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Université de Neuchâtel

High-throughput sequencing of litter and moss eDNA reveals a positive correlation between the diversity of Apicomplexa and their invertebrate hosts across alpine habitats

Singer, David ; Duckert, Clément ; Heděnec, Petr ; Lara, Enrique ; Hiltbrunner, Erika ; Mitchell, Edward A.D

In: Soil Biology & Biochemistry, 2020, vol. 147, no. art. 107837, p. 1-4

A high diversity of Apicomplexa was recently found in tropical soils presumably reflecting the diversity of their invertebrate hosts, but such patterns have not been explored in colder regions. We analysed the diversity of Apicomplexa and their potential metazoan hosts in litter and mosses collected in 11 different alpine habitats using an eDNA metabarcoding approach. The abundance and diversity...

Université de Neuchâtel

Dispersal limitations and historical factors determine the biogeography of specialized terrestrial protists

Singer, David ; Mitchell, Edward A. D ; Payne, Richard J ; Blandenier, Quentin ; Duckert, Clément ; Fernández, Leonardo D ; Fournier, Bertrand ; Hernández, Cristián E ; Granath, Gustaf ; Rydin, Håkan ; Bragazza, Luca ; Koronatova, Natalia G ; Goia, Irina ; Harris, Lorna I ; Kajukało, Katarzyna ; Kosakyan, Anush ; Lamentowicz, Mariusz ; Kosykh, Natalia P ; Vellak, Kai ; Lara, Enrique

In: Molecular Ecology, 2019, vol. 28, no. 12, p. 3089-3100

Recent studies show that soil eukaryotic diversity is immense and dominated by micro‐organisms. However, it is unclear to what extent the processes that shape the distribution of diversity in plants and animals also apply to micro‐organisms. Major diversification events in multicellular organisms have often been attributed to long‐term climatic and geological processes, but the impact of...

Université de Neuchâtel

En garde! Redefinition of Nebela militaris (Arcellinida, Hyalospheniidae) and erection of Alabasta gen. nov.

Duckert, Clément ; Blandenier, Quentin ; Kupferschmid, Fanny A. L ; Kosakyan, Anush ; Mitchell, Edward A.D ; Lara, Enrique ; Singer, David

In: European Journal of Protistology, 2018, vol. 66, p. 156-165

Molecular data have considerably contributed to building the taxonomy of protists. Recently, the systematics of Hyalospheniidae (Amoebozoa; Tubulinea; Arcellinida) has been widely revised, with implications extending to ecological, biogeographical and evolutionary investigations. Certain taxa, however, still have an uncertain phylogenetic position, including the common and conspicuous species...

Université de Neuchâtel

Eight species in the Nebela collaris complex : Nebela gimlii (Arcellinida,Hyalospheniidae), a new species described from a Swiss raised bog

Singer, David ; Kosakyan, Anush ; Pillonel, Amandine ; Mitchell, Edward A.D ; Lara, Enrique

In: European Journal of Protistology, 2015, vol. 51, no. 1, p. 79-85

We describe here a new species of sphagnicolous testate amoeba found abundantly in the forested part of the Le Cachot peatland (Jura Mountains, Neuchâtel, Switzerland) based on microscopical observations (LM, SEM). The new species, called Nebela gimlii was placed in a phylogenetic tree based on mitochondrial cytochrome oxidase sequences (COI), and branched robustly within the N....

Université de Neuchâtel

Microbial eukaryote communities exhibit robust biogeographical patterns along a gradient of Patagonian and Antarctic lakes

Schiaffino, M. Romina ; Lara, Enrique ; Fernández, Leonardo D ; Balagué, Vanessa ; Singer, David ; Seppey, Christophe C. W ; Massana, Ramon ; Izaguirre, Irina

In: Environmental Microbiology, 2016, vol. 18, no. 12, p. 5249–5264

Microbial eukaryotes play important roles in aquatic ecosystem functioning. Unravelling their distribution patterns and biogeography provides important baseline information to infer the underlying mechanisms that regulate the biodiversity and complexity of ecosystems. We studied the distribution patterns and factors driving diversity gradients in microeukaryote communities (total, abundant,...

Université de Neuchâtel

Parasites dominate hyperdiverse soil protist communities in Neotropical rainforests

Mahé, Frédéric ; de Vargas, Colomban ; Bass, David ; Czech, Lucas ; Stamatakis, Alexandros ; Lara, Enrique ; Singer, David ; Mayor, Jordan ; Bunge, John ; Sernaker, Sarah ; Siemensmeyer, Tobias ; Trautmann, Isabelle ; Romac, Sarah ; Berney, Cédric ; Kozlov, Alexey ; Mitchell, Edward A. D ; Seppey, Christophe V. W ; Egge, Elianne ; Lentendu, Guillaume ; Wirth, Rainer ; Trueba, Gabriel ; Dunthorn, Micah

In: NATURE ECOLOGY & EVOLUTION, 2017, vol. 1, no. art no 0091, p. 1-8

High animal and plant richness in tropical rainforest communities has long intrigued naturalists. It is unknown if similar hyperdiversity patterns are reflected at the microbial scale with unicellular eukaryotes (protists). Here we show, using environmental metabarcoding of soil samples and a phylogeny-aware cleaning step, that protist communities in Neotropical rainforests are hyperdiverse and...

Université de Neuchâtel

Soil protistology rebooted : 30 fundamental questions to start with

Geisen, Stefan ; Mitchell, Edward A.D ; Wilkinson, David M ; Adl, Sina ; Bonkowski, Michael ; Brown, Matthew W ; Fiore-Donno, Anna Maria ; Heger, Thierry J ; Jassey, Vincent E.J ; Krashevska, Valentyna ; Lahr, Daniel J.G ; Marcisz, Katarzyna ; Mulot, Matthieu ; Payne, Richard ; Singer, David ; Anderson, Roger O ; Charman, Dan J ; Ekelund, Flemming ; Griffiths, Bryan S ; Rønn, Regin ; Smirnov, Alexey ; Bass, David ; Belbahri, Lassaâd ; Berney, Cédric ; Blandenier, Quentin ; Chatzinotas, Antonis ; Clarholm, Marianne ; Dunthorn, Micah ; Feest, Alan ; Fernández, Leonardo D ; Foissner, Wilhelm ; Fournier, Bertrand ; Gentekaki, Eleni ; Hájek, Michal ; Helder, Johannes ; Jousset, Alexandre ; Koller, Robert ; Kumar, Santosh ; La Terza, Antonietta ; Lamentowicz, Mariusz ; Mazei, Yuri ; Santos, Susana S ; Seppey, Christophe V.W ; Spiegel, Frederick W ; Walochnik, Julia ; Winding, Anne ; Lara, Enrique

In: Soil Biology & Biochemistry, 2017, vol. 111, no. 94-103, p. 2017

Protists are the most diverse eukaryotes. These microbes are keystone organisms of soil ecosystems and regulate essential processes of soil fertility such as nutrient cycling and plant growth. Despite this, protists have received little scientific attention, especially compared to bacteria, fungi and nematodes in soil studies. Recent methodological advances, particularly in molecular biology...

Université de Neuchâtel

Mycamoeba gemmipara nov. gen., nov. sp., the First Cultured Member of the Environmental Dermamoebidae Clade LKM74 and its Unusual Life Cycle

Blandenier, Quentin ; Seppey, Christophe V. W ; Singer, David ; Vlimant, Michèle ; Simon, Anaële ; Duckert, Clément ; Lara, Enrique

In: Journal of Eukaryotic Microbiology, 2017, vol. 64, no. 2, p. 257-265

Since the first environmental DNA surveys, entire groups of sequences called “environmental clades” did not have any cultured representative. LKM74 is an amoebozoan clade affiliated to Dermamoebidae, whose presence is pervasively reported in soil and freshwater. We obtained an isolate from soil that we assigned to LKM74 by molecular phylogeny, close related to freshwater clones. We described...