Modelling how bottom-up and top-down processes control the major functional groups of biota in a large temperate shallow lake

References

• Agasild H, Nõges T. 2005. Cladoceran and rotifer grazing on bacteria and phytoplankton in two shallow eutrophic lakes: in situ measurement with fluorescent microspheres. J Plankton Res. 27(11):1155–1174.
   Web of Science ®Google Scholar
• Agasild H, Zingel P, Tõnno I, Haberman J, Nõges T. 2007. Contribution of different zooplankton groups in grazing on phytoplankton in shallow eutrophic Lake Võrtsjärv (Estonia). Hydrobiologia. 584(1):167–177.
   Google Scholar
• Ahrens RNM, Walters CJ, Christensen V. 2012. Foraging arena theory. Fish Fish. 13(1):41–59.
   Web of Science ®Google Scholar
• Azzali I, Morozov A, Venturino E. 2017. Exploring the role of vertical heterogeneity in the stabilization of planktonic ecosystems under eutrophication. J Biol Syst. 25(04):715–741.
   Google Scholar
• Barbiero RP, Balcer M, Rockwell DC, Tuchman ML. 2009. Recent shifts in the crustacean zooplankton community of Lake Huron. Can J Fish Aquat Sci. 66(5):816–828.
   Web of Science ®Google Scholar
• Benndorf JÜ, Böing W, Koop J, Neubauer I. 2002. Top-down control of phytoplankton: the role of time scale, lake depth and trophic state. Freshwater Biol. 47(12):2282–2295.
   Web of Science ®Google Scholar
• Bernotas P, Vetemaa M, Saks L, Eschbaum R, Verliin A, Järvalt A. 2015. Dynamics of European eel landings and stocks in the coastal waters of Estonia. ICES J Mar Sci. 73(1):fsv245.
   Web of Science ®Google Scholar
• Bhele U, Öğlü B, Tuvikene A, Bernotas P, Silm M, Järvalt A, Agasild H, Zingel P, Seller S, Timm H, et al. 2020. How long-term water level changes influence the spatial distribution of fish and other functional groups in a large shallow lake. J Great Lakes Res; [accessed 2020 Mar 3]. https://www.sciencedirect.com/science/article/pii/S0380133020300472?via%3Dihub
   Web of Science ®Google Scholar
• Brey T. 2001. Population dynamics in benthic invertebrates. A virtual handbook. http://www.thomas-brey.de/science/virtualhandbook/index.html
   Google Scholar
• Carpenter SR, Cole JJ, Hodgson JR, Kitchell JE, Pace ML, Bade D, Cottinngham KL, Essington TE, Houser JN, Schindler DE. 2001. Trophic cascades, nutrients, and lake productivity: whole-lake experiments. Ecol Monogr. 71(2):163–186.
   Web of Science ®Google Scholar
• Chagaris DD, Mahmoudi B, Walters CJ, Allen MS. 2015. Simulating the trophic impacts of fishery policy options on the West Florida Shelf using Ecopath with Ecosim. Mar Coast Fish. 7(1):44–58.
   Web of Science ®Google Scholar
• Christensen V, Pauly D, editors. 1993. Trophic models of aquatic ecosystems (No. 26). WorldFish.
   Google Scholar
• Christensen V, Walters CJ. 2004. Ecopath with Ecosim: methods, capabilities and limitations. Ecol Modell. 172(2–4):109–139.
   Web of Science ®Google Scholar
• Coll M, Navarro J, Palomera I. 2013. Ecological role, fishing impact, and management options for the recovery of a Mediterranean endemic skate by means of food web models. Biol Conserv. 157:108–120.
   Web of Science ®Google Scholar
• Cremona F, Järvalt A, Bhele U, Timm H, Seller S, Haberman J, Zingel P, Agasild H, Nõges P, Nõges T. 2018. Relationships between fisheries, foodweb structure, and detrital pathway in a large shallow lake. Hydrobiologia. 820(1):145–163.
   Web of Science ®Google Scholar
• Cremona F, Kõiv T, Kisand V, Laas A, Zingel P, Agasild H, Feldmann T, Järvalt A, Nõges P, Nõges T. 2014a. From bacteria to piscivorous fish: estimates of whole-lake and component-specific metabolism with an ecosystem approach. PLoS One. 9(7):e101845.
   Web of Science ®Google Scholar
• Cremona F, Timm H, Agasild H, Tõnno I, Feldmann T, Jones RI, Nõges T. 2014b. Benthic foodweb structure in a large shallow lake studied by stable isotope analysis. Freshw Sci. 33(3):885–894.
   Web of Science ®Google Scholar
• Dimarchopoulou D, Tsagarakis K, Keramidas I, Tsikliras AC. 2019. Ecosystem models and effort simulations of an untrawled gulf in the central Aegean Sea. Front Mar Sci. 6:648.
   Web of Science ®Google Scholar
• Emmerson MC, Raffaelli D. 2004. Predator–prey body size, interaction strength and the stability of a real food web. J Anim Ecol. 73(3):399–409.
   Web of Science ®Google Scholar
• Feldmann T, Nõges P. 2007. Factors controlling macrophyte distribution in large shallow Lake Võrtsjärv. Aquat Bot. 87(1):15–21.
   Web of Science ®Google Scholar
• Frau D, Battauz Y, Alvarenga PF, Scarabotti PA, Mayora G, Sinistro R. 2019. Assessing the relevance of top-down and bottom-up effects as phytoplankton structure drivers in a subtropical hypereutrophic shallow lake. Aquat Ecol. 53(2):265–280.
   Web of Science ®Google Scholar
• Frederiksen M, Edwards M, Richardson AJ, Halliday NC, Wanless S. 2006. From plankton to top predators: bottom-up control of a marine food web across four trophic levels. J Anim Ecol. 75(6):1259–1268.
   Web of Science ®Google Scholar
• Ginter K, Blank K, Haberman J, Kangur A, Kangur K. 2018. Fish predation pressure on zooplankton in a large northern temperate lake: impact of adult predators versus juvenile predators. P Est Acad Sci. 65(4):356–367.
   Google Scholar
• Ginter K, Kangur K, Kangur A, Kangur P, Haldna M. 2011. Diet patterns and ontogenetic diet shift of pikeperch, Sander lucioperca (L.) fry in lakes Peipsi and Võrtsjärv (Estonia). Hydrobiologia. 660(1):79–91.
   Web of Science ®Google Scholar
• Ginter K, Kangur A, Kangur P, Kangur K. 2015. Consequences of size-selective harvesting and changing climate on the pikeperch Sander lucioperca in two large shallow north temperate lakes. Fish Res. 165:63–70.
   Web of Science ®Google Scholar
• Haberman J, Pihu E, Raukas A. 2004. Lake Vrtsjarv. Tallinn (Estonia): Estonian Encyclopedia Publishers.
   Google Scholar
• Havens KE, Elia AC, Taticchi MI, Fulton RS. 2009. Zooplankton–phytoplankton relationships in shallow subtropical versus temperate lakes Apopka (Florida, USA) and Trasimeno (Umbria, Italy). Hydrobiologia. 628(1):165–175.
   Web of Science ®Google Scholar
• Hessen DO, Kaartvedt S. 2014. Top–down cascades in lakes and oceans: Different perspectives but same story? J Plankton Res. 36(4):914–924.
   Web of Science ®Google Scholar
• Heymans JJ, Coll M, Link JS, Mackinson S, Steenbeek J, Walters C, Christensen V. 2016. Best practice in Ecopath with Ecosim food-web models for ecosystem-based management. Ecol Modell. 331:173–184.
   Web of Science ®Google Scholar
• Huisman JM, Matthijs HCP, Visser PM, editors. 2005. Harmful Cyanobacteria. Aquatic Ecology Series 3. Springer.
   Google Scholar
• Hyndman RJ, Athanasopoulos G, Bergmeir C, Caceres G, Chhay L, O’Hara-Wild M, Petropoulos F, Razbash S, Wang E. 2019. Package ‘forecast.’ https://cran.r-project.org/web/packages/forecast/forecast.pdf
   Google Scholar
• Järvalt A, Laas A, Nõges P, Pihu E. 2004. The influence of water level fluctuations and associated hypoxia on the fishery of Lake Võrtsjärv, Estonia. Int J Ecohydrol Hydrobiol. 4(4):487–497.
   Google Scholar
• Jeppesen E, Jensen JP, Søndergaard M, Lauridsen T, Pedersen LJ, Jensen L. 1997. Top-down control in freshwater lakes: the role of nutrient state, submerged macrophytes and water depth. In: Kufel L, Prejs A, Rybak JI, editors. Shallow lakes’ 95. New York (NY): Springer; p. 151–164.
   Google Scholar
• Jeppesen E, Meerhoff M, Jacobsen BA, Hansen RS, Søndergaard M, Jensen JP, Lauridsen TL, Mazzeo N, Branco CWC. 2007. Restoration of shallow lakes by nutrient control and biomanipulation—the successful strategy varies with lake size and climate. Hydrobiologia. 581(1):269–285.
   Google Scholar
• Jeppesen E, Nõges P, Davidson TA, Haberman J, Nõges T, Blank K, Lauridsen TL, Søndergaard M, Sayer C, Laugaste R, et al. 2011. Zooplankton as indicators in lakes: a scientific-based plea for including zooplankton in the ecological quality assessment of lakes according to the European Water Framework Directive (WFD). Hydrobiologia. 676(1):279–297.
   Web of Science ®Google Scholar
• Kangur K, Timm H, Timm T, Timm V. 1998. Long-term changes in the macrozoobenthos of Lake Võrtsjärv. Limnologica. 28(1):75–83.
   Google Scholar
• Kavanagh P, Newlands N, Christensen V, Pauly D. 2004. Automated parameter optimization for Ecopath ecosystem models. Ecol Modell. 172(2–4):141–149.
   Web of Science ®Google Scholar
• Kimmel DG, Roman MR, Zhang X. 2006. Spatial and temporal variability in factors affecting mesozooplankton dynamics in Chesapeake Bay: evidence from biomass size spectra. Limnol Oceanogr. 51(1):131–141.
   Web of Science ®Google Scholar
• Li Y, Meng J, Zhang C, Ji S, Kong Q, Wang R, Liu J. 2020. Bottom-up and top-down effects on phytoplankton communities in two freshwater lakes. PLoS One. 15(4):e0231357.
   Web of Science ®Google Scholar
• Libralato S, Christensen V, Pauly D. 2006. A method for identifying keystone species in food web models. Ecol Modell. 195(3–4):153–171.
   Web of Science ®Google Scholar
• Mao Z, Gu X, Cao Y, Zhang M, Zeng Q, Chen H, Shen R, Jeppesen E. 2020. The role of top-down and bottom-up control for phytoplankton in a subtropical shallow eutrophic lake: evidence based on long-term monitoring and modeling. Ecosystems. 23(7):1449–1463.
   Web of Science ®Google Scholar
• McQueen DJ, Johannes MRS, Post JR, Stewart TJ, Lean DRS. 1989. Bottom-up and top-down impacts on freshwater pelagic community structure. Ecol Monogr. 59(3):289–309.
   Web of Science ®Google Scholar
• Mensah ETD, Dankwa HR, Lauridsen TL, Trolle D, Asmah R, Campion BB, Edziyie R, Christensen V. 2019. Mass balance model of Lake Volta fisheries: the use of Ecopath model. Lakes Reserv Res Manag. 24(3):246–254.
   Google Scholar
• Merel S, Walker D, Chicana R, Snyder S, Baurès E, Thomas O. 2013. State of knowledge and concerns on cyanobacterial blooms and cyanotoxins. Environ Int. 59:303–327.
   PubMed Web of Science ®Google Scholar
• Montagnes DJS, Lynn DH, Roff JC, Taylor WD. 1988. The annual cycle of heterotrophic planktonic ciliates in the waters surrounding the Isles of Shoals, Gulf of Maine: an assessment of their trophic role. Mar Biol. 99(1):21–30.
   Web of Science ®Google Scholar
• Morissette L, Hammill MO, Savenkoff C. 2006. The trophic role of marine mammals in the northern Gulf of St. Lawrence. Mar Mammal Sci. 22(1):74–103.
   Web of Science ®Google Scholar
• Nõges T, Arst H, Laas A, Kauer T, Noges P, Toming K. 2011. Reconstructed long-term time series of phytoplankton primary production of a large shallow temperate lake: the basis to assess the carbon balance and its climate sensitivity. Hydrobiologia. 667(1):205–222.
   Web of Science ®Google Scholar
• Nõges T, Järvalt A, Haberman J, Zingel P, Nõges P. 2016. Is fish able to regulate filamentous blue-green dominated phytoplankton? Hydrobiologia. 780(1):59–69.
   Web of Science ®Google Scholar
• Nõges T, Luup H, Feldmann T. 2010. Primary production of aquatic macrophytes and their epiphytes in two shallow lakes (Peipsi and Võrtsjärv) in Estonia. Aquat Ecol. 44(1):83–92.
   Web of Science ®Google Scholar
• Nõges T, Nõges P, Laugaste R. 2003. Water level as the mediator between climate change and phytoplankton composition in a large shallow temperate lake. Hydrobiologia. 506–509(1–3):257–263.
   Web of Science ®Google Scholar
• Ofir E, Heymans JJ, Shapiro J, Goren M, Spanier E, Gal G. 2017. Predicting the impact of lake biomanipulation based on food-web modeling—Lake Kinneret as a case study. Ecol Modell. 348:14–24.
   Web of Science ®Google Scholar
• Ojaveer E, Pihu E, Saat T. 2003. Fishes of Estonia. Tallinn (Estonia): Estonian Academy Publishers.
   Google Scholar
• Palomares MLD, Pauly D. 1998. Predicting food consumption of fish populations as functions of mortality, food type, morphometrics, temperature and salinity. Mar Freshwater Res. 49(5):447–453.
   Web of Science ®Google Scholar
• Pauly D. 1980. On the interrelationships between natural mortality, growth parameters, and mean environmental temperature in 175 fish stocks. ICES J Mar Sci. 39(2):175–192.
   Google Scholar
• R Core Team. 2019. R: a language and environment for statistical computing. Vienna (Austria).
   Google Scholar
• Rice JC. 2000. Evaluating fishery impacts using metrics of community structure. ICES J Mar Sci. 57(3):682–688.
   Web of Science ®Google Scholar
• Schulze T, Baade U, Dörner H, Eckmann R, Haertel-Borer SS, Hölker F, Mehner T. 2006. Response of the residential piscivorous fish community to introduction of a new predator type in a mesotrophic lake. Can J Fish Aquat Sci. 63(10):2202–2212.
   Web of Science ®Google Scholar
• Shannon LJ, Cury PM. 2004. Indicators quantifying small pelagic fish interactions: application using a trophic model of the southern Benguela ecosystem. Ecol Indic. 3(4):305–321.
   Web of Science ®Google Scholar
• Shurin JB, Borer ET, Seabloom EW, Anderson K, Blanchette CA, Broitman B, Cooper SD, Halpern BS. 2002. A cross-ecosystem comparison of the strength of trophic cascades. Ecol Lett. 5(6):785–791.
   Web of Science ®Google Scholar
• Shurin JB, Clasen JL, Greig HS, Kratina P, Thompson PL. 2012. Warming shifts top-down and bottom-up control of pond food web structure and function. Philos T R Soc B. 367(1605):3008–3017.
   PubMed Web of Science ®Google Scholar
• Søndergaard M, Jeppesen E, Berg S. 1997. Pike (Esox lucius L.) stocking as a biomanipulation tool. 2. Effects on lower trophic levels in Lake Lyng, Denmark. Hydrobiologia. 342/343:319–325.
   Web of Science ®Google Scholar
• Søndergaard M, Liboriussen L, Pedersen AR, Jeppesen E. 2008. Lake restoration by fish removal: short-and long-term effects in 36 Danish lakes. Ecosystems. 11(8):1291–1305.
   Web of Science ®Google Scholar
• Tamm M, Freiberg R, Tõnno I, Nõges P, Nõges T. 2015. Pigment-based chemotaxonomy—a quick alternative to determine algal assemblages in large shallow eutrophic lake? PLoS One. 10(3):e0122526.
   Web of Science ®Google Scholar
• Tõnno I, Agasild H, Kõiv T, Freiberg R, Nõges P, Nõges T. 2016. Algal diet of small-bodied crustacean zooplankton in a cyanobacteria-dominated eutrophic lake. PLoS One. 11(4):e0154526.
   Web of Science ®Google Scholar
• Vanderploeg HA, Ludsin SA, Ruberg SA, Höök TO, Pothoven SA, Brandt SB, Lang GA, Liebig JR, Cavaletto JF. 2009. Hypoxia affects spatial distributions and overlap of pelagic fish, zooplankton, and phytoplankton in Lake Erie. J Exp Mar Bio Ecol. 381:S92–S107.
   Web of Science ®Google Scholar
• Williams AE, Moss B, Eaton J. 2002. Fish induced macrophyte loss in shallow lakes: top-down and bottom-up processes in mesocosm experiments. Freshwater Biol. 47(11):2216–2232.
   Web of Science ®Google Scholar
• Wu Z, Zhang X, Lozano-Montes HM, Loneragan NR. 2016. Trophic flows, kelp culture and fisheries in the marine ecosystem of an artificial reef zone in the Yellow Sea. Estuar Coast Shelf Sci. 182:86–97.
   Web of Science ®Google Scholar
• Wysujack K, Kasprzak P, Laude U, Mehner T. 2002. Management of a pikeperch stock in a long-term biomanipulated stratified lake: efficient predation vs. low recruitment. Hydrobiologia. 479:169–180.
   Google Scholar
• Zapletal T, Mareš J, Jurajda P, Všetičková L. 2013. The food of common bream (Abramis brama L.) in a biomanipulated water supply reservoir. Acta Univ Agric et Silvic. 60(6):357–366.
   Google Scholar
• Zingel P, Agasild H, Nõges T, Kisand V. 2007. Ciliates are the dominant grazers on pico- and nanoplankton in a shallow, naturally highly eutrophic lake. Microb Ecol. 53(1):134–142.
   Web of Science ®Google Scholar
• Zingel P, Haberman J. 2007. A comparison of zooplankton densities and biomass in Lakes Peipsi and Võrtsjärv (Estonia): rotifers and crustaceans versus ciliates. In: Nõges T, Eckmann R, Kangur K, Nõges P, Reinart A, et al., editors. European large lakes ecosystem changes and their ecological and socioeconomic impacts. Springer; p. 153–159.
   Google Scholar