Articles in journals


Keskiniva, V., Tuomisto, H. 2024. Danaea (Marattiaceae) keeps diversifying, part 1: eighteen new species. Willdenowia, 53: 173-228.

Keskiniva, V., Tuomisto, H., Lehtonen, S. 2024. Danaea (Marattiaceae) keeps diversifying, part 2: phylogeny and identification key for 81 taxa. Willdenowia, 53: 229-255.


Andre, T., Moulatlet, G.M., Almeida, T.E., Alverga, P.P.D., Boelter, C.R., Drucker, D.P., da Silva, J.G., Linares-palomino, R., Lopes, M.A., Magalhaes, J.L.L., Manzatto, A.G., Mews, H.A., Moll, I.E.D., Mortati, A.F., da Paixao, E.C., Quintero-Vallejo, E., van Andel, T., Silveira, M., Storck-Tonon, D., Tuomisto, H., Zuquim,.G., Costa, F.R.C. 2023. HERBase: A collection of understorey herb vegetation plots from Amazonia. Acta Amazonica, 53: 114-121.

Cárdenas, G.G., Lehtonen, S. 2023. The third opinion on fern phylogenetics with novel insights into their mitogenome evolution. Phytotaxa 625: 227–247.

Lehtonen, S., Cárdenas, G.G., Huhtinen, S., Huttunen, S., Keskiniva, V., Kosonen, T., Kuusisto, I., Lampinen, J., Lempiäinen-Avci, M., Llerena, N., Luong, T.T., Marsh, T., Oksanen, H., Pihlaja, K., Puolasmaa, A., Riikonen, R., Toivonen, M., Wahlsten, A. 2023. Herbarium TUR celebrates its 100 years. Taxon 72: 1196–1199.

Lehtonen, S., Thiele, K.R. 2023. Report of the Special-purpose Committee on DNA sequences as Types, established at the XIX International Botanical Congress in Shenzhen, China. Taxon 72: 1137–1142.

Li, Z. Z., Lehtonen, S., Chen, J. M. 2023. The dynamic history of plastome structure across aquatic subclass Alismatidae. BMC Plant Biology, 23: 1-9.

Moulatlet, G. M., Riaño, K., Rodrigues, F. R. O., Meneses, P. Zuquim, G. 2023. Diversity and composition of ferns and lycophytes in a fragmented landscape in Ecuadorian Amazonia. Rodriguésia, 74: e00592023. 2023.

Nunes, M.H., Vaz, M.C., Camargo, J.L.C., Laurance, W.F., Andrade, A., Vicentini, A., Laurance, S., Raumonen, P., Jackson, T., Zuquim, G., Wu, J., Penuelas, J., Chave, J., Maeda, E.E.. Edge effects on tree architecture exacerbate biomass loss of fragmented Amazonian forests. Nature Communications 14: 8129.

Schultz, E. D., Thom, G., Zuquim, G., Hickerson, M. J., Tuomisto, H., & Ribas, C. C. 2023. Habitat specialization predicts demographic response and vulnerability of floodplain birds in Amazonia. Molecular Ecology, 00: 1–17.

Silva, G. C., Solís Neffa, V. G., Zuquim, G., & Balslev, H. 2023. Biogeography and environmental preferences of Butia yatay (Mart.) Becc. Ecology and Evolution, 13: e10749.

Thiele, K.R., Applequist, W.L., Renner, S.S., May, T.W., Dönmez, A.A., Groom, Q., Lehtonen, S., Maggs, C.A., Malécot, V., Yoon H.S. 2023. DNA sequences as types: a discussion paper from the Special-purpose Committee established at the XIX International Botanical Congress in Shenzen, China. Taxon 72: 965–973.

Thiele, K.R., Groom, Q., Renner, S.S., Applequist, W.L., Lehtonen S. 2023. (329–338) Proposals to permit DNA sequences to serve as types of names in prescribed circumstances. Taxon 72: 1143–1145.

Thiele, K.R., Groom, Q., Renner, S.S., Lehtonen, S. 2023. (339–348) Proposals to permit DNA sequences to be used for fixing the application of names in prescribed circumstances. Taxon 72: 1146–1148.

Wan, X., Zhang, L., Lehtonen, S., Tuomisto, H., Zhang, D.-W., Gao, X.-F., Zhang, L.-B. 2023. Five long-distance dispersals shaped the major intercontinental disjunctions in Tectariaceae s.l. (Polypodiales, Polypodiopsida). Molecular Phylogenetics and Evolution, 186: 107845.

Zuquim, G., Van doninck, J., Chaves, P.P., Quesada, C.A., Ruokolainen, K, Tuomisto, H. 2023. Introducing a map of soil base cation concentration, an ecologically relevant GIS-layer for Amazonian forests. Geoderma Regional, 33: e00645.

Zuquim, G.Jones, M. M.Ovaskainen, O.Trujillo, W., & Balslev, H. 2023The legacy of human use in Amazonian palm communities along environmental and accessibility gradients. Global Ecology and Biogeography, 001-12


Chaves, P.P., Ruokolainen, K., Van doninck, J. & Tuomisto, H. 2022. Impact of spatial configuration of training data on the performance of Amazonian tree species distribution models. Forest Ecology and Management 504: 119838. doi: 10.1016/j.foreco.2021.119838

Chen, C.-W., Perrie, L., Glenny, D., Chiou, W.-L., Fawcett, S., Smith, A.R., Parris, B.S., Ebihara, A., Nitta, J.H., Ohlsen, D., Lehtonen, S., Dong, S.-Y., Lehnert, M., Field, A.R., Chao, Y.-S., Murdock, A.G., Sundue, M. 2022. An annotated checklist of lycophytes and ferns of the Solomon Islands. Fern Gazette 21: 292–417.

Dubuisson, J.-Y., Le Péchon, T., Hennequin, S., Rouhan, G., Salino, A., Deblauwe, V., Droissart, V., Tuomisto, H., Lehtonen, S. & Ebihara, A. 2022. New insights into the diversity, taxonomy and history of the fern genus Trichomanes (Hymenophyllaceae, Polypodiidae), with a focus on Africa and the western Indian Ocean. Botanical Journal of the Linnean Society 198: 215-239. doi: 10.1093/botlinnean/boab049

Figueiredo, F.O.G, André, T., Moulatlet, G.M., Saka, M.N., Araujo, M.H.T., Tuomisto, H., Zuquim, G., Emílio, T., Balslev, H., Borchsenius, F., Campos, J.V., Silveira, M., Domingos, J.R. & Costa, F. R.C. 2022. Linking high diversification rates of rapidly growing Amazonian plants to geophysical landscape transformations promoted by Andean uplift. Botanical Journal of the Linnean Society. doi: 10.1093/botlinnean/boab097

Keskiniva, J.S., & Tuomisto, H. 2022. Six new species of Danaea (Marattiaceae) and the synonymisation of Danaea quebradensis. Kew Bulletin. doi:  10.1007/S12225-022-10011-W

Li, Z.-Z., Lehtonen, S., Gichira, A.W., Martins, K., Efremov, A., Wang, Q.-F., Chen, J.-M. 2022. Plastome phylogenetics and historical biogeography of aquatic plant genus Hydrocharis (Hydrocharitaceae). BMC Plant Biology 22, 106. doi:

Li, Z.-Z., Lehtonen, S., Martins, K., Wang, Q.-F. & Chen, J.-M. 2022. Complete genus-level plastid phylogenomis of Alismataceae with revisited historical biogeography. Molecular Phylogenetics and Evolution 166: 107334. doi: 10.1016/j.ympev.2021.107334

Maeda, E.E., Nunes, M.H., Calders, K., Mendes de Moura, Y., Raumonen, P., Tuomisto, H., Verley, P., Vincent, G., Zuquim, G. & Camargo, J.L. 2022. Shifts in structural diversity of Amazonian forest edges detected using terrestrial laser scanning. Remote Sensing of Environment 271: 112895. doi: 10.1016/j.rse.2022.112895

Pena, N.T.L, Zuquim, G., Schwartsburd, P.B. (2022). Beware my spines: a new spiny fern (Dennstaedtia, Dennstaedtiaceae) from central and western Amazonia. Acta Amazonica 52: 142 – 148.

Peterson, A.T., Aiello-Lammens, M., Amatulli, G., Anderson, R., Cobos, M., Diniz-Filho, J.A., Escobar, L., Feng, X., Franklin, J., Gadelha, L., Georges, D., Guéguen, M., Gueta, T., Ingenloff, K., Jarvie, S., Jiménez, L., Karger, D., Kass, J., Kearney, M., Loyola, R., Machado-Stredel, F., Martínez-Meyer, E., Merow, C., Mondelli, M.L., Mortara, S., Muscarella, R., Myers, C., Naimi, B., Noesgaard, D., Ondo, I., Osorio-Olvera, L., Owens, H., Pearson, R., Pinilla-Buitrago, G., Sánchez-Tapia, A., Saupe, E., Thuiller, W., Varela, S., Warren, D., Wieczorek, J., Yates, K., Zhu, G., Zuquim, G. and Zurell, D. 2022. ENM2020: A Free Online Course and Set of Resources on Modeling Species’ Niches and Distributions. Biodiversity Biodiversity Informatics. 17. DOI:

Zuquim, G.Benchimol, M.Tonon, R.Peres, C. A., & Storck-Tonon, D. 2022Effects of forest degradation on Amazonian ferns in a land-bridge island system as revealed by non-specialist inventories. Ecological Solutions and Evidence, 3,e12123.



Cárdenas Ramírez, G.G., Jones, M.M., Heymann, E.W. & Tuomisto, H. 2021. Characterizing primate home-ranges in Amazonia: Using ferns and lycophytes as indicators of site quality. Biotropica 53: 930-940. doi: 10.1111/btp.12935

Chaves, P. P., Reategui, E. N., Ruokolainen, K., Kalliola, R., Van doninck, J., Gómez Rivero, E., Zuquim, G. & Tuomisto, H. 2021. Using forestry inventories and satellite imagery to assess floristic variation in bamboo-dominated forests in Peruvian Amazonia. Journal of Vegetation Science 32: e12938.

Draper, F.C., Costa, F.R.C., Arellano, G. et al. (incl. Ruokolainen, K.) 2021. Amazon tree dominance across forest strata. Nature Ecology & Evolution 5: 757-767. doi: 10.1038/s41559-021-01418-y

Flores, J., Lehtonen, S &, Hyvönen, J. 2021. Exploring the impact of unstable terminals on branch support values in paleontological data. Paleobiology 47: 432-445. doi: 10.1017/pab.2020.64

Koskimäki, T., Eklund, J., Moulatlet, G. & Tuomisto, H. 2021. Impact of individual protected areas on deforestation and carbon emissions in Acre, Brazil. Environmental Conservation 48: 217-224. doi: 10.1017/S0376892921000229

Lehtonen, S., Muscarella, R., Moulatlet, G., Balslev, H. & Tuomisto, H. 2021. Geological heterogeneity and the evolutionary trajectory of Amazonian plant communities. Ecology and Evolution. doi: 10.1002/ece3.8477

Melo, T.N., Campos Cerqueira, M., d’Horta, F.M., Tuomisto, H., Van doninck, J. & Ribas, C.C. 2021. Impacts of a large hydroelectric dam on the Madeira River (Brazil) on floodplain avifauna. Acta Amazonica 51: 298–310. doi: 10.1590/1809-4392202100662

Zuquim, G., Tuomisto, H., Chaves, P.P., Emilio, T., Moulatlet, G.M., Ruokolainen, K., Van doninck, J. & Balslev, H. (2021) Revealing floristic variation and map uncertainties for different plant groups in western Amazonia. Journal of Vegetation Science, 32: e13081.


Buainain, N, Canton, R, Zuquim, G, Tuomisto, H., Hrbek, T., Sato, H. & Ribas, C.C. 2020. Paleoclimatic evolution as the main driver of current genomic diversity in the widespread and polymorphic Neotropical songbird Arremon taciturnus. Molecular Ecology 29: 2922–2939.

Chaves, P.P., Zuquim, G., Ruokolainen, K., Van doninck, J., Kalliola, R., Gómez Rivero, E., Tuomisto, H. 2020. Mapping foristic patterns of trees in Peruvian Amazonia using remote sensing and machine learning. Remote Sensing 12: 1523. doi: 10.3390/rs12091523

Dambros, C., Zuquim, G., Moulatlet, G., Costa, F., Cherem Ribas, C., Tuomisto, H., Azevedo, R., Baccaro, F., Bobrowiec, P., Dias, M., Emilio, T., Espírito Santo, H.M., Figueiredo, F., Franklin, E., Freitas, C., Graça, M., Mendonça d´Horta, F., Leitão, R., Maximiano, M., Mendonça, F., Menger, J., Morais, J.W., de Souza, A., Souza, J., Tavares, V., do Vale, J., Venticinque, E., Juanon, J. & Magnusson, W. 2020. The role of environmental filtering, geographic distance and dispersal barriers in shaping the turnover of plant and animal species in Amazonia. Biodiversity and Conservation 29: 3609–3634.

Ito, Y., Tanaka, N., Keener, B.R., Lehtonen, S. 2020. Phylogeny and biogeography of Sagittaria (Alismataceae) revisited: evidence for cryptic diversity and colonization out of South America. Journal of Plant Research 133: 827–839. doi: 10.1007/s10265-020-01229-5

Lehtonen, S. 2020. Phenotypic characters of static homology increase phylogenetic stability under direct optimization of otherwise dynamic homology characters. Cladistics 36: 617-626. doi: 10.1111/CLA.12438

Lehtonen, S., Poczai, P., Sablok, G., Hyvönen, J., Karger, D.N., Flores, J. 2020. Exploring the phylogeny of the marattialean ferns. Cladistics 36: 569-593. doi: 10.1111/CLA.12419

Li, Z.-Z., Lehtonen, S., Martins, K., Gichira, A.W., Wu, S., Li, W., Hu, G.-W., Liu, Y., Zhou, C.-Y., Wang, Q.-F., Chen, J.-M. 2020. Phylogenomis of the aquatic plant genus Ottelia (Hydrocharitaceae): implications for historical biogeography. Molecular Phylogenetics and Evolution 152: 106939. doi: 10.1016/j.ympev.2020.106939

Li, Z.-Z., Ngarega, B.K., Lehtonen, S., Gichira, A.W., Karichu, M.J., Wang, Q.-F., Chen, J.-M. 2020. Cryptic diversity within the African aquatic plant Ottelia ulvifolia (Hydrocharitaceae) revealed by population genetic and phylogenetic analyses. Journal of Plant Research 133: 373–381. doi: 10.1007/s10265-020-01175-2

Maximiano, M.F.A., d’Horta, F.M., Tuomisto, H., Zuquim, G., Van doninck, J. & Ribas, C.C. 2020. The relative role of rivers, environmental heterogeneity and species traits in driving compositional changes in southeastern Amazonian bird assemblages. Biotropica 52: 946-962. doi: 10.1111/btp.1279

Van doninck, J., Jones, M.M., Zuquim, G., Ruokolainen, K., Moulatlet, G.M., Sirén, A., Cárdenas, G., Lehtonen, S. Tuomisto, H. 2020. Multispectral canopy reflectance improves spatial distribution models of Amazonian understory species. Ecography 43: 128-137. doi: 10.1111/ecog.04729

Van doninck, J., Westerholm, J., Ruokolainen, K., Tuomisto, H., Kalliola, R. 2020. Dating flowering cycles of Amazonian bamboo-dominated forests by supervised Landsat time series segmentation. International Journal of Applied Earth Observation and Geoinformation 93: 102196. doi:10.1016/j.jag.2020.102196.

Weigand, A., Abrahamczyk, S., Aubin, I., Bita-Nicolae, C., Bruelheide, H., Carvajal-Hernández, C., Cicuzza, D., Erickson Nascimento da Costa, L., Csiky, J., Dengler, J., de Gasper, A.L., Guerin, G.R., Haider, S., Rojas Hernandez, A., Jandt, U., Reyes-Chávez, J., Karger, D.N., Khine, P.K., Kluge, J., Krömer, T., Lehnert, M., Lenoir, J., Moulatlet, G.M., Aros Mualin, D., Noben, S., Olivares, I., García Quintanilla, L., Reich, P.B., Salazar, L., Silva-Mijangos, L., Tuomisto, H., Weigelt, P., Zuquim, G., Kreft, H. & Kessler, M. 2020. Environmental and historical determinants of fern richness across spatial grains. Journal of Biogeography 47: 59-71. doi: 10.1111/jbi.13782

Zuquim, G., Costa, F.R.C., Tuomisto, H., Moulatlet, G.M., Figueiredo, F.O.G. 2020. The importance of soils in predicting the future of plant habitat suitability in a tropical forest. Plant and Soil 450:151-170. doi: 10.1007/s11104-018-03915-9​


Banon, G., Arraut, E., Villamarín, F., Marioni, B., Moulatlet, G., Rennó, C., … & Novo, E. 2019. A review on crocodilian nesting habitats and their characterisation via remote sensing. Amphibia-Reptilia, 40:403-423. doi: h10.1163/15685381-20191159

Banon, G. P. R., Banon, G. J. F., Villamarín, F., Arraut, E. M., Moulatlet, G. M., Rennó, C. D., … & Novo, E. M. L. D. M. 2019. Predicting suitable nesting sites for the Black caiman (Melanosuchus niger Spix 1825) in the Central Amazon basin. Neotropical Biodiversity, 5(1), 47-59. doi: 10.1080/23766808.2019.1646066

Bernal, R., Bacon, C.D, Balslev, H., Hoorn, C., Bourlat, S.J., Tuomisto, H., Salamanca, S., Teunissen van Manen, M., Romero, I., Sepulchre, P. & Antonelli, A. 2019. Could coastal plants in western Amazonia be relicts of past marine incursions? Journal of Biogeography 46:1749-1759. doi: 10.1111/jbi.13560

Cárdenas, G.G., Lehtonen, S. & Tuomisto, H. 2019. Taxonomy and evolutionary history of the neotropical fern genus Salpichlaena (Blechnaceae). Blumea 64: 1-22. doi: 10.3767/blumea.2018.64.01.01

Ferreira, E., R. Kalliola, and K. Ruokolainen. 2019. Bamboo, climate change and forest use: A critical combination for southwestern Amazonian forests? Ambio. doi: 10.1007/s13280-019-01299-3

Kuusijärvi, A., Riihikoski, V.-M., Lehtonen, S., Ståhls, G., Hyvärinen, M., Heikkinen, M., Schulman, L. 2019. Database tools to meet the Nagoya Protocol requirements in a collection management system. Biodiversity Information Science and Standards 3, e36734. doi: 10.3897/biss.3.36734

Lehtonen, S., Cárdenas, G.G. 2019. Dynamism in plastome structure observed across the phylogenetic tree of ferns. Botanical Journal of the Linnean Society 190, 229–241. doi: 10.1093/botlinnean/boz020

Li, Z.-Z., Wu, S., Zou, C.-Y., Liu, Y., Hu, G.-W., Lehtonen, S., Wang, Q.-F., Chen, J.-M. 2019. Ottelia fengshanensis, a new bisexual species of Ottelia (Hydrocharitaceae) from southwestern China. PhytoKeys 135: 1–10. doi: 10.3897/phytokeys.135.38531

Moulatlet, G.M., Zuquim, G. & Tuomisto, H. 2019. The role of soils on pteridophyte distribution in tropical American forests. Fern Gazette 21: 1-20.

Rossetti, D.F., Moulatlet, G.M., Tuomisto, H., Gribel, R., Toledo, P.M., Valeriano, M.M., Ruokolainen, K., Cohen, M.C.L., Cordeiro, C.L.O., Rennó, C., Coelho, L.S. & Ferreira, C. 2019. White sand vegetation in an Amazonian lowland under the perspective of a young geological history. Annals of the Brazilian Academy of Sciences 91: e20181337. doi: 10.1590/0001-3765201920181337

Ruokolainen, K., Moulatlet, G.M., Zuquim, G., Hoorn, C., Tuomisto, H. 2019. Geologically recent rearrangements in central Amazonian river network and their importance for the riverine barrier hypothesis. Frontiers of Biogeography 11(3):e45046. doi: 10.21425/F5FBG45046

Sampaio, A.F., R.T.G. Andrade, G. Zuquim, M.F.M. Cunha, A. Eugênio de Oliveira, G. Sampaio Cabral, O. Silva de Moura, S. Pansini & A. G. Manzatto. Ferns and lycophytes of Cuniã Ecological Station, south-western Amazonia, Brazil. The Fern Gazette 21: 71-86.  

Tuomisto, H., Van doninck, J., Ruokolainen, K., Moulatlet, G.M., Figueiredo, F.O.G., Sirén, A., Cárdenas, G., Lehtonen, S., Zuquim, G. 2019. Discovering floristic and geoecological gradients across Amazonia. Journal of Biogeography 46: 1734-1748. doi: 10.1111/jbi.13627

Zuquim, G., Stropp, J., Moulatlet, G.M., Van doninck, J., Quesada, C.A., Figueiredo, F.O.G., Costa, F.R.C., Ruokolainen, K. & Tuomisto, H. 2019. Making the most of scarce data: Mapping soil gradients in data-poor areas using species occurrence records. Methods in Ecology and Evolution 10:788-801. doi: 10.1111/2041-210X.13178


Antonelli, A., Ariza, M., Albert, J., Andermann, T., Azevedo, J., Bacon, C., Faurby, S., Guedes, T., Hoorn, C., Lohmann, L., Matos-Maraví, P., Ritter, C., Sanmartín, I., Silvestro, D., Tejedor, M., Steege, H. ter, Tuomisto, H., Werneck, F., Zizka, A. & Edwards, S. 2018. Conceptual and empirical advances in Neotropical biodiversity research. PeerJ 6:e5644. doi: 10.7717/peerj.5644

Figueiredo, F.O.G., Zuquim, G., Tuomisto, H., Moulatlet, G.M., Balslev, H. & Costa, F.R.C. (2018) Beyond climate control on species range: the importance of soil data to predict distribution of Amazonian plant species. Journal of Biogeography, 45:190–200​. doi: 10.1111/jbi.13104​​

Gómez, I.C., Sääksjärvi, I.E., Mayhew, P.J., Pollet, M., Rey del Castillo, C., Nieves-Aldrey, J.-L., Broad, G.R., Roininen, H. & Tuomisto, H. (2018) Variation in the species richness of parasitoid wasps (Ichneumonidae: Pimplinae and Rhyssinae) across sites on different continents. Insect Conservation and Diversity 11: 305-316. doi: 10.1111/icad.12281​

Harju E, Sirén A, Salo M (2018) Experiences from harvest-driven conservation: management of Amazonian river turtles as a common-pool resource. Ambio 47(3): 327-339. doi: 10.1007/s13280-017-0943-5​

Hopkins T, Roininen H & Sääksjärvi IE (2018) Assessing the species richness of Afrotropical ichneumonid wasps with randomly placed traps provides ecologically informative data. African Entomology, 26:350-359. doi: 10.4001/003.026.0350

Lehtonen, S. (2018). ​Alismataceae. Flora del Paraguay 49: 1-42. [PDF]

Lehtonen, S. (2018). The complete plastid genome sequence of Trichomanes trollii (Hymenophyllaceae). Nordic Journal of Botany 36: e02072. doi: 10.1111/njb.02072​

Lehtonen, S. (2018). xLindsaeosoria flynnii (Lindsaeaceae), another confirmed example of deep hybridization among the ferns. American Fern Journal, 108: 7-18. doi: 10.1640/0002-8444-108.1.7​

Pérez Chaves, P., Ruokolainen, K. & Tuomisto, H. 2018. Using remote sensing to model tree species distribution in Peruvian lowland Amazonia. Biotropica 50: 758–767. doi: 10.1111/btp.12597

Ritter, C.D., Zizka, A., Roger, F., Tuomisto, H., Barnes, C., Nilsson, R.H., Antonelli, A. 2018. High-throughput metabarcoding reveals the effect of physicochemical soil properties on soil and litter biodiversity and community turnover across Amazonia. PeerJ e5661. doi: 10.7717/peerj.5661

Rossetti, D., Gribel, R., Tuomisto, H., Cordeiro, C. & Tatumi. S. (2018) The influence of late Quaternary sedimentation on vegetation in an Amazonian lowland megafan. Earth Surface Processes and Landforms 43: 1259-1279. doi: 10.1002/esp.4312​​ (featuring cover photo of the issue, doi: 10.1002/esp.4402​)

Ruokolainen, K., Massaine Moulatlet, G., Zuquim, G., Hoorn, C. & Tuomisto, H. 2018. River network rearrangements in Amazonia shake biogeography and civil security. Preprints 2018: 2018090168. doi: 10.20944/preprints201809.0168.v1

Tuomisto, H., Kessler, M. & Smith, A.R. (2018). Prodromus of a fern flora for Bolivia. VIII. Marattiaceae. Phytotaxa 344: 64-68. doi: 10.11646/phytotaxa.344.1.8

Ulrich, W., Kubota, Y., Kusumoto, B., Baselga, A., Tuomisto, H. & Gotelli, N.J. (2018) Species richness correlates of raw and standardized co-occurrence metrics. Global Ecology and Biogeography 27: 395-399. doi: 10.1111/geb.12711​

Van doninck, J. & Tuomisto, H. 2018. A Landsat composite covering all Amazonia for applications in ecology and conservation. Remote Sensing in Ecology and Conservation 4: 197–210. doi: 10.1002/rse2.77

2017 (A-S)

Antonelli, A., Ariza, M., Albert, J., Andermann, T., Azevedo, J., Bacon, C., Faurby, S., Guedes, T., Hoorn, C., Lohmann, L., Matos-Maraví, P., Ritter, C., Sanmartín, I., Silvestro, D., Tejedor, M., ter Steege, H., Tuomisto, H., Werneck, F., Zizka, A. & Edwards, S. (2017) Conceptual and Empirical Advances in Neotropical Biodiversity Research. PeerJ Preprints 5:e3074v1. doi: 10.7287/peerj.preprints.3074v1

Bitar, Y.O.C., Tuomisto, H., Pinheiro, L.P.C, Juen, L. & Santos-Costa, M.C. (2017) Species turnover in Amazonian frogs: Low predictability and large differences among forests. Biotropica. 49(5): 695-705.  doi: 10.1111/btp.12428

Cámara-Leret, R., Tuomisto, H., Ruokolainen, K., Balslev, H. and Munch Kristiansen, S. (2017). Modelling responses of western Amazonian palms to soil nutrients. J Ecol, 105​(2): 367–381. doi:  10.1111/1365-2745.12708​​​

Hiedanpää J, Salo M (2017). Emerging forest ecosystem service entrepreneurship in Finland and Peru. International Forestry Review 19(S1): 1–12.​ [PDF]

Lehtonen, S. (2017). Splitting Caldesia in favour of Albidella (Alismataceae). Australian Systematic Botany 3: 64–69. doi:

Lehtonen, S., Lehtonen, I., Teräs, A., Varrela, J., Vesterinen, E.J., Virta, P. (2017). DNA barcoding reveals widespread occurence of Leptidea juvernica (Lepidoptera: Pieridae) in southern Finland. Entomologisk Tidskrift 138: 151-159. [PDF]

Lehtonen, S., Ramella, L. (2017) Tipificaciones y sinónimos nuevos en Echinodorus Engelm. y Sagittaria L. (Alismatacaeae) de la Flora del Paraguay. Candollea 72: 405-407. doi: 10.15553/c2017v722a17​​​

Lehtonen, S., Silvestro, D., Karger, D.N., Scotese, C., Tuomisto, H., Kessler, M., Peña, C., Wahlberg, N., Antonelli, A. (2017) Environmentally driven extinction and opportunistic origination explain fern diversification patterns. Scientific Reports 7: 4831. doi:  10.1038/s41598-017-05263-7​​

Moulatlet, G.M., Zuquim, G., Ruokolainen, K., Lehtonen, S., Figueiredo, F.O., Emilio, T. & Tuomisto, H. (2017) Using digital soil maps to infer edaphic affinities of plant species in Amazonia: problems and prospects. Ecology and Evolution 7: 8463–8477. doi: 10.1002/ece3.3242​​​

Prado, J., Hirai, R.Y., Smith, A.R. & Tuomisto, H. 2017. Novelties in Adiantum (Pteridaceae) from South America. Willdenowia 47: 237–242. doi: ​10.3372/wi.47.47307

Ripple, W.J., Wolf, C., Newsome, T.M., Galetti M., Alamgir, M., Crist, E., Mahmoud, M.I., Laurance, W.F. & 15,364 scientist signatories from 184 countries (including Kalliola, R., Moulatlet, G.M., Ruokolainen, K., Salo, M., Tuomisto, H., Zuquim, G.). (2017). World Scientists’ Warning to Humanity: A Second Notice, BioScience 67(12): 1026–1028. doi: 10.1093/biosci/bix125

Roslin, T., Hardwick, B., Novotny, V., Petry, W.K., Andrew, N.R., Asmus, A., Barrio, I.C., Basset, Y., Boesing, A.L., Bonebrake, T.C., Cameron, E.K., Dáttilo, W., Donoso, D.A., Drozd, P., Gray, C.L., Hik, D.S., Hill, S.J., Hopkins, T., Huang, S., Koane, B., Laird-Hopkins, B., Laukkanen, L., Lewis, O.T., Milne, S., Mwesige, I., Nakamura, A., Nell, C.S., Nichols, E., Prokurat, A., Sam, K., Schmidt, N.M., Slade, A., Slade, V., Suchanková, A., Teder, T., Nouhuys, S. van, Vandvik, V., Weissflog, A., Zhukovich, V. & Slade, E.M. (2017) Higher predation risk for insect prey at low latitudes and elevations. Science, 356, 742–744. doi: 10.1126/science.aaj1631​​

Rossetti, D.F., Gribel, R., Rennó, C.D., Cohen, M.C.L., Moulatlet, G.M., Cordeiro, C.L.O., Rodrigues, E.S.F. (2017). Late Holocene Tectonic Influence on hydrology and vegetation patterns in northern Amazonian megafan. Catena. 158: 121-130. doi: 10.1016/j.catena.2017.06.022​

Sylvester,  S.P., Heitkamp F., Sylvester M.D.P.V., Jungkunst H. F.,  Sipman H.J.M., Toivonen J.M.,  Gonzales Inca C.A., Ospina  J.C.  &  Kessler  M.. (2017). Relict high-Andean ecosystems challenge our concepts of naturalness and human impact. Nature Scientific Reports. doi:  10.1038/s41598-017-03500-7

2017 (T-Z)

Toivonen J.M., Suominen, L., Gonzales-Inca, C.A., Trujillo Paucar, G. & Jones, M.M. (2017). Environmental drivers of vascular and non-vascular epiphyte abundance in tropical premontane cloud forests in Northern Peru. Journal of Vegetation Science 28: 1198-1208. doi: 10.1111/jvs.12577

Tuomisto, H., Ruokolainen, K., Vormisto, J., Duque, A., Sanchéz, M., Vargas Paredes, V. & Lähteenoja, O. (2017) Effect of sampling grain on patterns of species richness and turnover in Amazonian forests. Ecography  40: 840–852.  doi: 10.1111/ecog.02453

Ulrich, W., Baselga, A., Kusumoto, B., Shiono, T., Tuomisto, H. & Kubota, Y. (2017) The tangled link between beta and gamma diversity: a Narcissus effect weakens statistical inferences in null model analyses of diversity gradients. Global Ecology and Biogeography 26(1): 1-5. doi: 10.1111/geb.12527​​​

Van doninck, J. & Tuomisto, H. (2017) Influence of compositing criterion and data availability on pixel-based Landsat TM/ETM+ image compositing over Amazonian forests. IEEE Journal of Selected Topics in Applied Earth Observations and Remote Sensing. 10(3): 857-867. doi: 10.1109/JSTARS.2016.2619695​​

Van doninck, J. & Tuomisto, H. (2017) Evaluation of directional normalization methods for Landsat T​M/ETM+ over primary Amazonian lowland forests. International Journal of Applied Earth Observation and Geoinformation. 58: 249-263. doi: 10.1016/j.jag.2017.01.017.​

Zuquim, G, Tuomisto, H. & Prado, J. (2017) A free-access online key to identify Amazonian ferns. PhytoKeys 78:1–15. doi: 10.3897/phytokeys.78.11370​​


Cárdenas, G.G., Tuomisto, H., & Lehtonen, S. (2016). Newly discovered diversity in the tropical fern genus Metaxya based on morphology and molecular phylogenetic analysis. Kew Bulletin 71: 5.  doi: 10.1007/s12225-016-9618-9​

Cárdenas, G.G., Tuomisto, H., & Lehtonen, S. (2016). Erratum to: Newly discovered diversity in the tropical fern genus Metaxya based on morphology and molecular phylogenetic analysis. Kew Bulletin 71: 49.  doi: 10.1007/s12225-016-9661-6​​

Cordeiro, C.L.O., Rossetti, D.F., Gribel, R., Tuomisto, H., Zani, H., Ferreira, C.A.C. & Coelho, L. (2016) Impact of sedimentary processes on white-sand vegetation in an Amazonian megafan. Journal of Tropical Ecology 32: 498-509. doi: 10.1017/S0266467416000493

Jones, M.M., Gibson, N., Yates, C., Ferrier, S., Mokany, K., Williams, K.J., Manion, G. & Svenning, J.-C. (2016). Underestimated effects of climate on plant species turnover in the Southwest Australian Floristic Region. Journal of Biogeography 43: ​289-300. doi: 10.1111/jbi.12628​

Jones, M.M., Ruokolainen, K., Llerena Martinez, N.C. & Tuomisto, H. (2016). Differences in topographic and soil habitat specialisation between trees and two understorey plant groups in a Costa Rican lowland rain forest. Journal of Tropical Ecology 32: 482-497. doi: 10.1017/S0266467416000419​

Karger, D.N., Cord, A.F., Kessler, M., Kreft, H., Kühn, I., Pompe, S., Sandel, B., Sarmento Cabral, J., Smith, A.B., Svenning, J.-C., Tuomisto, H., Weigelt, P. & Wesche, K. (2016) Delineating probabilistic species pools in ecology and biogeography. Global Ecology and Biogeography 25: 489-501. doi: 10.1111/geb.12422

Lehtonen, S. (2016). Shutting down the chaos engine – or, identifying some problematic Echinodorus (Alismataceae) types. Annales Botanici Fennici 53: 115-129. doi: 10.5735/085.053.0222​

Lehtonen, S., Christenhusz, M.J.M., Falck, D. (2016). Sensitive phylogenetics of Clematis and its position in Ranunculaceae. Botanical Journal of the Linnean Society 182: 825-867. doi: 10.1111/boj.12477​​​

Muro, J., Van doninck, J., Tuomisto, H., Higgins, M.A., Moulatlet, G.M., Ruokolainen, K. (2016). Floristic composition and across-track reflectance gradient in Landsat images over Amazonian forests. ISPRS Journal of Photogrammetry and Remote Sensing 119: 361-372.​ doi: 10.1016/j.isprsjprs.2016.06.016​​

PPG I (The Pteridophyte Phylogeny Group, including Lehtonen, S. and Tuomisto, H.) (2016) A community-derived classification for extant lycophytes and ferns​. Journal of Systematics and Evolution 54: 563-603. doi: 10.1111/jse.12229​

Salo M, Hiedanpää J, Karlsson T, Cárcamo Ávila L, Kotilainen J, Jounela P, Rumrrill García R (2016) Local perspectives on the formalization of artisanal and small-scale mining in the Madre de Dios gold fields, Peru. The Extractive Industries and Society 3(4): 1058–1066​. doi: 10.1016/j.exis.2016.10.001​

​Schietti, J., Martins D., Emilio, T., Souza, P.F., Levis, C., Baccaro, F.B., Pinto, J.L.P.V., Moulatlet, G.M., Stark, S.C., Sarmento, K., Araújo, R.N.O., Costa, F.R.C., Schöngart J., Quesada C.A., Saleska, S.R., Tomasella, J., Magnusson, W.E. (2016). Forests structure along a 600 km transect of natural disturbances and seasonality gradients in central-southern Amazonia. Journal of Ecology 104: 1335-1346.  doi: 10.1111/1365-2745.12596​​

Tuomisto, H., Moulatlet, G., Balslev, H., Emilio, T., Figueiredo, F.O.G., Pedersen, D. & Ruokolainen, K. (2016) A compositional turnover zone of biogeographical magnitude within lowland Amazonia. Journal of Biogeography 43: 2400-2411. doi:10.1111/jbi.12864​​​​


Hiedanpää J, Salo M, Kotilainen J (2015) Teleodynamics and institutional design: the hardship of protecting the amur tiger, big leaf mahogany, and grey wolf. Journal for Nature Conservation 26: 36–44.​doi: 10.1016/j.jnc.2015.04.001​​

Karger, D.N., Tuomisto, H., Amoroso, V.B., Darnaedi, D, Hidayat, A., Abrahamczyk, S., Kluge, J., Lehnert, M. & Kessler, M. 2015. The importance of species pool size for community composition. Ecography 38: 1243-1253.  doi:10.1111/ecog.01322​

Lehtonen, S., Jones, M.M., Zuquim, G., Prado, J. and Tuomisto, H. 2015. Phylogenetic relatedness within neotropical fern communities increases with soil fertility. Global Ecology and Biogeography 24: 695-705. doi: 10.1111/geb.12294​

Moulatlet, G.M., Rennó, C.D., Costa, F.RC., Emilio, T., Schietii, J. 2015. ​Mapping hydrological environments in central Amazonia: ground validation and surface model based on SRTM DEM data corrected for deforestation. Earth System Science Data 7: 29-34. doi:10.5194/essd-7-29-2015​​​​

Schulman, L. & Ruokolainen, K. 2015. Adelobotrys tessmannii (Merianieae, Melastomataceae) and allies: a refined circumscription and description of two new Amazonian species with notes on their ecology. Phytotaxa 234(2): 101-120. doi: 10.11646/phytotaxa.234.2.1​

Suominen, L., Ruokolainen, K., Pitkänen, T. & Tuomisto, H. 2015. Similar understorey structure in spite of edaphic and floristic dissimilarity in Amazonian forests. Acta Amazonica 45: 393–404.  doi: 10.1590/1809-4392201500132​​

​​​Weigelt, P., Kissli​ng, D.W., Kisel, Y., Fritz, S.A., Karger, D.N., Kessler, M., Lehtonen, S., Svenning, J.-C., Kreft, H. 2015. Global patterns and drivers of phylogenetic structure in island floras. Scientific Reports 5: 12223. doi: 10.1038/srep12213​​


Bagchi, R., Gallery, R. E., Gripenberg, S., Gurr, S. E., Narayan, L., Addis, C. E., Freckleton, R. P. & Lewis, O. T. 2014. Fungal pathogens and insect herbivores modify rainforest plant diversity and composition. Nature 506: 85–88.  doi: 10.1038/nature12911

Falck, D., Lehtonen, S. 2014. Two new names in Clematis (Ranunculaceae). Phytotaxa 163: 58. DOI: 10.11646/phytotaxa.163.1.7

Gripenberg, S., Bagchi, R., Gallery, R. E., Freckleton, R. P., Narayan, L. & Lewis, O. T. 2014. Testing for enemy-mediated density-dependence in the mortality of seedlings: Field experiments with five Neotropical tree species. Oikos 123: 185-193. doi: 10.1111/j.1600-0706.2013.00835.x

Jones, M.M., Cicuzza, D., van Straaten, O., Veldkamp, E. & Kessler, M. 2014. Determinants of fern and angiosperm herb community structure in lower montane rainforest in Indonesia. Journal of Vegetation Science 25: 1216-1224. doi: 10.1111/jvs.12181​​

Kessler, M., ​Toivonen, J.M., Sylvester, S., Kluge, J. & Hertel, D. 2014. Elevational patterns of Polylepis (Rosaceae) tree height in the high Andes of Peru: role of human impact and climatic conditions. Frontiers in Plant Science 5:194.​ doi: 10.3389/fpls.2014.00194​

Morris, R.J., Gripenberg, S., Lewis, O.T. & Roslin, T. 2014. Antagonsitic interaction networks are structured independently of latitude and host guild. Ecology Letters 17: 340-349. doi: 10.1111/ele.12235

Moulatlet, G. M., Costa, F. R. C., Rennó, C. D., Emilio, T. and Schietti, J. 2014. Local Hydrological Conditions Explain Floristic Composition in Lowland Amazonian Forests. Biotropica 46(4): 395–403. doi: 10.1111/btp.12117​

Sabatini FM, Burrascano S, Tuomisto H, Blasi C (2014) Ground Layer Plant Species Turnover and Beta Diversity in Southern-European Old-Growth Forests. PLoS ONE 9(4): e95244. doi: 10.1371/journal.pone.0095244

Toivonen J. M., Horna V., Kessler M., Ruokolainen K., Hertel D. 2014. Interspecific variation in functional traits in relation to species climatic niche optima in Andean Polylepis (Rosaceae) tree species: evidence for climatic adaptations. Functional Plant Biology 41: 301–312. doi: 10.1071/FP13210

Tuomisto, H., Zuquim, G. and Cárdenas, G. (2014) Species richness and diversity along edaphic and climatic gradients in Amazonia. Ecography 37: 1034-1046. doi: 10.1111/ecog.00770​​

Veijalainen, A., Sääksjärvi, I.E., Tuomisto, H., Broad, G.R., Bordera, S. & Jussila, R. (2014). Altitudinal trends in species richness and diversity of Mesoamerican parasitoid wasps (Hymenoptera: Ichneumonidae). Insect Conservation and Diversity 7: 496-507. doi: 10.1111/icad.12073​

Wang, F.-G., Barratt, S., Falcón, W., Fay, M.F., Lehtonen, S., Tuomisto, H., Xing, F.-W., Christenhusz, M.J.M. 2014. On the monophyly of subfamily Tectarioideae (Polypodiaceae) and the phylogenetic placement of some associated fern genera. Phytotaxa 164: 1-16. doi: 10.11646/phytotaxa.164.1.1 ​

​Zuquim, G., Tuomisto, H., Jones, M.M., Prado, J., Figueiredo, F.O.G., Moulatlet, G.M., Costa, F.R.C., Quesada, C.A. & Emilio, T. (2014) Predicting environmental gradients with fern species composition in Brazilian Amazonia. Journal of Vegetation Science 25:1195-1207.​ doi: 10.1111/jvs.12174​


Christenhusz, M.J.M., Jones, M., Lehtonen, S. 2013. Phylogenetic placement of the enigmatic fern genus Dracoglossum. American Fern Journal 103: 131-138. doi: 10.1640/0002-8444-103.2.131

Cintra, B. B. L., Schietti, J., Emillio, T., Martins, D., Moulatlet, G., Souza, P., Levis, C., Quesada, C. A., and Schöngart, J. 2013. Soil physical restrictions and hydrology regulate stand age and wood biomass turnover rates of Purus–Madeira interfluvial wetlands in Amazonia, Biogeosciences, 10, 7759-7774, doi:10.5194/bg-10-7759-2013.

Jones, M.M., Ferrier, S., Condit, R., Manion, G., Aguilar, S. & Pérez, R. 2013. Strong congruence in tree and fern community turnover in response to soil chemistry and climate in central Panama. Journal of Ecology. 101: 506-516. doi: 10.1111/1365-2745.12053

Lehtonen, S. 2013. Molecular evidence for complex hybrid origins of Lindsaea heterophylla (Lindsaeaceae). Indian Fern Journal. 30: 309-317. [ResearchGate]

Lehtonen, S., Tuomisto, H., Rouhan, G., Christenhusz, M.J.M. 2013. Taxonomic revision of the fern genus Osmolindsaea (Lindsaeaceae). Systematic Botany 38: 887-900. doi: 10.1600/036364413X674896

Lähteenoja, O., Flores, B., Nelson, B. 2013. Tropical Peat Accumulation in Central Amazonia. Wetlands, 33:495–503. doi: 10.1007/s13157-013-0406-0​

Matos-Maraví P, Peña C, Willmott K, Freitas A, Wahlberg N. 2013. Systematics and evolutionary history of butterflies in the “Taygetis clade”? (Nymphalidae: Satyrinae: Euptychiina): Towards a better understanding of Neotropical biogeography. Molecular Phylogenetics and Evolution, 66(1): 54-68. doi: 10.1016/j.ympev.2012.09.005

Mokany, K., Jones, M.M. & Harwood, T. 2013. Scaling pairwise b-diversity and a-diversity with area. Journal of Biogeography. doi: 10.1111/jbi.12175

Pansonato, M. P., Costa, F. R. C., de Castilho, C. V. and Zuquim, G., Carvalho, F.A. 2013, Spatial Scale or Amplitude of Predictors as Determinants of the Relative Importance of Environmental Factors to Plant Community Structure. Biotropica, 45: 299–307. doi: 10.1111/btp.12008

Salo, M., Puro, J.P. & Knuuti, K. 2013. Control and intimacy in the Amazonian realty: Newspaper rhetoric on forest sector reform in Peru. Land Use Policy, 35: 226-236. doi: 10.1016/j.landusepol.2013.05.022

Sirén, A., Tuomisto, H. & Navarrete, H. 2013. Mapping environmental variation in lowland Amazonian rainforests using remote sensing and floristic data. International Journal of Remote Sensing 34: 1561–1575. doi: 10.1080/01431161.2012.723148

Sirén, A., Cardenas, J.-C., Hambäck, P. & Parvinen, K. 2013. Distance friction and the cost of hunting in tropical forest. Land economics 89(3):558-574. doi: 10.3368/le.89.3.558​

Suominen, L., Ruokolainen, K., Tuomisto, H., Llerena, N., Higgins, M.A. 2013. Predicting soil properties from floristic composition in western Amazonian rain forests: performance of k-nearest neighbour estimation and weighted averaging calibration. Journal of Applied Ecology. 50(6), 1441–1449. doi: 10.1111/1365-2664.12131​​

Veijalainen, A., Sääksjärvi, I.E., Erwin, T., Goméz, I. & Longino, J. (2013) Subfamily composition of Ichneumonidae (Hymenoptera) from western Amazonia: insights into diversity of tropical parasitoid wasps. Insect Conservation and Diversity 6: 28-37. doi: 10.1111/j.1752-4598.2012.00185.x​​


Higgins, M.A., Asner, G.P., Perez, E., Elespuru, N., Tuomisto, H., Ruokolainen, K. & Alonso, A. 2012. Use of Landsat and SRTM data to detect broad-scale biodiversity patterns in northwestern Amazonia. Remote Sensing 4(8): 2401–2418. doi: 10.3390/rs4082401

Jomelli, V., Pavlova, I., Guin, O., Soliz-Gamboa, C., Contreras, A., ​Toivonen, J.M. and Zetterberg, P. 2012. Dendroclimatic potential of Polylepis pepeisubsericans and rugulosa in the Tropical Andes (Peru-Bolivia). Tree-Ring Research 68(2): 91–103​. doi:10.3959/2011-10.1​

Karger, D.N., Lehtonen, S., Amoroso, V.B. & Kessler, M. 2012. A new species of Lindsaea (Lindsaeaceae, Polypodiopsida) from Mt. Hamiguitan, Mindanao, Philippines. Phytotaxa 56: 15-20. [Abstract] [PDF (545 kB)]

Lehtonen, S., Tuomisto, H., Sääksjärvi, I.E. & Ruokolainen, K. 2012. On cladistics and human–ape relationships. Journal of Biogeography 39: 1743-1744. doi: 10.1111/j.1365-2699.2012.02759.x [PDF (106 kB)]

Lehtonen, S., Wahlberg, N. & Christenhusz, M.J.M. 2012. Diversification of lindsaeoid ferns and phylogenetic uncertainty of early polypod relationships. Botanical Journal of the Linnean Society 170: 489-503. DOI: 10.1111/j.1095-8339.2012.01312.x

Lähteenoja, O., Rojas Reátegui, Y., Räsänen, M., del Castillo Torres, D., Oinonen, M. & Page, S. 2012. The large Amazonian peatland carbon sink in the subsiding Pastaza-Marañón foreland basin, Peru. Global Change Biology 18: 164-178. doi: 10.1111/j.1365-2486.2011.02504.x

Pomara, L.Y., Ruokolainen, K., Tuomisto, H. & Young, K.R. 2012. Avian composition co-varies with floristic composition and soil nutrient concentration in Amazonian upland forests. Biotropica 44: 545-553. doi: 10.1111/j.1744-7429.2011.00851.x [PDF (348 kB)]

Sirén, A. H. 2012. Festival hunting by the kichwa people in the Ecuadorean Amazonia?. Journal of Ethnobiology 32(1):30-50. doi: 10.2993/0278-0771-32.1.30n

Tuomisto, H. 2012. An updated consumer’s guide to evenness and related indices. Oikos 121: 1203-1218. doi: 10.1111/j.1600-0706.2011.19897.x [PDF (758 kB)]

Tuomisto, H., Ruokolainen, L. & Ruokolainen, K. 2012. Modelling niche and neutral dynamics: on the ecological interpretation of variation partitioning results. Ecography 35:961-971. doi: 10.1111/j.1600-0587.2012.07339.x [PDF (647 kB)]

Tuomisto, H. & Ruokolainen, K. 2012. Comment on “Disentangling the drivers of β diversity along latitudinal and elevational gradients?. Science 335: 1573. doi: 10.1126/science.1216393

Zuquim, G., Tuomisto, H., Costa, F.R.C., Prado, J., Magnusson, W.E., Pimentel, T., Braga-Neto, R. & Figueiredo, F.O.G. 2012. Broad scale distribution of ferns and lycophytes along environmental gradients in central and northern Amazonia, Brazil. Biotropica 44: 752-762. doi: 10.1111/j.1744-7429.2012.00880.x [PDF (582 kB)]

Tack, A.J., Gripenberg, S. & Roslin, T. 2012. Cross-kingdom interactions matter: fungal-mediated interactions structure an insect community on oak. Ecology Letters 15: 177-185. doi: 10.1111/j.1461-0248.2011.01724.x

2011 (A-S)

Broad, G., Sääksjärvi, I.E., Veijalainen, A. & Notton, D. (2011) Three new genera of Banchinae (Hymenoptera: Ichneumonidae) from Central and South America. Journal of Natural History 45 (21-22): 1311-1329. [ResearchGate]

Castillo, C., Sääksjärvi, I.E., Bennett, A.M.R. & Broad, G.R. (2011) First record of Acaenitinae (Hymenoptera, Ichneumonidae) from South America with description of a new species and a key to the world species of Arotes Gravenhorst. ZooKeys 137: 77–88. doi: 10.3897/zookeys.137.1788  [PDF (4 MB)]

Cayuela, L., de la Cruz, M. & Ruokolainen, K. (2011) A method to incorporate the effect of taxonomic uncertainty on multivariate analyses of ecological data. Ecography 34: 94-102.  doi: 10.1111/j.1600-0587.2009.05899.x  [PDF (295 kB)]

Christenhusz, M.J.M., Baker, W., Chase, M.W., Fay, M.F., Lehtonen, S., van Ee, B., Von Konrat, M., Lumbsch, T., Renzaglia, K.S., Shaw, J., Williams, D.M. & Zhang, Z.-Q. (2011) The first anniversary of Phytotaxa in the International Year of Biodiversity. Phytotaxa 15: 1-8.  [PDF (119 kB)]

Hiedanpää, J., Kotilainen, J. & Salo, M. (2011) Unfolding the organised irresponsibility: Ecosystem approach and the quest for forest biodiversity in Finland, Peru, and Russia. Forest Policy and Economics 13: 159-165. doi: 10.1016/j.forpol.2010.11.007  [PDF (344 kB)]

Higgins, M.A., Ruokolainen, K., Tuomisto, H., Llerena, N., Cardenas, G., Phillips, O.L., Vásquez, R. & Räsänen, M. (2011) Geological control of floristic composition in Amazonian forests. Journal of Biogeography 38: 2136-2149. doi: 10.1111/j.1365-2699.2011.02585.x  [PDF (2.1 MB)]

Kalliola, R. & Flores Tenorio, P. (2011). Brazil nut harvesting in Peruvian Amazonia from the perspective of ecosystem services. Fennia 189(2), 1-13.[Fennia]

Jones, M.M., Szyska, B. & Kessler, M. (2011) Microhabitat partitioning promotes plant diversity in a tropical montane forest. Global Ecology and Biogeography 20: 558-569.  doi: 10.1111/j.1466-8238.2010.00627.x  [PDF (451 kB)]

Lehtonen, S. (2011) Towards resolving the complete fern tree of life. PLoS ONE 6(10): e24851. doi: 10.1371/journal.pone.0024851  [PDF (246 kB)]

Lehtonen, S. (2011) Can sensitivity analysis help to detect long-branch attraction? Molecular Phylogenetics and Evolution 61: 899-903. doi:10.1016/j.ympev.2011.08.007  [PDF (422 kB)]

Lehtonen, S. (2011) A new species of Odontosoria (Lindsaeaceae) from New Guinea. Blumea 56: 216-217. doi: 10.3767/000651911X604142  [PDF (328 kB)]

Lehtonen, S., Sääksjärvi, I.E., Ruokolainen, K. & Tuomisto, H. (2011) Who is the closest extant cousin of humans? Total-evidence approach to hominid phylogenetics via simultaneous optimization. Journal of Biogeography 38: 805-808.  doi: 10.1111/j.1365-2699.2010.02354.x  [PDF (180 kB)]

Lähteenoja, O. & Page, S.E. (2011) High diversity of tropical peatland ecosystem types in the Pastaza-Marañón basin, Peruvian Amazonia. Journal of Geophysical Research, Biogeosciences 116: G02025.  doi: 10.1029/2010JG001508​

Puhakka, L., Salo, M. & Sääksjärvi, I.E. (2011) Bird diversity, birdwatching tourism and conservation in Peru: A geographic analysis. PLoS ONE 6(11): e26786. doi: 10.1371/journal.pone.0026786

Salo, M., Helle, S. & Toivonen, T. (2011) Allocating logging rights in Peruvian Amazonia – Does it matter to be local? PLoS ONE 6(5): e19704. doi: 10.1371/journal.pone.0019704  [PDF (381 kB)]

2011 (T-Z)

Toivonen, J.M., Kessler, M., Ruokolainen, K. & Hertel, D. (2011) Accessibility predicts structural variation of Andean Polylepis forests. Biodiversity and Conservation 20: 1789-1802.  doi: 10.1007/s10531-011-0061-9  [PDF (377 kB)]

Tuomisto, H. (2011) Commentary: do we have a consistent terminology for species diversity? Yes, if we choose to use it. Oecologia 167: 903-911. doi: 10.1007/s00442-011-2128-4 [read-only PDF​]

Veijalainen, A., Broad, G.R., Wahlberg, N., Longino, J.T. & Sääksjärvi, I.E. (2011) DNA barcoding and morphology reveal two common species in one: Pimpla molesta stat. rev. separated from P. croceipes (Hymenoptera: Ichneumonidae). ZooKeys 124: 59-70. doi: 10.3897/zookeys.124.1780  [PDF (2.3 MB)]


Bordera, S., González-Moreno, A., Sääksjärvi, I.E. & Veijalainen, A. 2010. Three new large-bodied species of Labena (Hymenoptera: Ichneumonidae: Labeninae), with a key to the Neotropical striata species group. The Canadian Entomologist 142: 103-119. DOI:

Broad, G., Sääksjärvi, I.E. & Palacio, E. 2010. A new species of Umanella Gauld (Hymenoptera: Ichneumonidae) from Ecuador. ZooKeys 35: 77-90. doi: 10.3897/zookeys.35.326

Christenhusz, M.J.M. 2010. Danaea (Marattiaceae) revisited: biodiversity, a new classification and ten new species of a neotropical fern genus. Botanical Journal of the Linnean Society 163: 360-385. DOI: 10.1111/j.1095-8339.2010.01061.x

Lehtonen, S. & Christenhusz, M.J.M. 2010. Historical herbarium specimens in plant molecular systematics – an example from the fern genus Lindsaea (Lindsaeaceae). Biologia (Bratislava) 65: 204-208.  DOI: 10.2478/s11756-010-0008-8

Lehtonen, S. & Gordon, E. 2010. Actualización del conocimiento de los géneros Echinodorus y Helanthium (Alismataceae) en Venezuela. Acta Botanica Venezuelica 33: 249-272. [ResearchGate] [SciELO]

Lehtonen, S., Tuomisto, H., Rouhan, G. & Christenhusz, M.J.M. 2010. Phylogenetics and classification of the pantropical fern family Lindsaeaceae. Botanical Journal of the Linnean Society 163: 305-359.  DOI: 10.1111/j.1095-8339.2010.01063.x

Palacio, E., Broad, G., Sääksjärvi, I.E. & Veijalainen, A. 2010. Western Amazonian Ticapimpla  (Hymenoptera: Ichneumonidae; Pimplinae): four new species from Colombia, Ecuador and Peru, with a key to species of the genus. Psyche 2010: Article ID 161595, 8 pp.

Schmidt-Lebuhn, A., Fuchs, J., Hertel, D., Hirsch, H., Toivonen, J.M. and Kessler, M. 2010. An Andean radiation: Polyploidy in the tree genus Polylepis (Rosaceae, Sanguisorbeae). Plant Biology 12(6): 917–926. doi:10.1111/j.1438-8677.2009.00297.x

Tuomisto, H. 2010. A diversity of beta diversities: straightening up a concept gone awry. Part 1. Defining beta diversity as a function of alpha and gamma diversity. Ecography 33: 2-22.  doi: 10.1111/j.1600-0587.2009.05880.x

Tuomisto, H. 2010. A diversity of beta diversities: straightening up a concept gone awry. Part 2. Quantifying beta diversity and related phenomena. Ecography 33: 23-45.  doi: 10.1111/j.1600-0587.2009.06148.x

Tuomisto, H. 2010. A consistent terminology for quantifying species diversity? Yes, it does exist. Oecologia 164: 853-860.  DOI: 10.1007/s00442-010-1812-0  [read-only PDF​]

Wahl, D.B., Bennet, A.M.R., Broad, G.R., Sääksjärvi, I.E. & Zúñica Ramírez, R.J. 2010. Obituary. Ian David Gauld 25 May 1947 – 12 January 2009. Journal of Hymenoptera Research 19: 189-198.


Christenhusz, M.J.M., Schwartsburd, P.B. & Labiak, P.H. (2009) Hymenophyllum filmenofilicum (Hymenophyllaceae, Pteridophyta): a new epipetric filmy fern from Paraná, southern Brazil. Kew Bulletin 64: 175-178. doi: 10.1007/s12225-008-9088-9

Gómez, I.C., Sääksjärvi, I.E., Veijalainen, A. & Broad, G.R. (2009) Two new species of Xanthopimpla (Hymenoptera, Ichneumonidae) from Western Amazonia, with a revised key to the Neotropical species of the genus. ZooKeys 14: 55-65. doi: 10.3897/zookeys.14.193

Lehtonen, S. (2009) Systematics of the Alismataceae – a morphological evaluation. Aquatic Botany 91: 279-290. doi: 10.1016/j.aquabot.2009.08.002

Lehtonen, S. (2009) On the origin of Echinodorus grandiflorus (Alismataceae) in Florida (“E. floridanus”), and its estimated potential as an invasive species. Hydrobiologia 635: 107-112. doi: 10.1007/s10750-009-9903-9

Lehtonen, S., Myllys, L., Huttunen, S. (2009) Phylogenetic analysis of non-coding plastid DNA in the presence of short inversions. Phytotaxa 1: 3-20. [Volume page]

Lähteenoja, O., Ruokolainen, K., Schulman, L. & Alvarez, J. (2009) Amazonian floodplains harbour minerotrophic and ombrotrophic peatlands. Catena 79: 140-145. doi:10.1016/j.catena.2009.06.006

Lähteenoja, O., Ruokolainen, K., Schulman, L. & Oinonen, M. (2009) Amazonian peatlands: an ignored C sink and potential source. Global Change Biology 15: 2311-2320. doi: 10.1111/j.1365-2486.2009.01920.x

Rodríguez-Berrío, A., Bordera, S. & Sääksjärvi, I.E. (2009) Checklist of Peruvian Ichneumonidae (Hymenoptera). Zootaxa 2303: 1-44. DOI: 10.5281/zenodo.191774

Salo, M. & Toivonen, T. (2009) Tropical Timber Rush in Peruvian Amazonia: Spatial Allocation of Forest Concessions in an Uninventoried Frontier. Environmental Management 44: 609-623.  DOI 10.1007/s00267-009-9343-3.

Sirén, A.H. & Brondizio, E.S. (2009) Detecting subtle land use change in tropical forests. Applied Geography 29(2):201-211. doi:10.1016/j.apgeog.2008.08.006


Christenhusz, M.J.M. (2008) Florula of Lime Cay – an account of the vascular plants on a small Jamaican islet. Schlechtendalia 17: 1-25. [PDF]

Christenhusz, M.J.M. & Toivonen, T.K. (2008) Giants invading the tropics: The oriental vessel fern, Angiopteris evecta (Marattiaceae). Biological Invasions 10: 1215-1228. doi: 10.1007/s10530-007-9197-7 [PDF]

Christenhusz, M.J.M., Tuomisto, H., Metzgar, J.S. & Pryer, K.M. (2008) Evolutionary relationships within the Neotropical, eusporangiate fern genus Danaea (Marattiaceae). Molecular Phylogenetics and Evolution 46: 34-48.  doi: 10.1016/j.ympev.2007.09.015

Hovikoski, J., Räsänen, M., Gingras, M., Ranzi, A. & Melo, J. (2008) Tidal and seasonal controls in the formation of Late Miocene inclined heterolithic stratification deposits, western Amazonian foreland basin. Sedimentology 55: 499-530.  doi: 10.1111/j.1365-3091.2007.00907.x

Jones, M.M., Tuomisto, H., Borcard, D., Legendre, P. Clark, D.B. & Olivas, P.C. (2008) Explaining variation in tropical plant community composition: influence of environmental and spatial data quality. Oecologia 155: 593 604.  DOI: 10.1007/s00442-007-0923-8

Jones, M.M., Tuomisto, H. & Olivas, P.C. (2008) Differences in the degree of environmental control on large and small tropical plants: just a sampling effect? Journal of Ecology 96: 367–377.  doi: 10.1111/j.1365-2745.2007.01340.x

Kalliola, R., Toivonen, T., Miyakawa, V. & Mavila, M. 2008. Open access to information bridges science and development in Amazonia: lessons of the SIAMAZONIA service. Environmental Research Letters 3: 034004.  doi: 10.1088/1748-9326/3/3/034004.

Lehtonen, S. (2008) Phylogeny estimation and alignment via POY versus Clustal + PAUP*: A response to Ogden and Rosenberg (2007). Systematic Biology 57: 653-657.  DOI: 10.1080/10635150802302476

Lehtonen, S. (2008) An integrative approach to species delimitation in Echinodorus (Alismataceae) and the description of two new species. Kew Bulletin 525-563. [JSTOR] [PDF in ResearchGate]

Lehtonen, S. & Myllys, L. (2008) Cladistic analysis of Echinodorus (Alismataceae): simultaneous analysis of molecular and morphological data. Cladistics 24: 218-239. doi: 10.1111/j.1096-0031.2007.00177.x

Schulman, L. (2008) Adelobotrys atlantica (Melastomataceae: Merianieae): the first species of Adelobotrys from Brazil’s Mata Atlântica. Kew Bulletin 63: 457-461.  DOI: 10.1007/s12225-008-9058-2

Silva Brandão, K.L., Wahlberg, N., Francini, R.B., Azeredo-Espin, A.M.L., Brown Jr, K.S., Paluch, M., Lees, D.C. & Freitas, A.V.L. (2008) Phylogenetic relationships of butterflies of the tribe Acraeini (Lepidoptera, Nymphalidae, Heliconiinae) and the evolution of host plant use. Molecular Phylogenetics and Evolution 46: 515-531. doi: 10.1016/j.ympev.2007.11.024

Sirén, A. H. & Machoa, J. D. (2008) Fish, wildlife, and human nutrition in tropical forests: A fat gap? Interciencia 33(3): 186-193. [PDF in ResearcgGate]

Thessler, S., Sesnie, S., Ramos Bendaña, Z.S., Ruokolainen, K., Tomppo, E. & Finegan, B. (2008) Using k-nn and discriminant analyses to classify rain forest types in a Landsat TM image over northern Costa Rica. Remote Sensing of Environment 112: 2485-2494. doi: 10.1016/j.rse.2007.11.015

Tuomisto, H. & Ruokolainen, K. (2008) Analyzing or explaining beta diversity? Reply. Ecology 89: 3244-3256.  doi:10.1890/08-1247.1

2007 (A-S)

Brown Jr., K.S., Freitas, A.V.L., Wahlberg, N., von Schoultz, B., Saura, A.O. & Saura, A. (2007) Chromosomal evolution in the South American Nymphalidae. Hereditas 144: 137-148. doi: 10.1111/j.2007.0018-0661.02015.x

Cárdenas, G.G., Halme, K.J. & Tuomisto, H. (2007) Riqueza y distribución ecológica de especies de pteridofitas en la zona del Río Yavarí-Mirín, Amazonía peruana. Biotropica 39: 637-646.  doi: 10.1111/j.1744-7429.2007.00308.x

Christenhusz, M.J.M. (2007) Dracoglossum, a new Neotropical fern genus (Pteridophyta). Thaiszia Journal of Botany 17: 1-10. [PDF]

Christenhusz, M.J.M. (2007) Two new epitypes in Danaea (Marattiaceae, Pteridophyta) selected from original historical collections in Paris. Candollea 62:221-230. [ ResearchGate]

Halme, K.J. & Bodmer, R.E. (2007) Correspondence between scientific and traditional ecological knowledge: rain forest classification by the non-indigenous ribereños in Peruvian Amazonia. Biodiversity and Conservation 16: 1785-1801. doi: 10.1007/s10531-006-9071-4

Hovikoski, J., Gingras, M., Räsänen, M., Rebata, L., Guerrero, J., Ranzi, A., Melo, J., Romero, L., Nuñez del Prado, H., Jaimes, F. & Lopez, S. (2007) The nature of Miocene Amazonian epicontinental embayment: High-frequency shifts of the low-gradient coastline. Geological Society of America Bulletin 119: 1506-1520.  DOI: 10.1130/B26149.1

Hovikoski, J., Räsänen, M., Gingras, M., Lopez, S., Ranzi, A., and Melo, J. (2007) Palaeogeographical implications of the Miocene Quendeque Formation (Bolivia) and tidally-influenced strata in the southwestern Amazonia. Palaeogeography, Palaeoclimatology, Palaeoecology 243: 23-41. doi: 10.1016/j.palaeo.2006.07.013

Jones, M.M., Olivas Rojas, P., Tuomisto, H. & Clark, D.B. (2007) Environmental and neighbourhood effects on tree fern distributions in a neotropical lowland rain forest. Journal of Vegetation Science 18: 13-24.  DOI: 10.1111/j.1654-1103.2007.tb02511.x

Lehtonen, S. & Tuomisto, H. (2007) Ecological and genetic notes on Lindsaea digitata (Lindsaeaceae), a new fern species from western Amazonia. Nordic Journal of Botany 25: 145-151.  doi: 10.1111/j.2008.0107-055X.00109.x

Macía, M.J., Ruokolainen, K., Tuomisto, H., Quisbert, J. & Cala, V. (2007) Congruence between floristic patterns of trees and lianas in a southwest Amazonian rain forest. Ecography 30: 561-577.  doi: 10.1111/j.2007.0906-7590.05124.x

Palacio, E., Sääksjärvi, I.E. & Vahtera, V. (2007) Lamnatibia, a new genus of the Polysphincta group of genera from Colombia (Hymenoptera: Ichneumonidae; Pimplinae). Zootaxa 1431: 55-63. doi: 10.11646/zootaxa.1431.1.3

Ruokolainen, K., Tuomisto, H., Macía, M.J., Higgins, M.A. & Yli-Halla, M. (2007) Are floristic and edaphic patterns in Amazonian rain forests congruent for trees, pteridophytes and Melastomataceae? Journal of Tropical Ecology 23: 13-25.  doi: 10.1017/S0266467406003889

Salo, M. & Pyhälä, A. (2007) Exploring the gap between conservation science and protected area establishment in the Allpahuayo-Mishana National Reserve (Peruvian Amazonia). Environmental Conservation 34: 23-32. doi: 10.1017/S0376892907003700

Schulman, L., Ruokolainen, K., Junikka, L., Sääksjärvi, I. E., Salo, M., Juvonen, S.-K., Salo, J. & Higgins, M. (2007) Amazonian biodiversity and protected areas: do they meet? Biodiversity and Conservation 16: 3011-3051. doi: 10.1007/s10531-007-9158-6

Schulman, L., Toivonen, T. & Ruokolainen, K. (2007) Analysing botanical collecting effort in Amazonia and correcting for it in species range estimation. Journal of Biogeography 34: 1388-1399. doi: 10.1111/j.1365-2699.2007.01716.x

Sirén, A. (2007) Population growth and land-use intensification in a subsistence-based indigenous community in the Amazon. Human Ecology 35: 669-680.  DOI: 10.1007/s10745-006-9089-y

2007 (T-Z)

Toivonen, T., Mäki, S. & Kalliola, R. (2007) The riverscape of Western Amazonia – a quantitative approach to the fluvial biogeography of the region. Journal of Biogeography. 34: 1374-1387. doi: 10.1111/j.1365-2699.2007.01741.x

Tuomisto, H. (2007) Interpreting the biogeography of South America. Journal of Biogeography 34: 1294-1295.  doi: 10.1111/j.1365-2699.2007.01699.x

Wahlberg, N. & Freitas, A.V.L. (2007) Colonization of and radiation in South America by butterflies in the subtribe Phyciodina (Lepidoptera: Nymphalidae). Molecular Phylogenetics and Evolution 44: 1257-1272. doi: 10.1016/j.ympev.2007.04.012

2006 (A-S)

Anderson, L.C., Hartman, J.H. & Wesselingh, F. (2006) Close evolutionary affinities between freshwater corbulid bivalves from the Neogene of western Amazonia and Paleogene of the northern Great Plains, USA. Journal of South American Earth Sciences 21: 28-48. doi: 10.1016/j.jsames.2005.07.008

Christenhusz, M.J.M. (2006) Three new species of Danaea (Marattiaceae) from French Guiana and the Lesser Antilles. Annales Botanici Fennici 43: 212-219. [JSTOR]

Christenhusz, M.J.M. & Tuomisto, H. (2006) Five new species of Danaea (Marattiaceae) from Peru and a new status for D. elliptica. Kew Bulletin 61: 17-30. [JSTOR]

Fine, P.V.A., Miller, Z.J., Mesones, I., Irazuzta, S., Appel, H.M., Henry, M., Stevens, H., Sääksjärvi, I.E., Schultz, J.C. & Coley, P.D. (2006) The growth-defense tradeoff and habitat specialization by plants in Amazonian forests. Ecology 87: S150-S162. [Wiley]

Jones, M.M., Tuomisto, H., Clark, D.B. & Olivas Rojas, P. (2006) Effects of mesoscale environmental heterogeneity and dispersal limitation on floristic variation in rain forest ferns. Journal of Ecology 94: 181-195.  doi: 10.1111/j.1365-2745.2005.01071.x

Kaandorp, R.J.G., Wesselingh, F.P. & Vonhof, H.B. (2006) Ecological implications from geochemical records of Miocene Western Amazonian bivalves. Journal of South American Earth Sciences 21: 54-74. doi: 10.1016/j.jsames.2005.07.012

Lehtonen, S. (2006) Phylogenetics of Echinodorus (Alismataceae) based on morphological data. Botanical Journal of the Linnean Society 291-305. doi: 10.1111/j.1095-8339.2006.00478.x

Poulsen, A.D., Tuomisto, H. & Balslev, H. (2006) Edaphic and floristic variation within a 1-ha plot of lowland Amazonian rain forest. Biotropica 38: 468-478. doi: 10.1111/j.1744-7429.2006.00168.x

Rebata-H., L.A., Gingras, M.K., Räsänen, M.E. & Barberi, M. (2006) Tidal-channel deposits on a delta plain from the Upper Miocene Nauta Formation, Marañón Foreland Sub-basin, Peru. Sedimentology 53: 971-1013. doi: 10.1111/j.1365-3091.2006.00795.x

Rebata-H., L.A., Räsänen, M.E., Gingras, M.K., Vieira Jr., V., Barberi, M., Irion, G. (2006) Sedimentology and ichnology of tide-influenced Late Miocene successions in Western Amazonia: The gradational transition between the Pebas and Nauta formations. Journal of South American Earth Sciences 21: 96-119. doi: 10.1016/j.jsames.2005.07.011

Sirén, A.H. (2006). Natural resources in indigenous peoples’ land in Amazonia: A tragedy of the commons? International Journal of Sustainable Development and World Ecology 13: 363-374. doi: 10.1080/13504500609469686

Sirén, A.H., Cardenas, J.C. & Machoa, J.D. (2006). The relation between income and hunting in tropical forests: An economic experiment in the field. Ecology and Society 11(1): 44. [online]

Sääksjärvi, I.E., Ruokolainen, K., Tuomisto, H., Haataja, S., Fine, P., Cárdenas, G., Mesones, I. & Vargas, V. (2006) Comparing composition and diversity of parasitoid wasps and plants in an Amazonian rain forest mosaic. Journal of Tropical Ecology 22: 167-176. doi: 10.1017/S0266467405002993

2006 (T-Z)

Toivonen, T., Kalliola, R., Ruokolainen, K. & Malik, R.N. (2006) Across-path DN gradient in Landsat TM imagery of Amazonian forests: a challenge for image interpretation and mosaicking. Remote Sensing of Environment 100: 550-562. doi: 10.1016/j.rse.2005.11.006

Tuomisto, H. (2006) Edaphic niche differentiation among Polybotrya ferns in Western Amazonia: implications for coexistence and speciation. Ecography 29: 273-284. doi: 10.1111/j.2006.0906-7590.04390.x

Tuomisto, H. & Ruokolainen, K. (2006) Analyzing or explaining beta diversity? Understanding the targets of different methods of analysis. Ecology 87: 2697-2708. [Wiley]

Wesselingh, F.P. (2006) Miocene long-lived lake Pebas as a stage of mollusc radiations, with implications for landscape evolution in western Amazonia. Scripta Geologica 133: 1-17. [PDF]

Wesselingh, F.P. (2006) Molluscs from the Miocene Pebas Formation of Peruvian and Colombian Amazonia. Scripta Geologica 133: 19-290. [PDF]

Wesselingh, F.P. (2006) Evolutionary ecology of the Pachydontinae (Bivalvia, Corbulidae) in the Pebas lake/wetland system (Miocene, western Amazonia). Scripta Geologica 133: 395-417. [PDF]

Wesselingh, F.P., Guerrero, J., Räsänen, M., Romero Pitmann, L. & Vonhof, H. (2006) Landscape evolution and depositional processes in the Miocene Amazonian Pebas lake/wetland system: evidence from exploratory boreholes in northeastern Peru. Scripta Geologica 133: 323-361. [PDF]

Wesselingh, F.P., Hoorn, M.C., Guerrero, J., Räsänen, M., Romero Pittmann L. & Salo, J. (2006) The stratigraphy and regional structure of Miocene deposits in western Amazonia (Peru, Colombia and Brazil), with implications for Late Neogene landscape evolution. Scripta Geologica 133: 291-322. [PDF]

Wesselingh, F.P., Kaandorp, R.J.G., Vonhof, H.B., Räsänen, M.E., Renema, W. & Gingras, M (2006) The nature of aquatic landscapes in the Miocene of western Amazonia: an integrated palaeontological and geochemical approach. Scripta Geologica 133: 363-393. [PDF]

Wesselingh, F.P. & Macsotay, O. (2006) A Miocene molluscan faunule from Caucagua (Miranda State, Venezuela), with the description of a new species of Tryonia (Mollusca, Gastropoda). Cainozoic Research 4: 61-65. [PDF]

Wesselingh, F.P. & Macsotay, O. (2006) Pachydon hettneri (Anderson, 1928) as indicator for Caribbean-Amazonian lowland connections during the Early-Middle Miocene. Journal of South American Earth Sciences 21: 49-53. doi: 10.1016/j.jsames.2005.07.013

Wesselingh, F.P., Ranzi, A. & Räsänen, M.E. (2006) Miocene freshwater Mollusca from western Brazilian Amazonia. Scripta Geologica 133: 419-437. [PDF]

Wesselingh, F.P. & Salo, J.A. (2006) Miocene perspective on the evolution of the Amazonian biota. Scripta Geologica 133: 439-458. [PDF]


Christenhusz, M.J.M. & Tuomisto, H. (2005) Some notes on the taxonomy, biogeography and ecology of Danaea (Marattiaceae). Fern Gazette 17: 217-222. [PDF]

Hovikoski, J., Räsänen, M., Gingras, M., Roddaz, M., Brusset, S., Hermoza, W., Romero Pittman, L. & Lertola, K. (2005) Miocene semidiurnal tidal rhythmites in Madre de Dios, Peru. Geology 33: 177-180. doi:10.1130/G21102.1

Kaandorp, R.J.G., Vonhof, H.B., Wesselingh, F.P., Romero Pittman, L., Kroon, D., van Hinte, J.E. (2005) Seasonal Amazonian rainfall variation in the Miocene Climate Optimum. Palaeogeography, Palaeoclimatology, Palaeoecology 221: 1- 6. doi: 10.1016/j.palaeo.2004.12.024

Lehtonen, S. (2005) Echinodorus berteroi (Sprengel) Fasset (Alismataceae) from western Paraguay. Rojasiana 6(2): 143-145. [PDF]

Lehtonen, S. & Rodríguez Arévalo, L.A. (2005) Notes on aquarium plant production in Peruvian Amazonia. Ethnobotany Research and Applications 3: 209-214. DOI: 10.17348/era.3.0.209-214

Rajaniemi, S., Tomppo, E., Ruokolainen, K. & Tuomisto, H. (2005) Estimating and mapping pteridophyte and Melastomataceae species richness in western Amazonian rainforests. International Journal of Remote Sensing 26: 475-493. doi: 10.1080/01431160512331316405

Salovaara, K., Thessler, S., Malik, R.N. & Tuomisto, H. (2005) Classification of Amazonian primary rain forest vegetation using Landsat ETM+ satellite imagery. Remote Sensing of Environment 97: 39-51. doi: 10.1016/j.rse.2005.04.013

Smith, A.R., León, B., Tuomisto, H., van der Werff, H., Moran, R.C., Lehnert, M. & Kessler, M. (2005). New records of pteridophytes for the Flora of Peru. Sida, Contributions to Botany 21: 2321-2342. [PDF]

Thessler, S., Ruokolainen, K., Tuomisto, H. & Tomppo, E. (2005) Mapping gradual landscape-scale floristic changes in Amazonian primary rain forests by combining ordination and remote sensing. Global Ecology and Biogeography 14: 315-325. doi: 10.1111/j.1466-822X.2005.00158.x

Tuomisto, H. & Ruokolainen, K. (2005) Environmental heterogeneity and the diversity of pteridophytes and Melastomataceae in western Amazonia. Biologiske Skrifter 55: 37-56.  [online]


Borcard, D., Legendre, P., Avois-Jacquet, C. & Tuomisto, H. (2004) Dissecting the spatial structure of ecological data at multiple scales. Ecology 85: 1826-1832. doi: 10.1890/03-3111

Higgins, M.A. & Ruokolainen, K. (2004) Rapid tropical forest inventory: a comparison of techniques based on inventory data from western Amazonia. Conservation Biology 18: 799-811. doi: 10.1111/j.1523-1739.2004.00235.x

Miyakawa, V., Kalliola, R., Mena, J.-L. & Mattos, J. (2004). Sistema de información de la diversidad biológica y ambiental de la Amazonía Peruana. Seria BIODAMAZ- IIAP, Documento técnico 2: 1-55. [PDF]

Romo, M., Tuomisto, H. & Loiselle, B.A. (2004) On the density-dependence of seed predation in Dipteryx micrantha, a bat-dispersed rain forest tree. Oecologia 140: 76-85.  doi: 10.1007/s00442-004-1502-x  [read-only PDF​]

Ruokolainen, K., Rodríguez, J.-J., Tuomisto, H., Soini, P., Cárdenas Ramírez, G., de la Cruz Abarca, A., Llerena Martínez, N., Rivera Gonzales, C., Salazar Zapata, E., Vargas Paredes, V.H. & Juvonen, S.-K. (2004) Guía para estudiar patrones de distribución de especies amazónicas. Serie IIAP-BIODAMAZ, Documento Técnico no. 6: 1-89. [PDF]

Salovaara, K.J., Cárdenas, G.G. & Tuomisto, H. (2004) Forest classification in an Amazonian rainforest landscape using pteridophytes as indicator species. Ecography 27: 689-700.  doi: 10.1111/j.0906-7590.2004.03958.x

Schulman, L., Koivunen, H. & Ruokolainen, K. (2004) Spatio-ecological niche segregation of two sympatric species of Clidemia (Melastomataceae) in western Amazonian non-flooded rainforests. Folia Geobotanica 39: 143-160. doi: 10.1007/BF02805243

Sääksjärvi, I.E., Gauld, I.D. & Salo, J. (2004) Phylogenetic evaluation of the tropical Camptotypus genus-group (Hymenoptera: Ichneumonidae), with a key to the world genera. Journal of Natural History 38: 2759-2778. doi: 10.1080/0022293032000140949

Sääksjärvi, I.E., Haataja, S., Neuvonen, S., Gauld, I.D., Jussila, R., Salo, J. & Marmol Burgos, A. (2004) High local species richness of parasitic wasps (Hymenoptera: Ichneumonidae; Pimplinae and Rhyssinae) from the lowland rain forests of Peruvian Amazonia. Ecological Entomology 29: 735-743. DOI: 10.1111/j.0307-6946.2004.00656.x

Vormisto, J., Svenning, J.-C., Hall, P. & Balslev, H. (2004) Diversity and dominance in palm (Arecaceae) communities in terra firme forests in the western Amazon basin. Journal of Ecology 92: 577-588. doi: 10.1111/j.0022-0477.2004.00904.x

Vormisto, J., Tuomisto, H. & Oksanen, J. (2004) Palm distribution patterns in Amazonian rainforests: what is the role of topographic variation? Journal of Vegetation Science 15: 485-494.  doi: 10.1111/j.1654-1103.2004.tb02287.x​


Ahuite, M., García, R. & Ruokolainen, K. (2003). Preferencia de cuatro especies de plantas al drenaje y la altura en los bosques sobre arena blanca en la Zona Reservada Allpahuayo-Mishana. Folia Amazónica 14 (1-2): 149-158. doi: 10.24841/fa.v14i1.164

Bendayán, L., Sanjurjo, J., Kalliola, R. & Rodríquez, F. (2003) Experiencia de la tecnología de percepción remota para la e laboración del mosaico de imagines de satellite Landsat TM en la selva baja de la Amazonía Peruana. Folia Amazónica 14(1) 73-86. doi: 10.24841/fa.v14i1.150

Llerena, N., García, R., Monteagudo, A., Rodríguez, C., Soplin, H., Tuesta, P. & Ruokolainen, K. (2003). Composición florística de melastomatáceas y su relación con el area basal. Folia Amazónica 14 (1-2): 117-124. doi: 10.24841/fa.v14i1.157

Miyakawa, V., Kalliola, R. & Mena, J.L. (2003) Integración de información amazónica: sistema de información de la diversidad biológica y ambiental de la Amazonía Peruana. Folia Amazónica 14(1) 87-​98. doi: 10.24841/fa.v14i1.163

Schulman, L. (2003) A geo-ecologically specialised new species of Adelobotrys (Melastomataceae: Merianieae) from Peruvian Amazonia. Kew Bulletin 58: 459-466. [JSTOR]

Schulman, L. (2003) Nature conservation in Amazonia: the role of biological theory in reserve delimitation (Conservación de la naturaleza en la Amazonía: El rol de la teoría biológica en la delimitación de las reservas. Lyonia 5(1): 91-100. [PDF]

Schulman, L. & Hyvönen, J. (2003) A cladistic analysis of Adelobotrys (Melastomataceae) based on morphology, with notes on generic limits within the tribe Merianieae. Systematic Botany 28: 738-756. [online]

Sääksjärvi, I.E., Palacio, E., Gauld, I.D., Jussila, R. & Salo, J. (2003) A new genus and six new species of the tropical Camptotypus genus-group (Hymenoptera: Ichneumonidae; Pimplinae) from northern South America. Zootaxa 197: 1-18. doi: 10.11646/zootaxa.197.1.1

Tuomisto, H., Poulsen, A.D., Ruokolainen, K., Moran, R.C., Quintana, C., Celi, J. & Cañas, G. (2003) Linking floristic patterns with soil heterogeneity and satellite imagery in Ecuadorian Amazonia. Ecological Applications 13: 352-371. [ESA]

Tuomisto, H., Ruokolainen, K., Aguilar, M. & Sarmiento, A. (2003) Floristic patterns along a 43-km long transect in an Amazonian rain forest. Journal of Ecology 91: 743-756. doi: 10.1046/j.1365-2745.2003.00802.x

Tuomisto, H., Ruokolainen, K. & Yli-Halla, M. (2003) Dispersal, environment, and floristic variation of western Amazonian forests. Science 299: 241-244. DOI: 10.1126/science.1078037


Christenhusz, M. J. M. (2002) Notes on Euphorbia and Pedilanthus (Euphorbiaceae) in the Guianas. Harvard Papers in Botany 7 (1): 1-6. [JSTOR]

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Gingras, M.K., Räsänen, M.E., Pemberton, G., Romero, L. (2002) Ichnology and sedimentology reveal depositional characteristics of bay margin parasequences in the Miocene Amazonian Foreland Basin. J. Sediment. Res. 72(6), 871-883. doi: 10.1306/052002720871

Ruokolainen, K. & Tuomisto, H. (2002). Beta-diversity in tropical forests. Science 297: 1439a. DOI: 10.1126/science.297.5586.1439a

Ruokolainen, K., Tuomisto, H., Vormisto, J. & Pitman, N. (2002). Two biases in estimating range sizes of Amazonian plant species. J. Trop. Ecol. 18: 935-942. doi: 10.1017/S0266467402002614

Toivonen, T., Kalliola, R. & Driesprong, A. (2002). Western Amazonian GIS, Creation process of Landsat TM image mosaic and Internet map service.

Toivonen, T. Kalliola, R. & Ruokolainen, K. (2002) Gradient phenomenon in Amazonian Landsat TM images: true or illusion? Proceedings of the Second Workshop of the EARSel Special Interest Group on Remote Sensing for Developing Countries, Bonn, Germany September 18-20, 2002: 43-50.

Toivonen, T. & Mäki, S. (2002). Accessibility of lowland rain forest of Western Amazonia via rivers: an analysis using Landsat TM mosaic and GIS. In Ehlers, M. (ed.) Remote sensing for environmental monitoring, GIS applications, and geology. Proceedings of SPIE, vol. 4545:145-154. doi: 10.1117/12.453667

Tuomisto, H., Ruokolainen, K., Poulsen, A.D., Moran, R.C., Quintana, C., Cañas, G. & Celi, J. (2002) Distribution and diversity of pteridophytes and Melastomataceae along edaphic gradients in Yasuni National Park, Ecuadorian Amazonia. Biotropica 34: 516-533. doi: 10.1111/j.1744-7429.2002.tb00571.x

Vormisto, J. (2002). Making and marketing chambira hammocks and bags in the village of Brillo Nuevo, northeastern Peru. Economic Botany 56(1):27-40. [Springer]

Vormisto, J. (2002). Palms as rainforest resources: how evenly are they distributed in Peruvian Amazonia? Biodiversity and Conservation 11:1025-1045 doi: 10.1023/A:1015873223350

Wesselingh, F.P., Räsänen, M.E., Irion, G., Vonhof, H.B., Kaandorp, R., Renema, W., Romero Pittman, L., Gingras, M. (2002). Lake Pebas: A palaeoecological reconstruction of a Miocene, long-lived lake complex in western Amazonia. Cainozoic Res. 1(1-2) (2001), 35-81. []



Colinvaux, P.A., Irion, G., Räsänen, M.E., Bush, M.B. & Nunes de Mello, J.A.S. (2001). A paradigm to be discarded: Geological and paleoecological data falsify the Haffer & Prance refuge hypothesis of Amazonian speciation. Amazoniana XVI(3/4): 609-646.

Mäki, S., Kalliola, R. & Vuorinen, K. (2001). Road construction in the Peruvian Amazon: process, causes and consequences. Environmental Conservation 28: 199-214. doi: 10.1017/S0376892901000212

Ruokolainen, K., Schulman, L. & Tuomisto, H. (2001). On Amazonian peatlands. International Mire Conservation Group Newsletter 2001/4: 8-10. [ResearchGate]

Smith, A.R., Tuomisto, H., Pryer, K.M., Hunt, J.S. & Wolf, P.G. (2001). Metaxya lanosa, a second species in the genus and fern family Metaxyaceae. Systematic Botany 26: 480-486. [BioOne]

Tuomisto, H. & Moran, R. C. (2001). Marattiaceae. Flora of Ecuador 66: 23-68. [PDF (3.7 MB)]


Mäki, S. & Kalliola, R. (2000). Visualization and communication in map-making: a case study of mapping a complex rainforest environment in Peruvian Amazonia. Cartographica 37(2): 27-42. doi: 10.3138/H547-2447-7136-023G

Ruokolainen, K. & Vormisto, J. (2000). The most widespread Amazonian palms tend to be tall and habitat generalists. Basic and Applied Ecology 1: 97-108.  DOI: 10.1078/1439-1791-00020

Tuomisto, H. & Poulsen, A. D. (2000). Pteridophyte diversity and species composition in four Amazonian rain forests. Journal of Vegetation Science 11: 383-396. DOI: 10.2307/3236631

Vormisto, J., Phillips, O., Ruokolainen, K., Tuomisto, H. & Vásquez, R. (2000). A comparison of fine-scale distribution patterns of four plant groups in an Amazonian rainforest. Ecography 23: 349-359. DOI: 10.1111/j.1600-0587.2000.tb00291.x



Rosales, J., Petts, G. & Salo, J. (1999). Riparian Flooded Forests in the Orinoco and Amazon Basin: A Comparative Review. Biodiversity and Conservation 8: 551-586. doi: 10.1023/A:1008846531941

Schulman, L., Ruokolainen, K. & Tuomisto, H. (1999). Parameters for global ecosystem models. Nature 399: 535-536. DOI: 10.1038/21100

Wesselingh, F.P., Cadée, G.C. & Renema, W. (1999). Flying high: on the airborne dispersal of aquatic organisms as illustrated by the distribution histories of the gastropod genera Tryonia and Planorbarius. Geologie en Mijnbouw 78: 165-174. doi: 10.1023/A:1003766516646

Wesselingh, F.P. & Gittenberger, E. (1999). The giant Amazonian snail (Pulmonata: Acavidae) beats them all. The Veliger 42(1): 67-71. [PDF]


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Ruokolainen, K., Linna, A. & Tuomisto, H. (1997). Use of Melastomataceae and pteridophytes for revealing phytogeographic patterns in Amazonian rain forests. Journal of Tropical Ecology 13: 243-256. DOI: 10.1017/S0266467400010439

Tuomisto, H. & Ruokolainen, K. (1997). The role of ecological knowledge in explaining biogeography and biodiversity in Amazonia. Biodiversity and Conservation 6: 347-357. DOI: 10.1023/A:1018308623229

Kalliola, R. & Flores Paitàn, S. (1997). Ecological site conditions and landuse options in Amazonian Peru. In Usò, J..L., Brebbia, C.A. & Power, H.(eds.), Ecosystems and Sustainable Development. Advances in Ecological Sciences, vol. 1, pp 253-263 [WITpress]



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Pärssinen, M. H., Salo, J. S. & Räsänen, M. E. (1996). River floodplain relocations and the abandonment of aborigine settlements in the Upper Amazon Basin: a historical case study of San Miguel de Cunibos at the Middle Ucayali River . Geoarchaeology: An International Journal 11 (4): 345-359. doi: 10.1002/(SICI)1520-6548(199607)11:4<345::AID-GEA3>3.0.CO;2-1

Tuomisto, H. & Poulsen, A. D. (1996). Influence of edaphic specialization on pteridophyte distribution in neotropical rain forests. Journal of Biogeography 23(3): 283-293. DOI: 10.1046/j.1365-2699.1996.00044.x

Tuukki, E., Jokinen, P. & Kalliola, R. (1996). Migraciónes en el río Amazonas en las últimas décadas. Folia Amazonica 8(1): 112-131. doi: 10.24841/fa.v8i1.306


de Kroon, H. & Kalliola, R. (1995). Shoot dynamics of the giant grass Gynerium sagittatum in Peruvian Amazon floodplains, a clonal plant that does show self-thinning. Oecologia 101: 124-131. doi: 10.1007/BF00328909

Puhakka, M. & Kalliola, R. (1995). Floodplain vegetation mosaics in western Amazonia. Biogeographica 71(1): 1-14.

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Tuomisto, H. & Groot, A. T. (1995). Identification of the juveniles of some ferns from western Amazonia. American Fern Journal 85(1): 1-28. Stable [JSTOR]

Tuomisto, H., Ruokolainen, K., Kalliola, R., Linna, A., Danjoy, W. & Rodriguez, Z. (1995). Dissecting Amazonian biodiversity. Science 269: 63-66. DOI: 10.1126/science.269.5220.63


Kalliola, R. & Renvoize, S. A. (1994). One or more species of Gynerium (Poaceae)? Kew Bulletin 49 (2): 305-320. doi: 10.2307/4110267

Ruokolainen, K., Tuomisto, H., Ríos, R., Torres, A. & García, M. (1994). Comparación florística de doce parcelas en bosque de tierra firme en la Amazonia peruana. Acta Amazonica 24(1/2): 31-48. [SciELO]

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Tuomisto, H. & Ruokolainen, K. (1994). Distribution of Pteridophyta and Melastomataceae along an edaphic gradient in an Amazonian rain forest. Journal of Vegetation Science 5(1): 25-34. DOI: 10.2307/3235634


Kalliola, R. Linna, A., Puhakka, M., Salo, J. & Räsänen M. (1993). Mineral nutrients from fluvial sediments in the Peruvian Amazon. Catena 20: 333-349. doi: 10.1016/0341-8162(93)90009-E

Tuomisto, H. (1993). Vegetation mapping in the rain forests of Peruvian Amazonia. Kuopio University Publications C. Natural and Environmental Sciences 14: 78-81.



Kalliola, R., Puhakka, M. & Salo, J. (1992). Intraspecific variation, and the distribution and ecology of Gynerium sagittatum (Poaceae) in the western Amazon. Flora 186: 153-167. doi: 10.1016/S0367-2530(17)30531-5

Kalliola, R. , Salo, J., Puhakka, M., Rajasilta, M., Häme, T., Neller, R. J., Räsänen, M. E. & Danjoy Arias, W. A. (1992). Upper Amazon channel migration: Implications for vegetation perturbance and succession using bitemporal Landsat MSS images. Naturwissenschaften 79: 75-79. doi: 10.1007/BF01131806

Neller, R. J., Salo, J. S. & Räsänen, M. E. (1992). On the formation of blocked valley lakes by channel avulsion in Upper Amazon foreland basins. Zeitschrift für Geomorphologie 36 (4): 401-411.

Puhakka, M., Kalliola, R., Rajasilta, M. & Salo, J. (1992). River types, site evolution and succesional vegetation patterns in Peruvian Amazonia. Journal of Biogeography 19: 651-665. doi: 10.2307/2845707

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Tuomisto, H., Ruokolainen, K. & Salo, J. (1992). Lago Amazonas: Fact or fancy? Acta Amazonica 22 (3): 353-361. doi: 10.1590/1809-43921992223361


Kalliola, R., Puhakka, M., Salo, J., Tuomisto, H. & Ruokolainen, K. (1991). The dynamics, distribution and classification of swamp vegetation in Peruvian Amazonia. Annales Botanici Fennici 28: 225-239. [JSTOR]

Kalliola, R., Salo, J., Puhakka, M. & Rajasilta, M. (1991). New site formation and colonizing vegetation in primary succession on the Western Amazon floodplains. Journal of Ecology 79: 877-901. doi: 10.2307/2261087

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