PEER REVIEWED PUBLICATIONS:
2023-2024:
207. Aarnio, S. & Soininen, J. 2024. Environmental and stochastic processes drive diatom taxonomic and functional temporal beta diversity. In revision.
206. Zhao, W., Soininen, J., Hu, A., Liu, J., Li, M., Wu, K. & Wang, J. 2024. The structure of bacteria-fungi bipartite networks along elevational gradients in contrasting climates. In revision.
205. Soininen, J. & Graco Roza, C. 2024. Homogeneous selection and stochasticity overrule heterogeneous selection across biotic taxa and ecosystems. In revision.
204. Xu, Y., Fan, X. & Soininen, J. 2024. Traits mediate environmental responses of benthic ciliates in dynamic coastal habitats. In revision.
203. Granqvist, S., Heikkinen, J.M., Laksela, P. & Soininen, J. 2024. The effect of habitat on benthic diatoms in subarctic ponds – differences between rock and sediment. Diatom Research, in press.
202. Castaneda Gomez, L., Wang, J., Perez-Burillo, J., Pajunen, V., Sillanpää, M. & Soininen, J. 2024. Strong and weak trait-environment associations in subarctic stream diatoms. Freshwater Biology, accepted.
201. He, S., Wang, B., Chen, K., Ning, L. & Soininen, J. 2024. Species-environment sorting explains latitudinal patterns in spatiotemporal β-diversity. In revision.
200. Zuo, J., Xiao, P., Heino, J., Tan, F., Soininen, J., Chen, H. & Yang, J. 2024. Eutrophication increases the similarity of cyanobacterial community features in lakes and reservoirs. Water Research 250: 120977.
199. Pérez-Burillo, J., Jamoneau, A., Passy, S.I., Tison-Rosebery, J., Blanco, S., Borrini, A., Boutry, S., Budnick, W.R., Cantonati, M., Clode Valente, A., Delgado, C., Dörflinger, G., Gonçalves, V., He, S., Jyrkänkallio-Mikkola, J., Kennedy, B., Marquié, J., Marques, H., Papatheodoulou, A., Pajunen, V., Raposeiro, P.M., Ritter, C., Serafim, A., Teittinen, A., Tupola, V., Van de Vijver, B., Wang, J., Wang, B. & Soininen, J. 2024. Stream diatom community assembly processes in islands and continents: A global perspective. Journal of Biogeography 51: 382-393.
198. Benito, X., Passy, S., Vilmi, A., Jamoneau, A., Tison-Rosebery, J., Kahlert, M., Larson, C.A., Mruzek, J.L., Soininen, J. & Bramburger, A. 2023. Deterministic and stochastic effects on diatom biodiversity and community composition. In revision.
197. Heikkinen, J.M., Niittynen, P., Soininen, J. & Pajunen, V. 2024. Patterns and drivers for benthic algal biomass in subarctic mountain ponds. Hydrobiologia 851: 689-708.
196. He, S., Qin, C. & Soininen, J. 2024. A flexible framework to assess patterns and drivers of beta diversity across spatial scales. Ecography e06901.
195. He, S., Wang, B., Gao, J., Chen, K. & Soininen, J. 2024. Spatiotemporal metacommunity structures and beta diversity of macroinvertebrates in stream and lake systems. Hydrobiologia, online.
194. Weigel, B., Graco-Roza, C., Hultman, J., Pajunen, V., Teittinen, A., Kuzmina, M., Zakharov, E., Soininen, J.* & Ovaskainen, O.* 2023. Local eukaryotic and bacterial stream community assembly is shaped by regional land use effects. ISME Communications 3: 65. *co-supervised.
193. Xu, Y., Chen, X., Graco-Roza, C. & Soininen, J. 2024. Scale dependency of community assembly differs between coastal marine bacteria and fungi. Ecography e06863.
192. Teittinen, A., Wang, J. & Soininen, J. 2023. Elevational microbial beta diversity and community assembly processes in subarctic ponds. Freshwater Biology 68: 1789-1798.
191. Jupke, JF, Birk, S, Apostolou, A, Aroviita, J, Baattrup-Pedersen, A, Baláži, P, Barešová, L, Blanco, S, Borrego, M, van Dam, H, Dimitriou, E, Feld, CK, Ferreira, MT, Gecheva, G, Gomà, J, Hanžek, N, Haslev, IM, Isheva, T, Jamoneau, A, Jyrkänkallio-Mikkola, J, Kahlert, M, Karaouzas, I, Karjalainen, SM, Olenici, A, Panek, P, Paril, P, Peeters, ETHM, Polášek, M, Pont, D, Pumputyte, A, Sandin, L, Sochuliaková, L, Soininen, J, Stanković, I, Straka, M, Šušnjara, M, Sutela, T, Tison-Rosebery, J, Udovič, MG, Verhofstad, M, Žutinić, P & Schäfer, RB. 2023. European river typologies fail to capture diatom, fish, and macrophyte community composition. Science of the Total Environment https://doi.org/10.1016/j.scitotenv.2023.165081
190. Rissanen, T., Aalto, A., Kainulainen, H., Kauppi, O., Niittynen, P., Soininen, J. & Luoto, M. 2023. Local snow and fluvial conditions drive taxonomic, functional, and phylogenetic plant diversity in tundra. Oikos: e09998.
189. Rissanen, T., Niittynen, P., Soininen, J., Virkkala, A.M. & Luoto, M. 2023. Plant trait-environment relationships are consistent in tundra across spatial scales. Ecography e06397.*Editor`s Choice article
188. Mod, H.K., Rissanen, T., Niittynen, P., Soininen, J. & Luoto, M. 2023. The relationships of plant species occupancy to niches and traits vary with spatial scale. Journal of Biogeography 50: 1013-1025. *Editor`s Choice article
187. Riva, F., Graco-Roza, C., Daskalova, G.N., Hudgins, E.J., Lewthwaite, J.M.M., Newman, E., Ryo, M. & Mammola, S. 2023. Towards a cohesive understanding of ecological complexity. Science Advances 9: eabq4207.
186. Huang, Z., Pan, B., Soininen, J., Liu, X., Hou, Y. & Liu, X. 2023. Seasonal variation of phytoplankton assembly processes in Tibetan plateau floodplain. Frontiers in Microbiology 14: 1122838.
185. Soininen, J. 2023. Are diatom community assembly processes scale invariant in streams? Freshwater Biology 68: 502-508.
184. Passy, S.I., Mruzek, J.L., Budnick, W.R., Leboucher, T., Jamoneau, A., Chase, J.M., Soininen, J., Sokol, E., Tison-Rosebery, J., Vilmi, A., Wang, J. & Larson, C.A. 2023. On the shape and origins of freshwater species-area relationship. Ecology 104: e3917.
182. Kröger, B., Selmeczy, G.B., Casper, P., Soininen, J. & Padisak, J. 2023. Long-term phytoplankton community dynamics in Lake Stechlin (NE Germany) under sudden and heavily accelerating eutrophication. Freshwater Biology 68: 737-751.
182. He, S., Wang, B., Chen, K. & Soininen, J. 2023. Patterns and drivers of aquatic metacommunities depend on environmental and trait heterogeneity. Freshwater Biology 68: 91-102.
2022:
181. Gavioli, A., Milardi, M., Soininen, J., Soana, E., Lanzoni, M. & Castaldelli, G. 2022. How does invasion degree shape alpha and beta diversity of freshwater fish at a regional scale. Ecology and Evolution 12: e9493.
180. Palacio, F.X., Callaghan, C., Cardoso, P., Hudgins, E.J, Jarzyna, M.A., Ottaviani G., Riva, F., Graco-Roza, C., Shirey, V. & Mammola, S. 2022. A protocol for reproducible functional diversity analyses. Ecography e06287. *Editor`s choice.
179. Liu, Z., Heino, J., Soininen, J., Zhou, T., Wang, W., Cui, Y., Chen, Y., Li, Z. & Zhang, J. 2022 Different responses of incidence-weighted and abundance-weighted multiple facets of macroinvertebrate beta diversity to urbanization in a subtropical river system. Ecological Indicators 143: 109357.
178. Jin, L., Xue, Y., Chen, H., Soininen, J. & Yang, J. 2022. The scale-dependence of spatial distribution of reservoir plankton communities in subtropical and tropical China. Science of the Total Environment 845: 157179.
177. Jamoneau*, A., Soininen*, J., Tison-Rosebery, J., Boutry, S., Budnick, W.R., He, S., Marquie, H., Jyrkänkallio-Mikkola, J., Pajunen, V., Teittinen, A., Tupola, V., Wang, B., Wang, J., Blanco, S., Borrini, A., Cantonati, M., Valente, A.C., Delgado, C., Dörflinger, G., Goncalves, V., Kennedy, B., Marques, H., Papatheodoulou, A., Raposeiro, P.M., Ritter, C., Serafim, A., Van de Vijver, B. & Passy, S.I. 2022. Diatom biodiversity in islands and continents – a global perspective on the effects of area, isolation and the environment. Journal of Biogeography 49: 2156-2168.
176. Moreira, Y.C., Cardoso, S.J., Siqueira-Castro, I.C., Greinert-Goulart, J.A., Franco, R.M., Graco-Roza, C. & Dias, R.J.P. 2022. Ciliate communities respond via their traits to a wastewater treatment plant with a combined UASB-activated sludge system. Frontiers in Environmental Science 10: 903984.
175. Drummond, E., Leite, V.B.G., Noyma, N.P., de Magalhães, L., Graco-Roza, C., Huszar, V.L.M., Lürling, M. & Marinho, M.M. 2022. Temporal and spatial variation in the efficiency of a Floc & Sink technique for controlling cyanobacterial blooms in a tropical reservoir. Harmful Algae 117: 102262.
174. Hu, A., Choi, M., Tanentzap, A.J., Liu, J., Jang, K-S., Lennon, J.T., Liu, Y., Soininen, J., Lu, X., Zhang, Y., Shen, J, & Wang, J. 2022. Ecological networks of dissolved organic matter and microorganisms under global change. Nature Communications 13: 3600.*Highly cited paper in Web of Science
173. Xu, Y., Chen, X., Zhang, J. & Soininen, J. 2022. Regional and local environment drive biogeographic patterns in intertidal microorganisms. Journal of Biogeography 49: 1576-1585.
172. Hu, A., Jang, K-S., Meng, F., Stegen, J., Tanentzap, A., Choi, M., Lennon, J.T., Soininen, J. & Wang, J. 2022. Microbial and environmental processes shape the link between organic matter functional traits and composition. Environmental Science & Technology 56: 10504-10516.
171. Mammola, S., Pavlek, M., Huber, B.A., Isaia, M., Ballarin, F., Tolve, M., Čupić, I., Hesselberg, T., Lunghi, E., Mouron, S., Graco-Roza, C. & Cardoso, P. 2022. A trait database and updated checklist for European subterranean spiders. Scientific Data 9: 236.
170. Virta, L. & Teittinen, A. 2022. Threshold effects of climate change on benthic diatom communities: Evaluating impacts of salinity and wind disturbance on functional traits and benthic biomass. Science of the Total Environment 826: 154130.
169. Wang, J., Hu, A., Meng, F., Zhao, W., Yang, Y., Soininen, J., Shen, J. & Zhou, J. 2022. Embracing mountain microbiome and ecosystem functions under global change. New Phytologist 234: 1987-2002.*Highly cited paper in Web of Science
168. Graco-Roza, C., Aarnio, S., Abrego, N., Acosta, A.T.R., Alahuhta, J., Altman, J., Angiolini, C., Aroviita, J., Attorre, F., Baastrup-Spohr, L., Barrera-Alba, J.J., Belmaker, J., Biurrun, I., Bonari, G., Bruelheide, H., Burrascano, S., Carboni, M., Castaldelli, G., Christensen, M., Correa, G., Dembicz, I., Dengler, J., Dolezal, J., Domingos, P., Erös, T., Ferreira, C.E.L., Filibeck, G., Floeter, S.R., Friedlander, A., Gammal, J., Gavioli, A., Gossner, M.M., Granot, I., Guarino, R., Gustafsson, C., Hayden, B., He, S., Heilmann-Clausen, J., Heino, J., Hunter, J.T., de Moraes Huszar, V.L., Janišová, M., Jyrkänkallio-Mikkola, J., Kahilainen, K., Kemppinen, J., Kozub, L., Kruk, C., Kulbiki, M., Kuzemko, A., Christian le Roux, P., Lehikoinen, A., Teixeira de Lima; D., Lopes-Urrutia, A., Lukács, B.A., Luoto, M., Manzi Marinho, M., da Silva Menezes, L., Milardi, M., Miranda, M., Aparecida Oliveira Moser, G., Mueller, J., Niittynen, P., Norkko, A., Nowak, A., Ometto, J., Ovaskainen, O., Overbeck, G.E., Siqueira Pacheco, F., Pajunen, V., Palpurina, S., Picazo, F., Campos Prieto, J.A., Rodil, I.F., Sabatini, F.M., Salingré, S., de Sanctis, M., Segura, M.M., Sampaio da Silva, L.H., Stevanovic, Z.D., Swacha, G., Teittinen, A., Tolonen, K.T., Tsiripidis, I., Virta, L., Wang, B., Wang, J., Weisser, W., Xu, Y. & Soininen, J. 2022. Distance decay 2.0 – a global synthesis of taxonomic and functional turnover in ecological communities. Global Ecology and Biogeography 31: 1399-1421.
167. Matavelli, R., Oliveira, J., Soininen, J., Ribeiro, M. & Bertoluci, J. 2022. Altitude and temperature drive anuran community assembly in a Neotropical mountain region. Biotropica 54: 607-618.
166. Milosevic, D., Medeiros, A.S., Stojkovic Piperac, M., Cvijanovic, D., Soininen, J., Milosavljevic, A. & Predic, B. 2022. The application of Uniform Manifold Approximation and Projection (UMAP) for unconstrained ordination and classification of biological indicators in aquatic ecology. Science of the Total Environment 815: 152365.
165. Maasri, A., Jähnig, S., Adamescu, M., Adrian, R., Baigun, C., Baird, D., Batista-Morales, A., Bonada, N., Brown, L., Cai, Q., Campos-Silva, J., Clausnitzer, V., Contreras-MacBeath, T., Cooke, S., Datry, T., Delacamara, G., De Meester, L., Dijkstra, Klaas-Douwe; D., Domisch, S., Dudgeon, D., Eros, T., Freitag, H., Freyhof, J., Friedrich, J., Friedrichs-Manthey, M., Geist, J., Gessner, M., Goethals, P., Gollock, M., Gordon, C., Grossart, H.P., Gulemvuga, G., Gutiérrez-Fonseca, P., Haase, P., Hering, D., Hahn, H. J., Hawkins, C., He, F., Heino, J., Hermoso, V., Hogan, Z., Hölker, F., Jeschke, J., Jiang, M., Johnson, R., Kalinkat, G., Karimov, B., Kasangaki, A., Kimirei, I., Kohlmann, B., Kummerlen, M., Kuiper, J., Kupilas, B., Langhans, S., Lansdown, R., Leese, F., Magbanua, F., Matsuzaki, S., Monaghan, M., Mumladze, L., Muzon, J., Mvogo Ndongo, P., Nejstgaard, J., Nikitina, O., Ochs, C., Odume, O. N., Opperman, J., Patricio, H., Pauls, S., Raghavan, R., Ramirez, A., Rashni, B., Ross-Gillespie, V., Samways, M., Schaefer, R., Schmidt-Kloiber, A., Seehausen, O., Shah, D. N., Sharma, S., Soininen, J., Sommerwerk, N., Stockwell, J., Suhling, F., Tachamo S., Tharme, R., Thorp, J., Tickner, D., Tockner, K., Tonkin, J., Valle, M., Vitule, J., Volk, M., Wang, D., Wolter, C. & Worischka, S. 2022. A global agenda for advancing freshwater biodiversity research. Ecology Letters 25: 255-263.*Hot paper in Web of Science
164. Scherer-Lorenzen, M., Gessner, M.O., Beisner, B.E., Messier, M., Paquette, A., Petermann, J.S., Soininen, J. Nock, C. 2022. Pathways for cross-boundary effects of biodiversity on ecosystem functioning. Trends in Ecology and Evolution 37: 454-467.
163. Teittinen, A., Soininen, J. & Virta, L. 2022. Studying biodiversity-ecosystem function relationships in experimental microcosms among islands. Ecology 103: e3664.
162. Heikkinen, J.M., Aalto, J., Rantamaki, O., Ruikkala, T., Soininen, J. & Pajunen, V. 2022. Observing diatom diversity and community composition along environmental gradients in subarctic mountain ponds. Freshwater Biology 67: 731-741.
161. Hu, J., Song, Z., Zhou, J., Soininen, J., Tan, L., Cai, Q. & Tang, T. 2022. Differences in diversity and community assembly processes between planktonic and benthic diatoms in the upper reach of the Jinsha River, China. Hydrobiologia 849: 1577-1591.
160. García‒Girón, J., Tolonen, K.T., Soininen, J., Snåre, H., Pajunen, V. & Heino, J. 2022. Anthropogenic land‒use impacts on the size structure of macroinvertebrate assemblages are jointly modulated by local conditions and spatial processes. Environmental Research 204: 112055.
159. Soininen, J., Tupola, V., Voutilainen, I., Cantonati, M. & Teittinen, A. 2022. Diatom biogeography in freshwaters – new insights from between-region comparisons and the role of unmeasured environmental factors. Diatom Research, in press.
2021:
158. Wang, J., Soininen, J. & Heino, J. 2021. Ecological indicators for aquatic biodiversity, ecosystem functions, human activities and climate change. Ecological Indicators 132: 108250.
157. Aarnio, S. & Soininen, J. 2021. Taxonomical and functional diversity covary in rock pool microalgal communities despite their different drivers. Ecology and Evolution 11: 11852-11873.
156. Graco-Roza, C., Segura, A.M., Kruk, C., Domingos, P., Soininen, J. & Marinho, M.M. 2021. Clumpy coexistence in phytoplankton: the role of functional similarity in community assembly. Oikos 130: 1583-1597.
155. Xu, Y, Soininen, J., Zhang, S. & Fan, X. 2021. Disentangling the relative roles of natural and anthropogenic-induced stressors in shaping benthic ciliate diversity in a heavily disturbed bay. Science of the Total Environment 801: 149683.
154. Teittinen, A. & Virta, L. 2021. Exploring multiple aspects of taxonomic and functional diversity in microphytobenthic communities: Effects of environmental gradients and temporal changes. Frontiers in Microbiology 12: 668993.
153. Kokocinski, M., Dziga, D., Antosiak, A. & Soininen, J. 2021. Are bacterio- and phytoplankton community compositions related in lakes differing in their morphology and physico-chemical properties? Genes 12: 855.
152. Rissanen, T., Niittynen, P., Soininen, J. & Luoto, M. 2021. Snow information is required in subcontinental scale predictions of mountain plant distributions. Global Ecology and Biogeography 30: 1502-1513.
151. Teittinen, A., Virta, L., Li, M. & Wang, J. 2021. Factors influencing biodiversity of three microbial groups within and among islands of the Baltic Sea. FEMS Microbiology Ecology 97: fiab097.
150. Elo, M., Jyrkänkallio-Mikkola, J., Ovaskainen, O., Soininen, J., Tolonen, K.T. & Heino, J. 2021. Does trait-based joint species distribution modelling reveal the signature of competition in stream macroinvertebrate communities? Journal of Animal Ecology 90: 1276-1287.
149. Zhao, W., Pan, F., Meng, F., Soininen, J., Tupola, V., Ren, M., Zhu, L. & Wang, J. 2021. Cross-taxon congruence of aquatic microbial communities across geological ages in Iceland: Stochastic and deterministic processes. Science of the Total Environment 774: 145103.
148. Vilmi, A., Gibert, C., Happonen, K., Heino, J., Jamoneau, A., Passy, S., Picazo, F., Rosebery, J., Soininen, J., Chih-Fu, Y., Escarguel, G. & Wang, J. 2021. Dispersal–Niche Continuum Index: a new quantitative metric for assessing the relative importance of dispersal vs niche processes in community assembly. Ecography 44: 370-379.
147. Petsch, D.K., Saito, V.S., Landeiro, V.L., Silva, T.S.F., Bini, L.M., Heino, J., Soininen, J., Tolonen, K.T., Jyrkänkallio-Mikkola, J., Pajunen, V., Siqueira, T. & Melo, A.S. 2021. Beta diversity of aquatic insects differs between boreal and subtropical streams, but land use does not generally cause biotic homogenization. Freshwater Science 40: 53-64.
146. Graco-Roza, C., Soininen, J., Corrêa, G., Pacheco, F.S., Miranda, M., Domingos, P. & Marinho, M.M. 2021. Functional rather than taxonomic diversity reveals changes in the phytoplankton community of a large dammed river. Ecological Indicators 121: 107048.
145. Virta, L., Soininen, J. & Norkko, A. 2021. Biodiversity loss threatens the current functional similarity of beta diversity in benthic diatom communities. Microbial Ecology 81: 293-303.
2020:
144. Virta, L., Soininen, J. & Norkko, A. 2020. Diversity and distribution across a large environmental and spatial gradient: evaluating the taxonomic and functional turnover, transitions and environmental drivers of benthic diatom communities. Global Ecology and Biogeography 29: 2214-2228.
143. Wu, K., Zhao, W., Li, M., Picazo, F., Soininen, J., Shen, J., Zhu, L., Cheng, X. & Wang, J. 2020. Taxonomic dependency of beta diversity components in benthic communities of bacteria, diatoms and chironomids along a water-depth gradient. Science of the Total Environment 741: 140462.
142. Picazo, F., Vilmi, A., Aalto, J., Soininen, J., Casamayor, E., Liu, Y., Wu, Q., Ren, L., Zhou, J., Shen, J. & Wang, J. 2020. Climate mediates continental scale patterns of stream microbial functional diversity. Microbiome 8: 92.
141. Leboucher, T., Tison-Rosebery, J., Budnick, W., Jamoneau, A., Vyverman, W., Soininen, J., Boutry, S. & Passy, S. 2020. A new metacommunity approach for detecting species influenced by mass effect. Journal of Applied Ecology 57: 2031-2040.
140. He, S., Soininen, J., Chen, K. & Wang, B. 2020. Environmental factors override dispersal-related factors in shaping diatom and macroinvertebrate communities within stream networks in China. Frontiers in Ecology and Evolution 8: 141.
139. He, S., Chen, K., Soininen, J., Heino, J., Ding, N. & Wang, B. 2020. Elements of metacommunity structure of diatoms and macroinvertebrates within stream networks differing in environmental heterogeneity. Journal of Biogeography 47: 1755-1764.
138. Cid, N., Bonada, N., Heino, J., Cañedo-Argüelles, M., Crabot, J., Sarremejane, R., Soininen, J., Stubbington, R. & Datry, T. 2020. A metacommunity approach to improve biological assessments in highly dynamic freshwater ecosystems. BioScience 70: 427-438. *Editor`s Choice article
137. Virta, L., Soininen, J. & Norkko, A. 2020. Stable seasonal and annual alpha diversity of benthic diatom communities despite changing community composition. Frontiers in Marine Science 7: 88.
136. Pajunen, V., Kahlert, M. & Soininen, J. 2020. Stream diatom assemblages as environmental indicators – a cross-regional assessment. Ecological Indicators 110: 106183.
135. He, S., Soininen, J., Deng, G. & Wang, B. 2020. Metacommunity structure of stream insects across three hierarchical spatial scales. Ecology and Evolution 10: 2874-2884.
134. Siqueira, T., Saito, V.S., Bini, L.M., Melo, A.S., Petsch, D.K., Landeiro, V.L., Tolonen, K.T., Jyrkänkallio-Mikkola, J., Soininen, J. & Heino, J. 2020. Community size can affect the signals of ecological drift and niche selection on biodiversity. Ecology 101: e03014.
133. Sgarbi, L.F., Bini, L.M., Heino, J., Jyrkänkallio-Mikkola, J., Landeiro, V.L., Pereira dos Santos, E., Schneck, F., Siqueira, T., Soininen, J., Tolonen, K.T. & Melo, A.S. 2020. Sampling effort and information quality provided by rare and common species in estimating assemblage structure. Ecological Indicators 110: 105937.
132. Milardi, M., Gavioli, A., Castaldelli, G. & Soininen, J. 2020. Partial decoupling between exotic fish and habitat constraints remains evident in late invasion stages. Aquatic Sciences 82: 14.
131. Graco-Roza, C., Santos, J.B., Huszar, V.L., Domingos, P., Soininen, J. & Marinho, M.M. 2020. Downstream transport processes modulate the effects of environmental heterogeneity on riverine phytoplankton. Science of the Total Environment 703: 135519.
130. Wang, J., Legendre, P., Soininen, J., Yeh, C-F., Graham, E., Stegen, J., Casamayor, E.O., Zhou, J., Shen, J. & Pan, F. 2020. Temperature drives local contributions to beta diversity in mountain streams: Stochastic and deterministic processes. Global Ecology and Biogeography 29: 420-432.
129. Vilmi, A., Zhao, W., Picazo, F., Li, M., Heino, J., Soininen, J. & Wang, J. 2020. Ecological processes underlying the assembly of aquatic bacterial and macroinvertebrate communities under contrasting climates in the Tibetan Plateau. Science of the Total Environment 702: 134974.
2019:
128. Milardi, M., Gavioli, A., Soininen, J. & Castaldelli, G. 2019. Exotic species invasions undermine regional functional diversity of freshwater fish. Scientific Reports 9: 17921.
127. Aarnio, S., Teittinen, A. & Soininen, J. 2019. High diatom species turnover in a Baltic Sea rock pool metacommunity. Marine Biodiversity 49: 2887-2899. *Highlight article in December issue
126. Kärnä, O.-M., Heino, J., Laamanen, T., Jyrkänkallio-Mikkola, J., Pajunen, V., Soininen, J., Tolonen, K.T., Tukiainen, H. & Hjort, J. 2019. Does catchment geodiversity foster stream biodiversity? Landscape Ecology 34: 2469-2485.
125. Xu, Y. & Soininen, J. 2019. Spatial patterns of functional diversity and composition in marine benthic ciliates along the coast of China. Marine Ecology Progress Series 627: 49-60.
124. Soininen, J. & Teittinen, A. 2019. Fifteen important questions in the spatial ecology of diatoms. Freshwater Biology 64: 2071-2083.
123. Virta, L., Gammal, J., Järnström, M., Bernard, G., Soininen, J., Norkko, J. & Norkko, A. 2019. The diversity of benthic diatoms affects ecosystem productivity in heterogeneous coastal environments. Ecology 100: e02765.
122. Pajunen, V., Jyrkänkallio-Mikkola, J., Luoto, M. & Soininen, J. 2019. Are drivers of microbial diatom distributions context dependent in human impacted and pristine environments? Ecological Applications 29: e01917.
121. Budnick, W.R., Leboucher, T., Beilard, J., Soininen, J., Lavoie, I., Pound, K., Jamoneau, A., Tison-Rosebery, J., Tales, E., Pajunen, V., Campeau, S. & Passy, S.I. 2019. Local and regional drivers of taxonomic homogenization in stream communities along a land use gradient. Global Ecology and Biogeography 28: 1597-1609.
120. Norberg, A., Abrego, N.F., Blanchet, G., Adler, F., Anderson, B.J., Anttila, J., Araújo, M.B., Clark, J., Dallas, T., Dunson, D., Elith J., Foster, S.D., Fox, R., Franklin, J., Godsoe, W., Guisan, A., O’Hara, B., Hill, N.A., Holt, R.D., Hui, F.K.C, Husby, M., Kålås, J., Lehikoinen, A., Luoto, M., Mod, H.K., Newell, G., Renner, I., Roslin, T., Soininen, J., Thuiller, W., Vanhatalo, J., Warton, D., White, M., Zimmermann, N.E., Gravel, D., & Ovaskainen, O. 2019. A comprehensive evaluation of predictive performance of 33 species distribution models at species and community levels. Ecological Monographs 89: e01370. *Highly cited paper in Web of Science
119. Kokocinski, M. & Soininen, J. 2019. New insights into the distribution of alien cyanobacterium Chrysosporum bergii (Nostocales, Cyanobacteria). Phycological Research 67: 208-214.
118. Gavioli, A., Milardi, M., Castaldelli, G., Fano, E.A. & Soininen, J. 2019. Diversity patterns of native and exotic fish species suggest homogenization processes, but partly fail to highlight extinction threat. Diversity & Distributions 25: 983-994.
117. Van Looy, K., Tonkin, J.D., Floury, M., Leigh, C., Soininen, J., Larsen, S., Heino, J., Poff, L. N., Delong, M., Jähnig, S.C., Datry, T., Bonada, N., Rosebery, J., Jamoneau, A., Ormerod, S.J., Collier, K.J. & Wolter, C. 2019. The three Rs of river ecosystem resilience: Resources, Recruitment and Refugia. River Research and Applications 35: 107-120.
116. Leboucher, T., Budnick, W., Passy, S.I., Boutry, S., Jamoneau, A., Soininen, J., Vyverman, W. & Tison-Rosebery, J. 2019. Diatom beta-diversity in streams increases with spatial scale and decreases with nutrient enrichment across regional to sub-continental scales. Journal of Biogeography 46: 734-744.
115. Soininen, J., Jamoneau, A., Rosebery, J., Leboucher, T., Wang, J., Kokocinski, M. & Passy, S.I. 2019. Stream diatoms exhibit weak niche conservation along global environmental and climatic gradients. Ecography 42: 346-353.
114. Yeh, C-F., Soininen, J., Teittinen, A. & Wang, J. 2019. Elevational patterns and hierarchical determinants of biodiversity across microbial taxonomic scales. Molecular Ecology 28: 86-99.
113. Alahuhta, J., Eros, T., Kärnä, O.M., Soininen, J., Wang, J. & Heino, J. 2019. Understanding environmental change through the lens of trait-based, functional and phylogenetic biodiversity in freshwater ecosystems. Environmental Reviews 27: 263-273.
2018:
112. Rocha, M.P., Bini, L.M., Domisch, S., Tolonen, K.T., Jyrkänkallio-Mikkola, J., Soininen, J., Hjort, J. & Heino, J. 2018. Local environment and space drive multiple facets of stream macroinvertebrate beta diversity. Journal of Biogeography 45: 2744-2754.
111. Jyrkänkallio-Mikkola, J., Siljander, M., Heikinheimo, V., Pellikka, P. & Soininen, J. 2018. Tropical stream diatom communities – the importance of headwater streams for regional diversity. Ecological Indicators 95: 183-193.
110. Teittinen, A., Weckström, J. & Soininen, J. 2018. Cell-size and acid tolerance constrain pond diatom distributions in the subarctic. Freshwater Biology 63: 1569-1578.
109. Passy, S.I., Larson, C.A., Jamoneau, A., Budnick, W., Heino, J., Leboucher, T., Rosebery, J. & Soininen, J. 2018. The biogeographical patterns of species richness and abundance distribution in stream diatoms are driven by climate and water chemistry. The American Naturalist 192: 605-617.
108. Heino, J., Melo, A.S., Jyrkänkallio-Mikkola, J., Petsch, D.K., Saito, V.S., Tolonen, K.T., Bini, L.M., Landeiro, V.L., Silva, T.S.F., Pajunen, V., Soininen, J. & Siqueira, T. 2018. Subtropical streams harbour higher genus richness and lower abundance of insects compared to boreal streams, but scale matters. Journal of Biogeography 45: 1983-1993. *Editor`s Choice article
107. Jamoneau, J., Passy, S.I., Soininen, J., Leboucher, T. & Tison-Rosebery, J. 2018. Beta diversity of diatom species and ecological guilds: response to environmental and spatial mechanisms along the stream watercourse. Freshwater Biology 63: 62-73. *Highly cited paper in Web of Science
106. Soininen, J., Heino, J. & Wang, J. 2018. A meta-analysis of nestedness and turnover components of beta diversity across organisms and ecosystems. Global Ecology and Biogeography 27: 96-109.*Highly cited paper in Web of Science
105. Stivrins, N., Soininen, J., Tonno, I., Freiberg, R., Veski, S. & Kisand, V. 2018. Towards understanding the abundance of non-pollen palynomorphs: A comparison of fossil algae, algal pigments and sedaDNA from temperate lake sediments. Review of Palaeobotany and Palynology 249: 9-15.
2017:
104. Virta, L. & Soininen, J. 2017. Distribution patterns of epilithic diatoms along climatic, spatial and physicochemical variables in the Baltic Sea. Helgoland Marine Research 71: 16.
103. Wang, J. & Soininen, J. 2017. Thermal barriers constrain microbial elevational range size via climate variability. Environmental Microbiology 19: 3283-3296.
102. Zorzal-Almeida, S., Soininen, J., Bini, L.M. & Bicudo, D.C. 2017. Local environment and connectivity as main drivers of diatom species composition and trait variation in a set of tropical reservoirs. Freshwater Biology 62: 1551-1563.
101. Heino, J., Alahuhta, J., Ala-Hulkko, T., Antikainen, H., Bini, L.M., Bonada, N., Datry, T., Erős, T., Hjort, J., Kotanen, O., Melo, A.S. & Soininen, J. 2017. Integrating dispersal proxies in ecological and environmental research in the freshwater realm. Environmental Reviews 25: 334-349
100. Pajunen, V., Luoto, M. & Soininen, J. 2017. Unravelling direct and indirect effects of hierarchical factors driving microbial stream communities. Journal of Biogeography 44: 2376-2385.
99. Teittinen, A., Wang, J., Strömgård, S. & Soininen, J. 2017. Local and geographical factors jointly drive elevational patterns in three microbial groups across subarctic ponds. Global Ecology and Biogeography 26: 973-982.
98. Kokocinski, M., Gagala, I., Jasser, I., Karosiene, J., Kasperoviciene, J., Kobos, J., Koreiviene, J., Soininen, J., Szczurowska, A., Woszczyk, M. & Mankiewicz-Boczek, J. 2017. Distribution of invasive Cylindrospermopsis raciborskii in the East-Central Europe is driven by climatic and local environmental variables. FEMS Microbiology Ecology 93: fix035.
97. Jyrkänkallio-Mikkola, J., Meier, S., Heino, J., Laamanen, T., Pajunen, V., Tolonen, K.T., Tolkkinen, M. & Soininen, J. 2017. Disentangling multi-scale environmental effects on stream microbial communities. Journal of Biogeography 44: 1512-1523.
96. Langenheder, S., Wang, J., Karjalainen, S.M., Laamanen, T., Tolonen, K., Vilmi, A. & Heino, J. 2017. Bacterial metacommunity organization in a highly-connected aquatic system. FEMS Microbiology Ecology 93: fiv225.
95. Heino, J., Soininen, J., Alahuhta, J., Lappalainen, J. & Virtanen, R. 2017. Metacommunity ecology meets biogeography: Effects of geographical region, spatial dynamics and environmental filtering on community structure in aquatic organisms. Oecologia 183: 121-137.
94. Passy, S.I., Bottin, M., Soininen, J. & Hillebrand, H. 2017. Environmental filtering and taxonomic relatedness underlie the species richness-evenness relationship. Hydrobiologia 787: 243-253.
93. Wang, J., Meier, S., Soininen, J., Casamayor, E., Pan, F., Tang, X., Yang, X., Zhang, Y., Wu, Q., Zhou, J. & Shen, J. 2017. Regional and global elevational patterns of microbial species richness and evenness. Ecography 40: 393-402.
2016:
92. Wang, J., Pan, F., Soininen, J., Heino, J. & Shen, J. 2016. Nutrient enrichment modifies temperature-biodiversity relationships in large-scale field experiments. Nature Communications 7: 13960. Press release
91. Stivrins, N., Soininen, J., Amon, L., Fontana, S., Gryguc, G., Heikkilä, M., Heiri, O., Kisieliene, D., Reitalu, T., Stancikaite, M., Veski, S. & Seppä, H. 2016. Biotic turnover rates during the Pleistocene-Holocene transition. Quaternary Science Reviews 151: 100-110.
90. Teittinen, A., Kallajoki, L., Meier, S., Stigzelius, T. & Soininen, J. 2016. The roles of elevation and local environmental factors as drivers of diatom diversity in subarctic streams. Freshwater Biology 61: 1509-1521.
89. Bottin, M., Soininen, J., Alard, D. & Rosebery, J. 2016. Diatom cooccurrence shows less segregation than predicted from niche modeling. PLoS ONE 11: e0154581.
88. Soininen, J., Jamoneau, A., Rosebery, J. & Passy, S.I. 2016. Global patterns and drivers of species and trait composition in diatoms. Global Ecology and Biogeography 25: 940-950.
87. Pajunen, V., Luoto, M. & Soininen, J. 2016. Stream diatom assemblages as predictors of climate. Freshwater Biology 61: 876-886.
86. Salonen, J.S., Verster, A.J., Engels, S., Soininen, J., Trachsel, M. & Luoto, M. 2016. Calibrating aquatic microfossil proxies with regression-tree ensembles: cross-validation with modern chironomid and diatom data. Holocene 26: 1040-1048.
85. Virtanen, L.K. & Soininen, J. 2016. Temporal variation in community-environment relationships and stream classifications in benthic diatoms – implications for bioassessment. Limnologica 88: 11-19.
84. Jyrkänkallio-Mikkola, J., Heino, J. & Soininen, J. 2016. Beta diversity of stream diatoms at two hierarchical spatial scales: implications for biomonitoring. Freshwater Biology 61: 239-250.
83. Pajunen, V., Luoto, M. & Soininen, J. 2016. Climate is an important driver for stream diatom distributions. Global Ecology and Biogeography 25: 198-206.
82. Soininen, J. 2016. Spatial structure in ecological communities – a quantitative analysis. Oikos 125: 160-166. *Editor`s Choice article
2015:
81. Saito, V.S., Soininen, J., Fonseca-Gessner, A.A. & Siqueira, T. 2015. Dispersal traits drive the phylogenetic distance decay of similarity in Neotropical stream metacommunities. Journal of Biogeography 42: 2101-2111. *Featured in Faculty of 1000
80. Teittinen, A. & Soininen, J. 2015. Testing the theory of island biogeography for microorganisms – patterns for spring diatoms. Aquatic Microbial Ecology 75: 239-250.
79. Teittinen, A., Taka, M., Ruth, O. & Soininen, J. 2015. Variation in stream diatom communities in relation to water quality and catchment variables in a boreal, urbanized region. Science of the Total Environment 530-531: 279-289.
78. Mlambo, M., Paavola, R., Louhi, P., Soininen, J., Virtanen, R. & Muotka, T. 2015. Bioenergy versus biodiversity: effects of intensive forest biomass removal on stream and riparian communities. Forestry 88: 368-375.
77. Heino, J., Nokela, T., Soininen, J., Tolkkinen, M., Virtanen, L. & Virtanen, R. 2015. Elements of metacommunity structure and community-environment relationships in stream organisms. Freshwater Biology 60: 973-988.
76. Heino, J., Melo, A.S., Siqueira, T., Soininen, J., Valanko, S. & Bini, L.M. 2015. Metacommunity organisation, spatial extent and dispersal in aquatic systems: patterns, processes and prospects. Freshwater Biology 60: 845-869.*Highly cited paper in Web of Science
75. Heino, J., Soininen, J. Alahuhta, J., Lappalainen, J. & Virtanen, R. 2015. A comparative analysis of metacommunity types in the freshwater realm. Ecology and Evolution 5: 1525-1537.
74. Soininen, J., Bartels, P., Heino, J., Luoto, M. & Hillebrand, H. 2015. Toward more integrated ecosystem research in aquatic and terrestrial environments. BioScience 65: 174-182.
73. Meier, S., Luoto, M. & Soininen, J. 2015. The effects of local, buffer zone and geographical variables on lake plankton metacommunities. Hydrobiologia 743: 175-188.
2014:
72. Soininen, J. 2014. A quantitative analysis of species sorting across organisms and ecosystems. Ecology 95: 3284-3292.
71. Soininen, J. & Luoto, M. 2014. Predictability in species distributions: a global analysis across organisms and ecosystems. Global Ecology and Biogeography 23: 1264-1274.
70. Soininen, J. & Meier, S. 2014. Phytoplankton richness is related to nutrient availability, not to pool size, in a subarctic rock pool system. Hydrobiologia 740: 137-145.
69. Meier, S. & Soininen, J. 2014. Phytoplankton metacommunity structure in subarctic rock pools. Aquatic Microbial Ecology 73: 81-91.
68. Suurkuukka, H., Virtanen, R., Suorsa, V. Soininen, J., Paasivirta, L. & Muotka, T. 2014. Woodland key habitats and stream biodiversity: does small-scale terrestrial conservation enhance the protection of stream biota? Biological Conservation 170: 10-19.
67. Bottin, M., Soininen, J., Ferreol, M. & Tison-Rosebery, J. 2014. Do spatial patterns of benthic diatom assemblages vary across regions and years? Freshwater Science 33: 402-416.
66. Cantonati, M., Angeli, N., Virtanen, L., Wojtal, A.Z., Gabrieli, J., Falasco, E., Lavoie, I., Morin, S., Marchetto, A., Fortin, C. & Smirnova, S. 2014. Achnanthidium minutissimum (Bacillariophyta) valve deformities as indicators of metal enrichment in diverse widely-distributed freshwater habitats. Science of the Total Environment 475: 201-215.
2013:
65. Wang, Y., Yang, Z., Zhou, S., Soininen, J., Ai, D., Li, Y. & Chu, C. 2013. The effect of positive interactions on temporal turnover of community composition along an environmental gradient. PLoS ONE 8: e78698.
64. Liu, J., Soininen, J., Han, B-P. & Declerck, S.A.J. 2013. Effects of connectivity, dispersal directionality and functional traits on the metacommunity structure of river benthic diatoms. Journal of Biogeography 40: 2238-2248.
63. Wang, J., Shen, J., Wu, Y., Tu, C., Soininen, J., Stegen, J.C., He, J., Liu, X., Zhang, L. & Zhang, E. 2013. Phylogenetic beta diversity in bacterial assemblages across ecosystems: deterministic and stochastic processes. ISME Journal 7: 1310-1321. *Highly cited paper in Web of Science
62. Soininen, J., Korhonen, J.J. & Luoto, M. 2013. Stochastic species distributions are driven by organism size. Ecology 94:660-670.
61. Wang, J., Soininen, J. & Shen, J. 2013. Habitat species pools for phylogenetic structure in microbes. Environmental Microbiology Reports 5: 464-467.
60. Kokocinski, M., Mankiewicz Boczek, J., Jurczak, T., Spoof, L., Meriluoto, J., Rajmonczyk, E., Hautala, H., Vehniäinen, M., Pawelczyk, J. & Soininen, J. 2013. Aphanizomenon gracile (Nostocales), a cylindrospermopsin-producing cyanobacterium in Polish lakes. Environmental Sciences and Pollution Research 20: 5243-5264.
59. Korhonen, J.J., Köngäs, P. & Soininen, J. 2013. Temporal variation of diatom assemblages in oligotrophic and eutrophic streams. European Journal of Phycology 48: 141-151.
2012:
58. Wetzel, C.E., Bicudo, D.C., Ector, L., Lobo, E.A., Soininen, J., Landeiro, V.L. & Bini, L.M. 2012. Distance decay of similarity in Neotropical diatom communities. PLoS ONE 7: e45071.
57. Soininen, J. & Köngäs, P. 2012. Analysis of nestedness in freshwater communities – patterns across species and trophic levels. Freshwater Science 31: 1145-1155.
56. Wang, J., Soininen, J., He, J. & Shen, Ji. 2012. Phylogenetic clustering increases with elevation for microbes. Environmental Microbiology Reports 4: 217-226.
55. Soininen, J., Passy, S.I. & Hillebrand, H. 2012. The relationship between species richness and evenness: a meta-analysis of studies across aquatic ecosystems. Oecologia 169: 803-809.
54. Virtanen, L.K. & Soininen, J. 2012. Roles of environment and space in shaping stream diatom communities. European Journal of Phycology 47: 160-168.
53. Kokocinski, M. & Soininen, J. 2012. Environmental factors related to the occurrence of Cylindrospermopsis raciborskii (Nostocales, Cyanophyta) in the northeastern extent of its geographical range. European Journal of Phycology 47: 12-21.
52. Soininen, J. 2012. Macroecology of unicellular organisms – patterns and processes. Environmental Microbiology Reports 4: 10-22.
51. Soininen, J. & Luoto, M. 2012. Is catchment productivity a useful predictor of taxa richness in lake plankton communities? Ecological Applications 22: 624-633.
50. Wang, J., Soininen, J., Zhang, Y., Wang, B,Yang, X,& Shen, J. 2012. Patterns of elevational beta diversity in micro- and macroorganisms. Global Ecology & Biogeography 21: 743-750.
49. Heino, J., Grönroos, M., Soininen, J., Virtanen, R. & Muotka, T. 2012. Context dependency and metacommunity structuring along boreal stream networks. Oikos 121: 537-544.
48. Astorga, A., Oksanen, J., Luoto, M., Soininen, J., Virtanen, R. & Muotka, T. 2012. Distance decay of similarity in freshwater communities: do macro- and microorganisms follow the same rules? Global Ecology & Biogeography 21: 365-375. *Featured in Faculty of 1000
2011:
47. Kokocinski, M., Stefaniak, K., Mankiewicz-Boczek, J., Izydorczyk, K., Jurczak, T. & Soininen, J. 2011. Temporal variation in microcystin production by Planktothrix agardhii in temperate lakes. International Journal of Limnology 47: 363-371.
46. Virtanen, L.K., Köngäs, P., Aitto-oja, S. & Soininen, J. 2011. Is temporal occurrence of diatoms related to species traits, local abundance and regional distribution? Journal of Phycology 47: 1445-1453.
45. Li, Q., Yang, X., Soininen, J., Chu, C-J., Zhang, J-Q., Yu, K-L. & Wang, G. 2011. Relative importance of spatial processes and environmental factors in shaping alpine meadow communities. Journal of Plant Ecology 4: 249-258.
44. Soininen, J., Korhonen, J.J., Karhu, J. & Vetterli, A. 2011. Disentangling the spatial patterns in community composition of prokaryotic and eukaryotic lake plankton. Limnology & Oceanography 56: 508-520.
43. Soininen, J., Heino, J., Lappalainen, J. & Virtanen, R. 2011. Expanding the ecological niche approach: relationships between variability in niche position and species richness. Ecological Complexity 8: 130-137.
42. Ovaskainen, O. & Soininen, J. 2011. Making more out of sparse data: hierarchical modeling of species communities. Ecology 92: 289-295.
41. Korhonen, J.J., Wang, J. & Soininen, J. 2011. Productivity-diversity relationships in lake plankton communities. PLoS ONE 6: e22041.
40. Wang, J. Soininen, J., Zhang, Y., Wang, B., Yang, X. & Shen, J. 2011. Contrasting patterns in elevational diversity between microorganisms and macroorganisms. Journal of Biogeography 38: 595-603.
2010:
39. Heino, J. & Soininen, J. 2010. Are common species sufficient in describing turnover in aquatic metacommunities along environmental and spatial gradients? Limnology & Oceanography 55: 2397-2402.
38. Kokocinski, M., Stefaniak, K., Mankiewicz-Boczek, J., Izydorczyk, K. & Soininen, J. 2010. The ecology of invasive cyanobacterium Cylindrospermopsis raciborskii in two shallow hypereutrophic lakes dominated by Planktothrix agardhii. European Journal of Phycology 45: 365-374.
37. Soininen, J. 2010. Species turnover along abiotic and biotic gradients – patterns in space equal patterns in time? BioScience 60: 433-439.
36. Hillebrand, H., Soininen, J. &Snoeijs, P. 2010. Warming leads to higher species turnover in a coastal ecosystem. Global Change Biology 16: 1181-1193.
35. Korhonen, J.J., Soininen, J. & Hillebrand, H. 2010. A quantitative analysis of temporal turnover in aquatic species assemblages across ecosystems. Ecology 91: 508-517.
34. Heino, J., Bini, L.M., Karjalainen, S.M., Mykrä, H., Soininen, J. Vieira, L.C.G. & Diniz-Filho, J.A.F. 2010. Geographical patterns of micro-organismal community structure: are diatoms ubiquitously distributed across boreal streams? Oikos 119: 129-137.
2009:
33. Soininen, J., Heino, J., Kokocinski, M. & Muotka, T. 2009. Local-regional diversity relationship varies with spatial scale in lotic diatoms. Journal of Biogeography 36: 720-727.
32. Soininen, J., Paavola, R., Kwandrans, J. & Muotka, T. 2009. Diatoms – unicellular surrogates for algal community structure in streams? Biodiversity and Conservation 18: 79-89.
31. Soininen, J. & Weckström, J. 2009. Diatom community structure along environmental and spatial gradients in lakes and streams. Fundamental and Applied Limnology 174: 205-213.
30. Soininen, J. 2009. Is diatom diversity driven by productivity in boreal streams? Diatom Research 24: 197-207.
29. Heino, J., Ilmonen, J., Kotanen, J., Mykrä, H., Paasivirta, L., Soininen, J. & Virtanen, R. 2009. Surveying biodiversity in protected and managed areas: algae, macrophytes and macroinvertebrates in boreal forest streams. Ecological Indicators 9: 1179-1187.
2008:
28. Wang, J., Jiang, H., Wu, Y., Li, C., Dong, H., Wu, Q., Soininen, J. & Shen, J. 2008. High beta diversity of bacteria in the shallow terrestrial subsurface. Environmental Microbiology 10: 2537-2549.
27. Soininen, J. 2008. The ecological characteristics of idiosyncratic and nested diatoms. Protist 159: 65-72.
26. Kokocinski, M. & Soininen, J. 2008. Temporal variation in phytoplankton in two lakes with contrasting disturbance regime. Fundamental and Applied Limnology 171: 39-48.
2007:
25. Soininen, J., McDonald, R. & Hillebrand, H. 2007. The distance decay of similarity in ecological communities. Ecography 30: 3-12. *Featured in Faculty of 1000 ** Highly cited paper in Web of Science
24. Soininen, J. & Hillebrand, H. 2007. Disentangling distance decay of similarity from richness gradients – response to Baselga (2007). Ecography 30: 842-844.
23. Soininen, J., Lennon, J.J. & Hillebrand, H. 2007. A multivariate analysis of beta diversity across organisms and environments. Ecology 88: 2830-2838.
22. Soininen, J. & Heino, J. 2007. Variation in niche parameters along a diversity gradient of unicellular eukaryote assemblages. Protist 158: 181-191.
21. Heino, J. & Soininen, J. 2007. Are higher taxa adequate surrogates for species-level assemblage patterns and species richness in stream organisms? Biological Conservation 137: 78-89.
20. Soininen, J. 2007. Environmental and spatial control of freshwater diatoms – a review. Diatom Research 22: 473-490.
19. Soininen, J., Kokocinski, M., Estlander, S., Kotanen, J. & Heino, J. 2007. Neutrality, niches and determinants of plankton metacommunity structure across boreal wetland ponds. Ecoscience 14: 146-154.
18. Raunio, J. & Soininen, J. 2007. Practical and sensitive approach on large river periphyton monitoring: comparative performance of methods and taxonomic levels. Boreal Environment Research 12: 55-63.
2002-2006:
17. Lappalainen, J. & Soininen, J. 2006. Latitudinal gradients in niche breadth and position – regional patterns in freshwater fish. Naturwissenschaften 93: 246-250.
16. Heino, J. & Soininen, J. 2006. Regional occupancy in unicellular eukaryotes: a reflection of niche breadth, habitat availability, or size-related dispersal capacity? Freshwater Biology 51: 672-685.
15. Soininen, J. 2006. Local and regional coexistence of diatoms – on the mechanisms promoting high local diatom species richness. Diatom Research 21: 217-223.
14. Soininen, J. & Kokocinski, M. 2006. Regional diatom body size distributions in streams – does size vary along environmental, spatial and diversity gradients? Ecoscience 13: 271-274.
13. Soininen, J. & Heino, J. 2005. Relationships between local population persistence, local abundance and regional occupancy of species: distribution patterns of diatoms in boreal streams. Journal of Biogeography 32: 1971-1978.
12. Heino, J & Soininen, J. 2005. Assembly rules and community models for unicellular organisms: patterns in stream diatoms. Freshwater Biology 50: 567-577.
11. Heino, J., Soininen, J., Lappalainen, J. & Virtanen, R. 2005. The relationship between species richness and taxonomic distinctness in freshwater organisms. Limnology and Oceanography 50: 978-986.
10. Soininen, J., Tallberg, P. & Horppila, J. 2005. Phytoplankton community assembly in a large boreal lake – deterministic pathways or chaotic fluctuations? Freshwater Biology 50: 2076-2086.
9. Soininen, J. & Könönen, K. 2004. Comparative study of monitoring South-Finnish rivers and streams using diatom and macroinvertebrate community structure. Aquatic Ecology 38: 63-75.
8. Soininen, J. & Eloranta, P. 2004. Seasonal persistence and stability of diatom communities in rivers: are there habitat specific differences? European Journal of Phycology 39: 153-160.
7. Soininen, J., Paavola, R. & Muotka, T. 2004. Benthic diatom communities in boreal streams: community structure in relation to environmental and spatial gradients. Ecography 27: 330-342.
6. Soininen, J. 2004. Determinants of benthic diatom community structure in boreal streams: the role of environmental and spatial factors at different scales. International Review of Hydrobiology 89: 139-150.
5. Soininen, J. 2004. Assessing the current related heterogeneity and diversity patterns of benthic diatom communities in a turbid and a clear water stream. Aquatic Ecology 38: 495-501.
4. Soininen, J. 2003. Heterogeneity of benthic diatom communities in different spatial scales and current velocities in a turbid river. Archiv für Hydrobiologie 156: 551-564.
3. Soininen, J. 2002. Responses of epilithic diatom communities to environmental gradients in some Finnish rivers. International Review of Hydrobiology 87: 11-24.
2. Eloranta, P. & Soininen, J. 2002. Ecological status of some Finnish rivers evaluated using benthic diatom communities. Journal of Applied Phycology 14: 1-7.
1. Soininen, J. & Niemelä, P. 2002. Inferring the phosphorus levels of rivers from benthic diatoms using weighted averaging. Archiv für Hydrobiologie 154:1-18.