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| 2. |
- Beier, Sara, et al.
(författare)
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Pronounced seasonal dynamics of freshwater chitinase genes and chitin processing
- 2012
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Ingår i: Environmental Microbiology. - : Wiley. - 1462-2912 .- 1462-2920. ; 14:9, s. 2467-2479
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Tidskriftsartikel (refereegranskat)abstract
- Seasonal variation in activity of enzymes involved in polymer degradation, including chitinases, has been observed previously in freshwater environments. However, it is not known whether the seasonal dynamics are due to shifts in the activity of bacteria already present, or shifts in community structure towards emergence or disappearance of chitinolytic organisms. We traced seasonal shifts in the chitinase gene assemblage in a temperate lake and linked these communities to variation in chitinase activity. Chitinase genes from 20 samples collected over a full yearly cycle were characterized by pyrosequencing. Pronounced temporal shifts in composition of the chitinase gene pool (beta diversity) occurred along with distinct shifts in richness (alpha diversity) as well as chitin processing. Changes in the chitinase gene pool correlated mainly with temperature, abundance of crustacean zooplankton and phytoplankton blooms. Also changes in the physical structure of the lake, e.g. stratification and mixing were associated with changes in the chitinolytic community, while differences were minor between surface and suboxic hypolimnetic water. The lake characteristics influencing the chitinolytic community are all linked to changes in organic particles and we suggest that seasonal changes in particle quality and availability foster microbial communities adapted to efficiently degrade them.
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| 3. |
- Berga Quintana, Mercè
(författare)
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Assembly Mechanisms in Aquatic Bacterial Communities : The Role of Disturbances, Dispersal and History
- 2013
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Doktorsavhandling (övrigt vetenskapligt/konstnärligt)abstract
- Environmental conditions, biotic interactions, dispersal and history have been suggested to be important processes influencing the spatial distribution of organisms and thus to affect community assembly. Understanding how these processes influence community assembly is important, particularly because community diversity and composition are suggested to be relevant for ecosystem functioning. Moreover, bacteria are strongly contributing to nutrient and carbon cycle. Bacteria are highly abundant and ubiquitous, and thus it is relevant to study how they are assembled. This thesis aims to gain insight on the role of these processes on aquatic bacterial community assembly, diversity and functioning. The studies included in this thesis involve transplant and microcosm experiments performed in the lab as well as manipulation experiments and field surveys in a natural rock pool systems. Bacterial community composition was addressed by analysis of 16S rRNA gene and community functioning by measuring bacterial production, community respiration and the ability to use different carbon substrates. This thesis highlights that species sorting is a very important assembly mechanism for bacterial communities, but also finds that other processes such as dispersal and history contribute to the patterns observed. Dispersal caused rescuing effects compensating for losses of diversity; at the same time it increased the similarity between communities. Moreover, bacteria have shown a high level of functional plasticity when colonizing a new locality. Interestingly, past environmental conditions explained the structure of bacterial communities better than present-day environmental conditions. Disturbances and biotic interactions are also important in the assembly of communities. Disturbance caused temporary shifts in bacterial function and changes in composition, the magnitude of which depended on the intensity and the frequency of the disturbance. However, natural aquatic bacterial communities showed quite high resilience capacities. Competition can shift the proportion of generalists and specialists species whereas predation or trophic interactions have been found to decrease diversity and to modify the importance of stochasticity. Both caused alterations of community functioning. Finally, this thesis shows that the diversity-functioning relationship is context dependent. Further research should be directed to understanding the intensity and direction of changes in composition and how this affects the functionality of bacterial communities
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| 4. |
- Gårdmark, Anna, et al.
(författare)
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Does predation by grey seals (Halichoerus grypus) affect Bothnian Sea herring stock estimates?
- 2012
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Ingår i: ICES Journal of Marine Science. - : Oxford University Press (OUP). - 1054-3139 .- 1095-9289. ; 69, s. 1448-1456
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Tidskriftsartikel (refereegranskat)abstract
- Mortality of small pelagic fish due to marine mammals is generally considered to be low compared with other sources of mortality. With recent recoveries of marine mammal predators worldwide, this may no longer hold. The grey seal (Halichoerus grypus) population in the Bothnian Sea has increased fivefold since 1985. Its main prey, herring (Clupea harrengus), is a key species for fisheries in the region. Yet, current stock assessments assume constant natural mortality, leading to a risk of biased stock estimates with increasing predation and misleading analyses of herring population dynamics. We estimated grey seal predation from diet data and reanalysed herring spawning stock biomass (SSB) during 1973-2009. Accounting for predation increased the herring SSB 16% (maximum 19%), but this was within the confidence intervals when ignoring predation. Although mortality in older individuals was inflated when accounting for seal predation, this did not change the conclusions about drivers of herring dynamics. Accounting for grey seal predation is important for abundance estimates of old herring, but currently not for SSB estimates, given the great uncertainties in the standard assessment. The grey seal impact on Bothnian Sea herring will need to be reassessed if stock age composition, grey seal feeding preferences, or total stock development change.
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| 5. |
- Hesson, Jenny C., 1980-
(författare)
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Clearing up Culex Confusion : A Basis for Virus Vector Discrimination in Europe
- 2014
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Doktorsavhandling (övrigt vetenskapligt/konstnärligt)abstract
- Mosquito species of the Culex genus are the enzootic vectors for several bird-associated viruses that cause disease in humans. In Europe, these viruses include Sindbis (SINV), West Nile and Usutu viruses. The morphologically similar females of Cx. torrentium and Cx. pipiens are potential vectors of these viruses, but difficulties in correctly identifying the mosquito species have caused confusion regarding their respective distribution, abundance, ecology, and consequently their importance as vectors. Species-specific knowledge from correctly identified field material is however of crucial importance since previous research shows that the relatively unknown Cx. torrentium is a far more efficient SINV vector than the widely recognized Cx. pipiens. The latter is involved in the transmission of several other viruses, but its potential importance for SINV transmission is debated.In this thesis I describe the development of a molecular method for species identification, based on reliably identified males of Cx. torrentium and Cx. pipiens. This identification method was then used in consecutive studies on the distribution and relative abundance of the two species in Sweden and 12 other European countries, SINV field infection rates in mosquitoes identified to species level, and evaluation of potential trap bias associated with common sampling techniques.The results showed that Cx. torrentium is a far more common species in Europe than previously assumed. In Sweden and Finland, it is the dominant species, accounting for 89% of the sampled Culex population. In central Europe, it is equally common to Cx. pipiens, while Cx. pipiens dominates south of the Alps Mountain range. Larvae of both species are often found together in both artificial containers (e.g. car tires) and natural sites. Also, a trapping bias against Cx. torrentium was revealed for CDC-traps. For the first time, SINV was isolated from species-identified Cx. torrentium and Cx. pipiens mosquitoes caught in the field, with Cx. torrentium being superior in infection rates (36/1,000 vs. 8.2/1,000). Future studies on SINV, as well as other mosquito-borne bird viruses in Europe, can hopefully gain from the baseline information provided here, and from principles of vector discrimination discussed in the thesis.
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| 6. |
- Hesson, Jenny C., et al.
(författare)
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Geographic distribution and relative abundance of the sibling vector species Culex torrentium and Culex pipiens in Sweden
- 2011
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Ingår i: Vector Borne and Zoonotic Diseases. - : Mary Ann Liebert Inc. - 1530-3667 .- 1557-7759. ; 11:10, s. 1383-1389
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Tidskriftsartikel (refereegranskat)abstract
- Culex torrentium and Culex pipiens are sibling species and potential viral vectors that coexist in Europe. Larvae and females of the two species are morphologically almost identical, and reliable identification can only be done on males. To investigate the distribution and relative abundance of the two species in Sweden, we collected Culex larvae from sites spread over the country, identified them as Culex pipiens/torrentium based on morphology, and identified them to species using a recently developed restriction enzyme method. Cx. torrentium was the dominant species (89%, n = 1012) and it occurred in 48 of the 49 sites investigated, and also dominated in most of the study sites. The proportion of Cx. pipiens larvae in relation to Cx. torrentium collected at each site decreased with both increasing latitude and altitude, and the presence of Cx. pipiens decreased with latitude. In addition, Cx. pipiens/torrentium females were sampled with Centres for Disease Control light traps baited with carbon dioxide. The overall country mean was 4.0 Cx. pipiens/torrentium caught per trap night, with decreasing numbers of Cx. pipiens/torrentium caught per trap night with increasing latitude. Thus, the abundance of Cx. pipiens/torrentium decreased, but the proportion Cx. torrentium increased, with increasing latitude. This is the first study that shows the vast dominance of Cx. torrentium over Cx. pipiens in Sweden. The unexpected dominance of Cx. torrentium highlights the importance of distinguishing between the two species in studies of Culex-borne arboviruses in Europe.
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| 7. |
- Hesson, Jenny C., 1980-, et al.
(författare)
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The arbovirus vector Culex torrentium is more prevalent than Culex pipiens in northern and central Europe
- 2014
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Ingår i: Medical and Veterinary Entomology. - : Wiley. - 0269-283X .- 1365-2915. ; 28:2, s. 179-186
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Tidskriftsartikel (refereegranskat)abstract
- Two species of arbovirus vector, Culex torrentium and Culex pipiens (Diptera: Culicidae), occur in several European countries, but difficulties in their accurate identification and discrimination have hampered both detailed and large-scale distribution and abundance studies. Using a molecular identification method, we identified to species 2559 larvae of Cx. pipiens/torrentium collected from 138 sites in 13 European countries ranging from Scandinavia to the Mediterranean coast. In addition, samples of 1712 males of Cx. pipiens/torrentium collected at several sites in the Czech Republic were identified to species based on the morphology of their hypopygia. We found that the two species occur together in large areas of Europe, and that Cx. torrentium dominates in northern Europe and Cx. pipiens dominates south of the Alps. The transition in dominance occurs in central Europe, where both species are roughly equally common. There was a strong correlation between the length of the growing season at different sites and occurrences of the two species. As the growing season increases, the proportion and detection of Cx. torrentium decrease, whereas those of Cx. pipiens increase. The present findings have important consequences for the interpretation of the results of studies on major enzootic and link-vectors of mosquito-borne bird-associated viruses (i.e. Sindbis, West Nile and Usutu viruses), especially in central Europe and Scandinavia.
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| 8. |
- Langenheder, Silke, et al.
(författare)
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Temporal variation of beta-diversity and assembly mechanisms in a bacterial metacommunity
- 2012
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Ingår i: The ISME Journal. - : Springer Science and Business Media LLC. - 1751-7362 .- 1751-7370. ; 6:6, s. 1107-1114
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Tidskriftsartikel (refereegranskat)abstract
- The turnover of community composition across space, beta-diversity, is influenced by different assembly mechanisms, which place varying weight on local habitat factors, such as environmental conditions and species interactions, and regional factors such as dispersal and history. Several assembly mechanisms may function simultaneously; however, little is known about how their importance changes over time and why. Here, we implemented a field survey where we sampled a bacterial metacommunity consisting of 17 rock pools located at the Swedish Baltic Sea coast at 11 occasions during 1 year. We determined to which extent communities were structured by different assembly mechanisms using variation partitioning and studied changes in beta-diversity across environmental gradients over time. beta-Diversity was highest at times of high overall productivity and environmental heterogeneity in the metacommunity, at least partly due to species sorting, that is, selection of taxa by the prevailing environmental conditions. In contrast, dispersal-driven assembly mechanisms were primarily detected at times when beta-diversity was relatively low. There were no indications for strong and persistent differences in community composition or beta-diversity between permanent and temporary pools, indicating that the physical disturbance regime is of relatively minor importance. In summary, our study clearly suggests that there are temporal differences in the relative importance of different assembly mechanisms related to abiotic factors and shows that the temporal variability of those factors is important for a more complete understanding of bacterial metacommunity dynamics.
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| 9. |
- Lindström, Eva S., et al.
(författare)
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The Importance of Dispersal for Bacterial Community Composition and Functioning
- 2011
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Ingår i: PLOS ONE. - : Public Library of Science (PLoS). - 1932-6203. ; 6:10, s. e25883-
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Tidskriftsartikel (refereegranskat)abstract
- We conducted a metacommunity experiment to investigate the role of dispersal for bacterial community composition (BCC) and function of freshwater bacteria. Bacteria were dispersed from a common source pool into three different lake communities in their natural lake water. The experiment was conducted in dialysis bags to enable a decoupling between a change in the local environment and dispersal. BCC was determined by terminal restriction fragment length polymorphism (tRFLP) of the 16S rRNA gene. We show that the greatest changes in BCC occurred between 10% and 43% of dispersal of standing stock per day. Functioning, measured as growth rate, was also affected by dispersal in all three communities but the qualitative pattern differed between communities, sometimes showing a hump-shaped relationship to dispersal and sometimes decreasing with increasing dispersal. In all waters, functioning was related to BCC. Our results show that dispersal does affect BCC and functioning but that high dispersal rates are needed. Further, the effect of dispersal on BCC and function seem to depend on the quality of the habitat to which bacteria disperse into.
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| 10. |
- Lundin, Daniel, et al.
(författare)
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Which sequencing depth is sufficient to describe patterns in bacterial alpha- and beta-diversity?
- 2012
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Ingår i: Environmental Microbiology Reports. - : Wiley. - 1758-2229 .- 1758-2229. ; 4:3, s. 367-372
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Tidskriftsartikel (refereegranskat)abstract
- The vastness of microbial diversity implies that an almost infinite number of individuals needs to be identified to accurately describe such communities. Practical and economical constraints may therefore prevent appropriate study designs. However, for many questions in ecology it is not essential to know the actual diversity but rather the trends among samples thereof. It is, hence, important to know to what depth microbial communities need to be sampled to accurately measure trends in diversity. We used three data sets of freshwater and sediment bacteria, where diversity was explored using 454 pyrosequencing. Each data set contained 615 communities from which 15 00020 000 16S rRNA gene sequences each were obtained. These data sets were subsampled repeatedly to 10 different depths down to 200 sequences per community. Diversity estimates varied with sequencing depth, yet, trends in diversity among samples were less sensitive. We found that 1000 denoised sequences per sample explained to 90% the trends in beta-diversity (Bray-Curtis index) among samples observed for 15 00020 000 sequences. Similarly, 5000 denoised sequences were sufficient to describe trends in a-diversity (Shannon index) with the same accuracy. Further, 5000 denoised sequences captured to more than 80% the trends in Chao1 richness and Pielou's evenness.
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