsicus sp. nov., P. finlandensis sp. nov., P. ibericus sp. nov., P. hallstattensis sp. nov., P. alcilacus sp. nov., P. nymphae sp. nov., P. paludilacus sp. nov. and P. parvulilacunae sp. nov.

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Journal Year: 2022, Volume and Issue: 72(6)

Published: June 13, 2022

Fourteen strains, all isolated from the surface of freshwater habitats, were genomically, phylogenetically and phenotypically characterized. The strains obtained geographically climatically broadly scattered sites. This included two lakes in Antarctica, one arctic pond located on Svalbard archipelago (Norway), a tropical habitat Uganda, some Southern Europe (Spain France), lakes, ponds puddle Central (Austria, Czech Republic Germany), Northern (Finland). Most investigated characterized by rather small cell sizes slow growth media such as nutrient broth-soyotone-yeast extract (NSY) medium. Phylogenomic analyses indicated that fourteen are affiliated with genus Polynucleobacter (Burkholderiaceae, Pseudomonadota). Thirteen found to be subcluster PnecC genus. All these genome range 1.7-2.3 Mbp G+C values 44.9-46.5 mol%. Furthermore, PnecC-affiliated shared 16S rRNA gene sequence similarities >99 %. Only strain larger size 2.9 lower value 41.0 mol% was PnecA. Whole comparisons revealed 14 among each other, well type previously described 17 species, whole-genome average nucleotide identities <95 suggested represent different new species. We propose establishment species represented following strains: UB-Domo-W1T (=DSM 103491T=CIP 111598T=JCM 32562T), VK13T 103488T=JCM 32564T), LimPoW16T 24085T=CIP 111098T), UK-Long2-W17T 103489T=CIP 111328T=JCM 32563T), UK-Pondora-W15T 103423T=JCM 32939T), MWH-Mekk-B1T 106779T=JCM 32556T), MWH-Mekk-C3T 103415T=JCM 32557T), Ross1-W9T 103416T=JCM 32561T), MWH-Hall10T 107042T=JCM 32938T), AP-Basta-1000A-D1T 107039T=JCM 32933T), AP-Melu-1000-A1T 107036T=JCM 32935T), es-MAR-2T 103424T=JCM 32554T), AP-Mumm-500A-B3T 107037T=JCM 32936T), MWH-UH21BT 23884T=LMG 29707T).

Language: Английский

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High-resolution metagenomic reconstruction of the freshwater spring bloom

Microbiome, Journal Year: 2023, Volume and Issue: 11(1)

Published: Jan. 26, 2023

Abstract Background The phytoplankton spring bloom in freshwater habitats is a complex, recurring, and dynamic ecological spectacle that unfolds at multiple biological scales. Although enormous taxonomic shifts microbial assemblages during after the have been reported, genomic information on community of remains scarce. Results We performed high-resolution spatio-temporal sampling reservoir describe multitude previously unknown taxa using metagenome-assembled genomes eukaryotes, prokaryotes, viruses combination with broad array methodologies. recovered reveal distributional dynamics for several bacterial groups progressively increasing stratification. Analyses abundances concert CARD-FISH revealed remarkably similar situ doubling time estimates dominant genome-streamlined lineages. Discordance between quantitations cryptophytes arising from sequence data microscopic identification suggested presence hidden, yet extremely abundant aplastidic were confirmed by analyses. Aplastidic are prevalent throughout water column but never considered prior models plankton dynamics. also first metagenomic-assembled protists (a diatom haptophyte) along thousands giant viral contigs, some which appeared to infecting haptophytes owing lack known representatives, most remained without any indication their hosts. contrasting distribution present entire parasitic perkinsids residing largely deeper waters allows us propose as agents top-down control collapse, likely bottom-up factors like nutrient limitation. Conclusion reconstructed microbes show such large-scale genome recovery tracking planktonic succession great detail. However, integration metagenomic other methodologies (e.g., microscopy, CARD-FISH) critical diverse phenomena patterns, times) novel participants cryptophytes) further refine existing affecting collapse). This work provides foundation future approaches towards fine-scale characterization organisms relation rapidly changing environment course bloom.

Language: Английский

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Dissolved organic carbon spurs bacterial-algal competition and phosphorus-paucity adaptation: Boosting Microcystis' phosphorus uptake capacity

Water Research, Journal Year: 2024, Volume and Issue: 255, P. 121465 - 121465

Published: March 13, 2024

Language: Английский

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Community stability of free-living and particle-attached bacteria in a subtropical reservoir with salinity fluctuations over 3 years

Water Research, Journal Year: 2024, Volume and Issue: 254, P. 121344 - 121344

Published: Feb. 20, 2024

Language: Английский

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Unraveling the determinants of antibiotic resistance evolution in farmland under fertilizations

Journal of Hazardous Materials, Journal Year: 2024, Volume and Issue: 474, P. 134802 - 134802

Published: June 3, 2024

Language: Английский

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Characteristics of microbial carbon pump in the sediment of kelp aquaculture zone and its contribution to recalcitrant dissolved organic carbon turnover: insights into metabolic patterns and ecological functions

Environmental Research, Journal Year: 2025, Volume and Issue: unknown, P. 121559 - 121559

Published: April 1, 2025

Language: Английский

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Groundwater bacterial communities evolve over time in response to recharge

Water Research, Journal Year: 2021, Volume and Issue: 201, P. 117290 - 117290

Published: May 26, 2021

Time series analyses are a crucial tool for uncovering the patterns and processes shaping microbial communities their functions, especially in aquatic ecosystems. Subsurface environments perceived to be more stable than surface oceans lakes, due lack of sunlight, absence photosysnthetically-driven primary production, low temperature variations, oligotrophic conditions. However, periodic groundwater recharge should affect structure succession microbiomes. To disentangle long-term temporal changes bacterial shallow fractured bedrock groundwater, identify drivers observed patterns, we analysed 16S rRNA gene sequencing data samples collected monthly from three wells over six-year period (n = 230) along hillslope area. We showed that limestone-mudstone alternations were not time exhibited non-linear dissimilarity which corresponded periods recharge. Further, an increase (generalized additive model P < 0.001) indicating successive events result increasingly dissimilar initial reference point. The sampling was able explain up 29.5% variability community composition impact on microbiome linked strength local environmental selection. Many bacteria originated recharge-related sources (mean 66.5%, SD 15.1%) specific taxa identified as being either enriched or repressed during events. Overall, similar environments, microbiomes fractured-rock vary through time, though revealed recharges unique driving factors these patterns. high resolution employed here highlights dynamics is essential resource provision clean drinking water; understanding biological complexities systems therefore crucial.

Language: Английский

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Adaptive genetic traits in pelagic freshwater microbes

Environmental Microbiology, Journal Year: 2022, Volume and Issue: 25(3), P. 606 - 641

Published: Dec. 14, 2022

Abstract Pelagic microbes have adopted distinct strategies to inhabit the pelagial of lakes and oceans can be broadly categorized in two groups: free‐living, specialized oligotrophs patch‐associated generalists or copiotrophs. In this review, we aim identify genomic traits that enable pelagic freshwater thrive their habitat. To do so, discuss main genetic differences marine are both dominated by difference sediment microbes, where copiotrophs more prevalent. We phylogenomically analysed a collection >7700 metagenome‐assembled genomes, classified habitat preferences on different taxonomic levels, compared metabolic freshwater, marine, microbes. Metabolic mainly associated with transport functions, environmental information processing, components electron chain, osmoregulation isoelectric point proteins. Several lineages known transitions (Nitrososphaeria, SAR11, Methylophilaceae, Synechococcales, Flavobacteriaceae, Planctomycetota) underlying mechanisms process discussed review. Additionally, distribution, ecology make‐up most abundant prokaryotes described details separate chapters for Actinobacteriota, Bacteroidota, Burkholderiales, Verrucomicrobiota, Chloroflexota, ‘ Ca . Patescibacteria’.

Language: Английский

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Shift of phytoplankton assemblages in a temperate lake located on the eastern route of the South-to-North Water Diversion Project

Environmental Research, Journal Year: 2023, Volume and Issue: 227, P. 115805 - 115805

Published: March 31, 2023

Language: Английский

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Changes of phytoplankton and water environment in a highly urbanized subtropical lake during the past ten years

The Science of The Total Environment, Journal Year: 2023, Volume and Issue: 879, P. 162985 - 162985

Published: March 22, 2023

Language: Английский

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