We present a metagenomic study of Lake Baikal (East Siberia). Two samples obtained from the water column under the ice cover (5 and 20 m deep) in March 2016 have been deep sequenced and the reads ...assembled to generate metagenome-assembled genomes (MAGs) that are representative of the microbes living in this special environment. Compared with freshwater bodies studied around the world, Lake Baikal had an unusually high fraction of
Other groups, such as
and
, were in proportions similar to those found in other lakes. The genomes (and probably cells) tended to be small, presumably reflecting the extremely oligotrophic and cold prevalent conditions. Baikal microbes are novel lineages recruiting very little from other water bodies and are distantly related to other freshwater microbes. Despite their novelty, they showed the closest relationship to genomes discovered by similar approaches from other freshwater lakes and reservoirs. Some of them were particularly similar to MAGs from the Baltic Sea, which, although it is brackish, connected to the ocean, and much more eutrophic, has similar climatological conditions. Many of the microbes contained rhodopsin genes, indicating that, in spite of the decreased light penetration allowed by the thick ice/snow cover, photoheterotrophy could be widespread in the water column, either because enough light penetrates or because the microbes are already adapted to the summer ice-less conditions. We have found a freshwater SAR11 subtype I/II representative showing striking synteny with
strains, as well as a phage infecting the widespread freshwater bacterium
Despite the increasing number of metagenomic studies on different freshwater bodies, there is still a missing component in oligotrophic cold lakes suffering from long seasonal frozen cycles. Here, we describe microbial genomes from metagenomic assemblies that appear in the upper water column of Lake Baikal, the largest and deepest freshwater body on Earth. This lake is frozen from January to May, which generates conditions that include an inverted temperature gradient (colder up), decrease in light penetration due to ice, and, especially, snow cover, and oligotrophic conditions more similar to the open-ocean and high-altitude lakes than to other freshwater or brackish systems. As could be expected, most reconstructed genomes are novel lineages distantly related to others in cold environments, like the Baltic Sea and other freshwater lakes. Among them, there was a broad set of streamlined microbes with small genomes/intergenic spacers, including a new nonmarine
-like (subtype I/II) genome.
The composition of bacterial communities in Lake Baikal in different hydrological periods and at different depths (down to 1515 m) has been analyzed using pyrosequencing of the 16S rRNA gene V3 ...variable region. Most of the resulting 34 562 reads of the Bacteria domain have clustered into 1693 operational taxonomic units (OTUs) classified with the phyla Proteobacteria, Actinobacteria, Chloroflexi, Bacteroidetes, Firmicutes, Acidobacteria and Cyanobacteria. It has been found that their composition at the family level and relative contributions to bacterial communities distributed over the water column vary depending on hydrological period. The number of OTUs and the parameters of taxonomic richness (ACE, Chao1 indices) and diversity (Shannon and inverse Simpson index) reach the highest values in water layers. The composition of bacterial communities in these layers remains relatively constant, whereas that in surface layers differs between hydrological seasons. The dynamics of physicochemical conditions over the water column and their relative constancy in deep layers are decisive factors in shaping the pattern of bacterial communities in Lake Baikal.
In this article, we detailed description of changes in the taxonomic composition and quantitative ratio of different groups of microorganisms along the Lake Baikal water column.
Graphical Abstract Figure.
In this article, we detailed description of changes in the taxonomic composition and quantitative ratio of different groups of microorganisms along the Lake Baikal water column.
Microorganisms exhibit seasonal succession governed by physicochemical factors and interspecies interactions, yet drivers of this process in different environments remain to be determined. We used ...high-throughput sequencing of 16S rRNA and 18S rRNA genes to study seasonal dynamics of bacterial and microeukaryotic communities at pelagic site of Lake Baikal from spring (under-ice, mixing) to autumn (direct stratification). The microbial community was subdivided into distinctive coherent clusters of operational taxonomic units (OTUs). Individual OTUs were consistently replaced during different seasonal events. The coherent clusters change their contribution to the microbial community depending on season. Changes of temperature, concentrations of silicon, and nitrates are the key factors affected the structure of microbial communities. Functional prediction revealed that some bacterial or eukaryotic taxa that switched with seasons had similar functional properties, which demonstrate their functional redundancy. We have also detected specific functional properties in different coherent clusters of bacteria or microeukaryotes, which can indicate their ability to adapt to seasonal changes of environment. Our results revealed a relationship between seasonal succession, coherency, and functional features of freshwater bacteria and microeukaryotes.
The construction of a dam for the Irkutsk hydroelectric power plant caused the water level in Lake Baikal to increase by 80 cm between 1958 and 1961. This led to a downward migration of the base of ...the gas hydrate stability zone (BGHSZ) in the sediments of the lake, which was followed by a long transition process to a new state of equilibrium. In the first stage of the transition, new gas hydrates formed at the BGHSZ, which was accompanied and followed by a decrease in pore pressure, a decrease in methane transfer from the BGHSZ to the lake floor (via fast transfer pathways, such as faults or mud volcanoes), a decrease in the intensity of methane release from the lake floor into the water column, and a decrease in the methane concentrations in the water. In the second stage, which covers the last 10–15 years, methane concentrations in the water column have started to increase again, possibly in response to an uptick in methane flux from the lake floor. In this paper, we look at possible explanations. Mathematical modeling of the migration of the BGHSZ allowed us to estimate how long the transition process takes. The modeled transition times are different for different locations in the lake, depending mainly on the sedimentation rate and the gas hydrate content of the sediments. In the near future, Lake Baikal may reach a quasi-stationary state again similar to that before the construction of the dam. This stationary state likely involves much higher methane concentrations in the water column than what is observed today, as well as adverse effects on biota of pulsed expulsions of methane, sourced from the BGHSZ, into the water column by means of e.g. mud-volcano eruptions. Such effects may include events of mass deaths of the endemic deep-water fish, golomyanka, similar to what was reported to have occurred in the 19th and first half of the twentieth century, prior to the construction of the dam. This study also reemphasizes how variations in the dynamics of a natural gas hydrate system may have a profound impact on the water bodies in which they occur and on the ecosystems within these water bodies. It also highlights which effects can be expected in other hydrate-bearing marine basins where climate-induced sea-level rise will impact the dynamics of the hydrate reservoirs.
In this study, we present results on fatty acid analysis of phytoplankton of Lake Baikal, the world’s deepest lake, which differs from other lakes by its oceanic features. Since we used a large-mesh ...net, the net sample phytoplankton were primarily represented by the large elongated diatom Synedra acus. subsp. radians (Kützing) Skabichevskij. The similar algae composition of net samples of spring season phytoplankton collected at different sites of the lake allows us to compare results of the fatty acid analysis of these samples. The phytoplankton diversity of the sedimentation samples was contrary represented by 32 algae species. There are clear changes in the fatty acid composition of net phytoplankton exposed to anthropogenic impacts of varying intensity. The content of polyunsaturated fatty acids in phytoplankton collected from central stations (pelagic stations at a distance of ~10–30 km from the shoreline) without anthropogenic impact was higher by up to 15% than phytoplankton collected from nearshore stations (littoral stations at a distance of ~0.01–0.05 km from the shoreline) and offshore stations (pelagic stations at a distance of ~3 km from the shoreline). The interlaboratory precision of fatty acid determination of phytoplankton is estimated as ≤10%. We found high content of the lipid peroxidation marker (80–340 μg g−1 of dry weight) in phytoplankton from nearshore and offshore stations with intensive anthropogenic impact. In phytoplankton from central stations, we did not find any lipid peroxidation. Determination of unsaturated fatty acids, coupled with analysis of fatty acid peroxidation products, can be used to evaluate the level of anthropogenic impact in terms of ecological health and biodiversity conservation.
Phytoplankton and bacterioplankton play a key role in carbon cycling of aquatic ecosystems. In this study, we found that co-occurrence patterns between different types of phytoplankton, ...bacterioplankton, and environmental parameters in Lake Baikal during spring were different over the course of three consecutive years. The composition of phytoplankton and bacterial communities was investigated using microscopy and 16S rRNA gene pyrosequencing, respectively. Non-metric multidimensional scaling (NMDS) revealed a relationship between the structure of phytoplankton and bacterial communities and temperature, location, and sampling year. Associations of bacteria with diatoms, green microalgae, chrysophyte, and cryptophyte were identified using microscopy. Cluster analysis revealed similar correlation patterns between phytoplankton abundance, number of attached bacteria, ratio of bacteria per phytoplankton cell and environmental parameters. Positive and negative correlations between different species of phytoplankton, heterotrophic bacteria and environmental parameters may indicate mutualistic or competitive relationships between microorganisms and their preferences to the environment.
This study revises the δ18O and δ2H status of Lake Baikal. The mean values of δ18O and δ2H varied from −15.9 to −15.5‰ and from −123.2 to 122.2‰, respectively, for the past 30 yr. The isotopic ...composition of the lake remained more ‘‘light” compared to the regional precipitation and rivers inflows. The isotopic composition of the lake has begun to change since ca.1920 after the Little Ice Age; however, Lake Baikal still has not reached the isotopically steady state in the present. The calculated composition of the steady-state should be −12.3‰ for δ18O and −103.6‰ for δ2H. If regional climate parameters do not change dramatically, Lake Baikal will reach these values in ca. 226 yr. Based on isotopic fingerprints of the upper (0 to 150 m) and near-bottom layers (ca. 150 m from the bottom floor), the renewal in the southern and central basins of Lake Baikal has occurred recently compared to the northern Baikal basin, and the size of the mixing-cell of downwelling is close to 30 km.
A high abundance of planktonic microalgae is typically thought to be related to their ‘bloom’, that is, to active population growth. Diatom blooms in the photic zone of Lake Baikal generally occur ...during hydrological spring (April–June); when the summer arrives and the surface water temperature increases, diatoms are replaced by other microalgae. In July 2019, we found a concentration of the diatom Fragilaria radians at a station in South Baikal that was extremely high for that season. This species generally blooms in spring, but in spring (May) of 2019, this alga was nearly absent from the phytoplankton population. Microscopic analysis of the sample taken in July 2019 revealed that the cells were in a dormant stage. The species composition of microalgae in phytoplankton samples from May 2018 and July 2019 was similar. According to the temperature profile analysis, a summer upwelling event from a depth of ca. 100 m occurred in 2019. We hypothesised that this event caused the resuspension of microalgae, including Fragilaria radians, which were deposited on the slopes of the lake in 2018. Hence, the high abundance is not always a ‘bloom’ or an active growth.
The 2011 Mw9.0 Tohoku earthquake and the 2012 Mw8.6 and 2016 Mw7.8 Sumatra earthquakes caused water level oscillations in Lake Baikal which were recorded by a water pressure tensor transducer with ...high sampling rate. Periods of water oscillations were about 100 s, and maximum peak-to-peak amplitudes were as large as 0.15 m for the 2011 Tohoku earthquake and 0.24 m for the 2012 Sumatra earthquake, although the Tohoku earthquake was closer and stronger. The difference in the amplitude of the level oscillations for these earthquakes was probably caused by their focal mechanisms, namely thrust and strike-slip, as well as the direction of the wave propagation. CTD (conductivity-temperature-depth) measurements conducted after these earthquakes at the regularly tested stations showed a temperature increase in the near-bottom water layer after the Tohoku earthquake in March 2011, and a decrease in temperature and electrical conductivity after the Sumatra earthquake in March 2016. These observations cannot be explained by the known processes of deep water renewal, so based on the gas hydrate presence in the Baikal sediments we assume that seismic wave passing could change permeability in the sedimentary layer (at least for the 2011 Tohoku case study) and promote methane flux from the base of the hydrate stability zone and formation of gas hydrates with heat release. As to the 2016 Sumatra study case, we suppose to explain it by gas hydrate dissociation in the subsurface sediments. We present rough estimates of the volume of the formed/dissociated gas hydrates.
•Amplitude of the Lake level oscillations caused by teleseismic waves depends also on the earthquake focal mechanism.•The subsurface sedimentary layer bearing gas hydrates can be sensitive to the passage of seismic waves.•Gas hydrate formation/dissociation is supposed to be a cause of the observed temperature change of the near-bottom waters.
An aquatic surface microlayer covers more than 70% of the world's surface. Our knowledge about the biology of the surface microlayer of Lake Baikal, the most ancient lake on Earth with a surface area ...of 31,500 km², is still scarce. The total bacterial abundance, the number of cultured heterotrophic temporal bacteria, and the spatial distribution of bacteria in the surface microlayer and underlying waters of Lake Baikal were studied. For the first time, the chemical composition of the surface microlayer of Lake Baikal was determined. There were significant differences and a direct relationship between the total bacterial abundance in the surface microlayer and underlying waters of Lake Baikal, as well as between the number of cultured heterotrophic bacteria in studied water layers in the period of summer stratification. In the surface microlayer, the share of cultured heterotrophic bacteria was higher than in the underlying waters. The surface microlayer was characterized by enrichment with PO₄
, total organic carbon and suspended particulate matter compared to underlying waters. A direct relationship was found between the number of bacteria in the surface microlayer and environmental factors, including temperature, total organic carbon and suspended particulate matter concentration.
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