Sirvi Autor "Kisand, Veljo" järgi

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Antibiotic Resistance in Campylobacter spp. Isolated from Broiler Chicken Meat and Human Patients in Estonia
(MDPI, 2022) Tedersoo, Triin; Roasto, Mati; Mäesaar, Mihkel; Häkkinen, Liidia; Kisand, Veljo; Ivanova, Marina; Valli, Marikki Heidi; Meremäe, Kadrin
Poultry meat is considered the most important source of Campylobacter spp. Because of ris- ing antimicrobial resistance in Campylobacter spp., this study investigated the antimicrobial resistance of Campylobacter isolates from fresh broiler chicken meat originating from the Baltic countries sold in Estonian retail settings. Additionally, human clinical isolates obtained from patients with Campylobacter enteritis in Estonia were analysed. The aim of this study was to investigate the susceptibility of Campylobacter spp. to nalidixic acid, ciprofloxacin, tetracycline, streptomycin, erythromycin and gen- tamicin. The broth microdilution method with the EUCAMP2 panel was used for MIC determination and antimicrobial mechanisms were analysed using WGS data. A total of 46 Campylobacter strains were analysed, of which 26 (42.6%) originated from Lithuanian, 16 (26.2%) from Latvian, and 4 (6.6%) from Estonian fresh broiler chicken meat. In addition, 15 (24.6%) Campylobacter strains of patients with campylobacteriosis were tested. The antimicrobial resistance patterns of Campylobacter spp. isolated from fresh broiler chicken meat samples of Estonian, Latvian and Lithuanian origin collected in Estonian retail, and from patients with Campylobacter enteric infections, were determined. A total of 46 (75%) of the isolates tested were C. jejuni and 15 (25%) were C. coli. Campylobacter resistance was highest to nalidixic acid (90.2% of strains) and ciprofloxacin (90.2%), followed by tetracycline (57.4%), streptomycin (42.6%) and erythromycin (6.6%). All strains were sensitive to gentamicin. Additionally, antimicrobial resistance genes and point mutations were detected in 27 C. jejuni and 8 C. coli isolates previously assigned as resistant with the phenotypic method. A high antibiotic resistance of Campylobacter spp. in Lithuanian- and Latvian-origin broiler chicken meat and Estonian clinical isolates was found. Similar antibiotic resistance patterns were found for broiler chicken meat and human Campylobacter isolates.
Chironomid incorporation of methane‐derived carbon in plankton‐ and macrophyte‐dominated habitats in a large shallow lake
(Wiley, 2018) Agasild, Helen; Kisand, Anu; Ainelo, Epp; Feldmann, Tõnu; Timm, Henn; Karus, Katrit; Kisand, Veljo; Jones, Roger I.; Nõges, Tiina; Centre for Limnology. Institute of Agricultural and Environmental Sciences. Estonian University of Life Sciences
1. While 13 C-depleted carbon derived from biogenic methane can substantially contribute to the benthic secondary production in deep stratified lakes, its role in shallow lakes is less clear. We investigated the dynamics of δ13 C and δ15 N in the larvae of Chironomus plumosus throughout an annual cycle in two ecologically distinct basins (open-water plankton-dominated and sheltered macrophyte- covered) of a large (270 km2 ), shallow, polymictic and eutrophic lake (Võrtsjärv, Estonia, North Europe). The larval stable isotopic compositions were linked to the presence of methane-oxidising bacteria (MOB) in larval guts and sediments. 2. Molecular detection of MOB revealed their presence in various sediment types, but stable isotope (SI) analysis revealed clear differences in the feeding of chironomid larvae between the plankton- and macrophyte-dominated habitats. 3. In the plankton-dominated habitat, the mean δ13 C values of larvae remained relatively constant (−38.3‰ to −35.5‰) and corresponded closely to the sediment δ13 C values. Mean δ13 C values of chironomid larvae were generally lower in macrophyte-dominated habitats (−43.4‰ to −33.0‰), and both seasonal and individual variation in larval δ13 C values were more pronounced. MOB presence in larval guts proved a dietary contribution from biogenic methane in macrophyte-dominated habitats. Both the SI and molecular results indicated that MOB could help support larvae even during the cold temperature-limited and ice- covered periods. 4. Our study indicates that methane-derived carbon makes a low but steady contri- bution to the larval chironomids throughout an annual cycle in large shallow Võrtsjärv. However, this contribution can be substantially higher in the lake habitats with abundant macrophytes. The study provides further evidence that a carbon flow pathway from biogenic methane can contribute to the benthic food web under variable habitat conditions in a shallow polymictic lake.
Environmental drivers and abrupt changes of phytoplankton community in temperate lake Lielais Svetinu, Eastern Latvia, over the last Post-Glacial period from 14.5 kyr
(Elsevier, 2021) Tõnno, Ilmar; Talas, Liisi; Freiberg, Rene; Kisand, Anu; Belle, Simon; Stivrins, Normunds; Alliksaar, Tiiu; Heinsalu, Atko; Veski, Siim; Kisand, Veljo; Chair of Hydrobiology and Fishery
Understanding the long-term dynamics of ecological communities on the centuries-to-millennia scale is important for explaining the emergence of present-day biodiversity patterns and for predicting possible future scenarios. Fossil pigments and ancient DNA present in various sedimentary deposits can be analysed to study long-term changes in ecological communities. We analysed recent compilations of data, including fossil pigments, microfossils, and molecular inventories from the sedimentary archives, to understand the impact of gradual versus abrupt climate changes on the ecosystem status of a regional model lake over the last ~14.5 kyr. Such long and complete paleo-archives are scarce in North-Eastern Europe. The study site lies in a sensitive area, both climatically and in respect to vegetation. Namely the maritime-continentality line runs west to east in the central Baltic area to NE Europe and its south- north transect lies within the gradual decay of the nemoral forest into a boreal environment. Therefore, the selected location is an ideal sampling point to decipher long term environmental changes in the temperate climate zone. The main objective of the present study was to find out external factors influencing phototroph dynamics at temperate Lake Lielais Sv etin ̧ u over the post-glacial period (~14.5 kyr). We were able to model climate change together with vegetation change and the appearance of anthropogenic forcing, either as a gradual change or as abrupt events that influenced the phototrophs, which are keystone groups within the lacustrine ecosystem. Most interestingly, the gradual increase of species richness of phototrophs was linked to similar increase in fungal parasites of the same group e phototrophs. Abrupt climate change in the Late Glacial period caused abrupt events in the ecosystem but equally abrupt events were caused by gradual changes during the stable period of the Holocene Thermal Maximum (HTM). In addition, we highlight the increased frequency and degree of perturbation in pristine lakes due to low impact human activity over a larger region. Both observations demonstrate an impaired relationship between gradual external drivers and ecosystem response and apply to future scenarios of climate warming and increased human impact in north-eastern Europe.
From microscopy to genes – tracing toxic cyanobacteria in a shallow eutrophic lake
(Estonian University of Life Sciences, 2022) Panksep, Kristel; Kisand, Veljo; Agasild, Helen; Sivonen, Kaarina; Institute of Agricultural and Environmental Sciences; Vasas, Gabor (opponent)
Global warming paired with eutrophication processes is shifting phytoplankton communities towards the dominance of bloom-forming and potentially toxic cyanobacteria. Cyanobacterial blooms are considered an increasing threat in freshwater. Traditional monitoring predominantly relies on cyanobacterial biomass as an indicator of potential toxin presence, disregarding that toxin concentrations can rapidly increase even when cyanobacterial biomass is low. The concentration of toxins in the water is related to the abundance of toxin-producing species and the amount of toxin per cell – toxin quota. My research provides valuable information about the cyanobacterial community composition, the abundance of toxic genotypes, microcystin concentrations, microcystin quota and the environmental factors that promote toxic cyanobacterial blooms in the large and shallow freshwater lake Peipsi. This is the first study to utilise molecular methods as complementary to routine monitoring to determine cyanobacterial toxicity potential in lake Peipsi. In situ studies on zooplankton taxon-specific ingestion of potentially toxic cyanobacteria are still limited. My study focused on the importance of cyanobacteria as a food source for the dominant crustacean grazers. Among the first studies using qPCR targeting cyanobacterial genus-specific mcyE synthase genes in zooplankton gut content analysis, we show that potentially toxic strains of Microcystis can be ingested directly or indirectly by different zooplankton grazers. Information gathered from this study expanded our knowledge on the ecology of toxic cyanobacteria, provided an indication of how molecular methods can improve traditional risk assessment concerning the abundance of cyanobacteria and their cyanotoxins and broadened our knowledge of how target specific molecular tools could be further used in aquatic food-web studies. In the current thesis, I present a synthesis of spatial and temporal variability of potentially toxic cyanobacteria and the importance of cyanobacteria as a food source for crustacean zooplankton in large and shallow lake. The thesis is based on three published papers each dedicated to a different aspect of the whole. This thesis improves our knowledge of potentially toxic cyanobacteria and cyanotoxins in large and shallow eutrophic lakes and also provides the first insight into the in-situ consumption of toxic Microcystis by cladoceran and copepod grazers dominating in the lake. The knowledge gained from this study will guide us to further important questions that should be addressed in future research regarding the functioning of the food web of lake Peipsi. Phytoplankton community through high throughput sequencing would allow analysing the relation of cyanobacterial community composition along with concentration and diversity of cyanotoxins. This would include small-sized cyanobacteria in analysis, which are now excluded from the research. To elucidate the processes underlying cyanotoxin dynamics in more detail, further exploration focusing on the expression of toxin genes along with toxin concentration would be beneficial. Toxin gene expression could better indicate potential risks, especially in water bodies comprising mixed assemblages of toxic and non-toxic cyanobacteria.
Impact of salinity on the gastrointestinal bacterial community of Theodoxus fluviatilis
(Frontiers, 2020) Kivistik, Carmen; Knobloch, Jan; Käiro, Kairi; Tammert, Helen; Kisand, Veljo; Hildebrandt, Jan-Peter; Herlemann, Daniel P.; Centre for Limnology. Estonian University of Life Sciences
Differences in salinity are boundaries that act as barriers for the dispersal of most aquatic organisms. This creates distinctive biota in freshwater and brackish water (mesohaline) environments. To test how saline boundaries influence the diversity and composition of host-associated microbiota, we analyzed the microbiome within the digestive tract of Theodoxus fluviatilis, an organism able to cross the freshwater and mesohaline boundary. Alpha-diversity measures of the microbiome in freshwater and brackish water were not significantly different. However, the composition of the bacterial community within freshwater T. fluviatilis differed significantly compared with mesohaline T. fluviatilis and typical bacteria could be determined for the freshwater and the mesohaline digestive tract microbiome. An artificial increase in salinity surrounding these freshwater snails resulted in a strong change in the bacterial community and typical marine bacteria became more pronounced in the digestive tract microbiome of freshwater T. fluviatilis. However, the composition of the digestive tract microbiome in freshwater snails did not converge to that found within mesohaline snails. Within mesohaline snails, no cardinal change was found after either an increase or decrease in salinity. In all samples, Pseudomonas, Pirellula, Flavobacterium, Limnohabitans, and Acinetobacter were among the most abundant bacteria. These bacterial genera were largely unaffected by changes in environmental conditions. As permanent residents in T. fluviatilis, they may support the digestion of the algal food in the digestive tract. Our results show that freshwater and mesohaline water host-associated microbiomes respond differently to changes in salinity. Therefore, the salinization of coastal freshwater environments due to a rise in sea level can influence the gut microbiome and its functions with currently unknown consequences for, e.g., nutritional physiology of the host.
Towards understanding the abundance of non-pollen palynomorphs : A comparison of fossil algae, algal pigments and sedaDNA from temperate lake sediments
(Elsevier, 2018) Stivrins, Normunds; Soininen, Janne; Tõnno, Ilmar; Freiberg, Rene; Veski, Siim; Kisand, Veljo; Centre for Limnology. Institute of Agricultural and Environmental Sciences
Given the increased interest in non-pollen palynomorphs (microscopic objects other than pollen identified from pollen slides) in palaeoecological studies, it is necessary to seek a deeper understanding of the reliability of these results. We combined quantitative information of algal pigments and sedimentary ancient DNA (sedaDNA) of phylotaxonomical resolution to validate the richness and abundance of fossil algae in the sediment of a small temperate lake. For the first time, fossil and sedaDNA algae data were combined in a composite data-set and used to reconstruct algae turnover rates over the last 14,500 years. This comparison serves as both an example of howfossil algae can be used to answer various research questions and as a method of revealing towhat extent we can rely on palaeoecological interpretations based solely on the fossil algae record from pollen slides.

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