Detection of Potentially Pathogenic Bacteria in the Brackish Rivers Flowing Into the Elton Lake by High-Throughput Sequencing

Селиватва, Е. А.; Хлопко, Ю. А.; Gogoleva, Natalia; Плотников, А. О.

doi:10.36233/0372-9311-2018-4-87-95

Cited by 5 publications

(1 citation statement)

References 15 publications

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“…We found correlations and putative associations between chlorophyte (green algal) OTUs and OTUs of several bacteria identified by other studies to be chlorophyte microbiome constituents, including families Comamonadaceae , Rhodobacteraceae , and Chthoniobacteraceae [95, 96], and Flavobacteriaceae and order Sphingomonadales (Alphaproteobacteria) [97]. Correlations were also identified between chlorophytes and sulfur bacteria (family Chromatiaceae ) which are known to be abundant in lakes [98], and cyanobacteria of order Oscillatoriales (family Microcoleaceae ), and two families of potentially pathogenic Gammaproteobacteria, Moraxellaceae and Aeromonadaceae [99, 100]. Chlorophytes are known to thrive under high nutrient concentrations early in the season, in particular high nitrate levels and a deep mixed layer [101, 102, 103].…”

Section: Discussionmentioning

confidence: 93%

Time-series metagenomics reveals changing protistan ecology of a temperate dimictic lake

Krinos,

Bowers,

Rohwer

et al. 2024

Preprint

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Protists, single-celled eukaryotic organisms, are critical to food web ecology, contributing to primary productivity and connecting small bacteria and archaea to higher trophic levels. Lake Mendota is a large, eutrophic natural lake that is a Long-Term Ecological Research site and among the world's best-studied freshwater systems. Metagenomic samples have been collected and shotgun sequenced from Lake Mendota for the last twenty years. Here, we analyze this comprehensive time series to infer changes to the structure and function of the protistan community, and to hypothesize about their interactions with bacteria. Based on small subunit rRNA genes extracted from the metagenomes and metagenome-assembled genomes of microeukaryotes, we identify shifts in the eukaryotic phytoplankton community over time, which we predict to be a consequence of reduced zooplankton grazing pressures after the invasion of a invasive predator (the spiny water flea) to the lake. The metagenomic data also reveal the presence of the spiny water flea and the zebra mussel, a second invasive species to Lake Mendota, prior to their visual identification during routine monitoring. Further, we use species co-occurrence and co-abundance analysis to connect the protistan community with bacterial taxa. Correlation analysis suggests that protists and bacteria may interact or respond similarly to environmental conditions. Cryptophytes declined in the second decade of the timeseries, while many alveolate groups (e.g. ciliates and dinoflagellates) and diatoms increased in abundance, changes that have implications for food web efficiency in Lake Mendota. We demonstrate that metagenomic sequence-based community analysis can complement existing efforts to monitor protists in Lake Mendota based on microscopy-based count surveys. We observed patterns of seasonal abundance in microeukaryotes in Lake Mendota that corroborated expectations from other systems, including high abundance of cryptophytes in winter and diatoms in fall and spring, but with much higher resolution than previous surveys. Our study identified long-term changes in the abundance of eukaryotic microbes, and provided context for the known establishment of an invasive species that catalyzes a trophic cascade involving protists. Our findings are important for decoding potential long-term consequences of human interventions, including invasive species introduction.

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Section: Discussionmentioning

confidence: 93%

Time-series metagenomics reveals changing protistan ecology of a temperate dimictic lake

Krinos,

Bowers,

Rohwer

et al. 2024

Preprint

View full text Add to dashboard Cite

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Time-series metagenomics reveals changing protistan ecology of a temperate dimictic lake

Krinos,

Bowers,

Rohwer

et al. 2024

Microbiome

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Background Protists, single-celled eukaryotic organisms, are critical to food web ecology, contributing to primary productivity and connecting small bacteria and archaea to higher trophic levels. Lake Mendota is a large, eutrophic natural lake that is a Long-Term Ecological Research site and among the world’s best-studied freshwater systems. Metagenomic samples have been collected and shotgun sequenced from Lake Mendota for the last 20 years. Here, we analyze this comprehensive time series to infer changes to the structure and function of the protistan community and to hypothesize about their interactions with bacteria. Results Based on small subunit rRNA genes extracted from the metagenomes and metagenome-assembled genomes of microeukaryotes, we identify shifts in the eukaryotic phytoplankton community over time, which we predict to be a consequence of reduced zooplankton grazing pressures after the invasion of a invasive predator (the spiny water flea) to the lake. The metagenomic data also reveal the presence of the spiny water flea and the zebra mussel, a second invasive species to Lake Mendota, prior to their visual identification during routine monitoring. Furthermore, we use species co-occurrence and co-abundance analysis to connect the protistan community with bacterial taxa. Correlation analysis suggests that protists and bacteria may interact or respond similarly to environmental conditions. Cryptophytes declined in the second decade of the timeseries, while many alveolate groups (e.g., ciliates and dinoflagellates) and diatoms increased in abundance, changes that have implications for food web efficiency in Lake Mendota. Conclusions We demonstrate that metagenomic sequence-based community analysis can complement existing efforts to monitor protists in Lake Mendota based on microscopy-based count surveys. We observed patterns of seasonal abundance in microeukaryotes in Lake Mendota that corroborated expectations from other systems, including high abundance of cryptophytes in winter and diatoms in fall and spring, but with much higher resolution than previous surveys. Our study identified long-term changes in the abundance of eukaryotic microbes and provided context for the known establishment of an invasive species that catalyzes a trophic cascade involving protists. Our findings are important for decoding potential long-term consequences of human interventions, including invasive species introduction.

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Sanitary and Ecological Importance of Bacteria of the Genus Acinetobacter Isolated From Water and Fish in Volga Delta

Obukhova

Lartseva

2021

Vestnik of Astrakhan State Technical University. Series: Fishing Industry

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The article highlights the study of the sanitary and ecological features of acinetobac-teria,which were isolated from the water and fish in the Volga Delta in the period from 1987 up to 2010. Today, these bacteria are among the most dangerous pathogens for people, especially in hospitals. They can exist in hydroecosystems and interact with aquatic biota. There were analyzed 96 beluga species; 295 sturgeon species; 217 stellate sturgeon species; 50 sterlet species; 173 carp species; 447 zander species; 638 water samples in the fishing areas. There were examined the fish, parenchymal organs, intestines, gills, blood, gonads (in sturgeon), and muscle tissues. Pathogenicity factors were taken into account: growth at 37°C, fermentation of hemolysin, protease, lecithinase, catalase; viability in 3.0; 7.0; 10.0% broth with NaCl. It is shown that the occurrence of Acinetobacter in water ranged from 3.0 to 16.7%; in fish-from 4.6 to 10.5% of samples of the entire isolated microflora. Inferior to the dominant enterobacteria and aeromonads, acinetobacteria isolated from water and fish had all the analyzed pathogenicity factors, especially catalase activity. In combination with halophilicity, these bacteria can be preserved in fish when stored frozen and as salted fish products.

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Detection of Potentially Pathogenic Bacteria in the Brackish Rivers Flowing Into the Elton Lake by High-Throughput Sequencing

Cited by 5 publications

References 15 publications

Time-series metagenomics reveals changing protistan ecology of a temperate dimictic lake

Time-series metagenomics reveals changing protistan ecology of a temperate dimictic lake

Time-series metagenomics reveals changing protistan ecology of a temperate dimictic lake

Sanitary and Ecological Importance of Bacteria of the Genus Acinetobacter Isolated From Water and Fish in Volga Delta

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