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Macroecology of hyalospheniid testate amoebae (Amoebozoa; Arcellinida) from regional to global scales

English title Macroecology of hyalospheniid testate amoebae (Amoebozoa; Arcellinida) from regional to global scales
Applicant Lara Enrique
Number 163254
Funding scheme Project funding (Div. I-III)
Research institution Laboratoire de biologie du sol Institut de biologie Université de Neuchâtel
Institution of higher education University of Neuchatel - NE
Main discipline Ecology
Start/End 01.02.2016 - 31.12.2019
Approved amount 325'706.00
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Keywords (6)

Metabarcoding; Distribution; Phylogeography; Protist; Diversity gradient; Variable marker

Lay Summary (French)

Lead
Les tous derniers développements technologiques en matière de séquençage environnementale ont permis de révéler une diversité environnementale de micro-eucaryotes insoupçonnée. Aujourd'hui, il est temps de comprendre quelles sont les lois qui régissent la distribution de ces organismes dans l'espace, ainsi que la génération de cette biodiversité. C'est le but de ce projet, qui se propose d'étudier la répartition spatiale de la diversité de protistes et de vérifier ainsi l'application des hypothèses macro-écologiques et biogéographiques établies pour des organismes macroscopiques au monde microscopique.
Lay summary

On a découvert par séquençage environnemental l’existence d’une diversité extrêmement importante de micro-eucaryotes à des niveaux taxonomiques larges. Cependant, notre connaissance de cette diversité au niveau de l’espèce est encore très imparfaite. Il s’agit d’un obstacle majeur à notre connaissance de leur macroécologie et de leur biogéographie. En effet, le cadre théorique dans lequel se sont développées ces disciplines est basé sur des organismes macroscopiques (plantes et animaux) et sur des données au niveau de l’espèce. C’est pourquoi il est actuellement impossible de comprendre les patrons qui gouvernent la distribution des protistes à l’échelle du paysage ou continentale.
Ce projet cherche à étudier les patrons de diversité d’un groupe qui constitue un excellent modèle en macro-écologie et biodiversité des protistes: la famille des hyalosphénidés (amibes à thèque). Je vais tester comment les paradigmes classiques de la macroécologie s’appliquent à la distribution des hyalosphénidés à différentes échelles spatiales. Je vais me concentrer sur trois groupes qui diffèrent fondamentalement dans leurs exigences:

(A) Le groupe de Padaungiella-Alocodera, à large tolérance écologique

(B) Le complexe Nebela tincta, surtout restreint aux tourbières

(C) Le complexe Hyalosphenia papilio, restreints aux milieux les plus oligotrophes dans les tourbières.

Pour chacun de ces groupes, je vais (1) évaluer des dynamiques à court terme dans la variation spatiale de la diversité en utilisant différentes hypothèses classiques en écologie (ex: effet Rapoport, espèces/énergie, équilibre eau/énergie) et (2) tester des hypothèses historiques qui pourraient avoir influencé les patrons de distribution géographique. Ces hypothèses vont être testées sur tous les groupes dans des gradients altitudinaux (à l’échelle Suisse), sur un échantillonnage circumboréal ainsi qu’un échantillonnage large dans le sud de la région Néotropicale.

Direct link to Lay Summary Last update: 12.10.2015

Responsible applicant and co-applicants

Employees

Publications

Publication
Phylogenetic divergence within the Arcellinida (Amoebozoa) is congruent with test size and metabolism type
Macumber Andrew L., Blandenier Quentin, Todorov Milcho, Duckert Clément, Lara Enrique, Lahr Daniel J.G., Mitchell Edward A.D., Roe Helen M. (2020), Phylogenetic divergence within the Arcellinida (Amoebozoa) is congruent with test size and metabolism type, in European Journal of Protistology, 72, 125645-125645.
Global distribution of Trebouxiophyceae diversity explored by high‐throughput sequencing and phylogenetic approaches
Metz Sebastian, Singer David, Domaizon Isabelle, Unrein Fernando, Lara Enrique (2019), Global distribution of Trebouxiophyceae diversity explored by high‐throughput sequencing and phylogenetic approaches, in Environmental Microbiology, 21(10), 3885-3895.
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 (2019), Dispersal limitations and historical factors determine the biogeography of specialized terrestrial protists, in Molecular Ecology, 28(12), 3089-3100.
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 (2018), En garde! Redefinition of Nebela militaris (Arcellinida, Hyalospheniidae) and erection of Alabasta gen. nov., in European Journal of Protistology, 66, 156-165.
Environmental filtering and phylogenetic clustering correlate with the distribution patterns of cryptic protist species
Singer David, Kosakyan Anush, Seppey Christophe V. W., Pillonel Amandine, Fernández Leonardo D., Fontaneto Diego, Mitchell Edward A. D., Lara Enrique (2018), Environmental filtering and phylogenetic clustering correlate with the distribution patterns of cryptic protist species, in Ecology, 99(4), 904-914.
Soil protists: a fertile frontier in soil biology research
Geisen Stefan, Mitchell Edward A D, Adl Sina, Bonkowski Michael, Dunthorn Micah, Ekelund Flemming, Fernández Leonardo D, Jousset Alexandre, Krashevska Valentyna, Singer David, Spiegel Frederick W, Walochnik Julia, Lara Enrique (2018), Soil protists: a fertile frontier in soil biology research, in FEMS Microbiology Reviews, 42(3), 293-323.
Quadrulella texcalense sp. nov. from a Mexican desert: An unexpected new environment for hyalospheniid testate amoebae
Pérez-Juárez Horacio, Serrano-Vázquez Angélica, Kosakyan Anush, Mitchell Edward A.D., Rivera Aguilar Víctor M., Lahr Daniel J.G., Hernández Moreno Mayra M., Cuellar Humberto Macías, Eguiarte Luis E., Lara Enrique (2017), Quadrulella texcalense sp. nov. from a Mexican desert: An unexpected new environment for hyalospheniid testate amoebae, in European Journal of Protistology, 61, 253-264.
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 O. Roger, Charman Dan J., Ekelund Flemming, Griffiths Bryan S., Rønn Regin, Smirnov Alexey, Bass David, Belbahri Lassaâd, Berney Cédric, et al. (2017), Soil protistology rebooted: 30 fundamental questions to start with, in Soil Biology and Biochemistry, 111, 94-103.

Collaboration

Group / person Country
Types of collaboration
Grupo de biodiversidad, limnología y biología de la conservación, Universidad Nacional de San Martín Argentina (South America)
- in-depth/constructive exchanges on approaches, methods or results
molecular ecology and evolution of protists/Université de Genève Switzerland (Europe)
- in-depth/constructive exchanges on approaches, methods or results
- Research Infrastructure
Laboratorio de Ecología Evolutiva y Filoinformática/University of Concepción Chile (South America)
- in-depth/constructive exchanges on approaches, methods or results

Scientific events

Active participation

Title Type of contribution Title of article or contribution Date Place Persons involved
International Symposium on Testate Amoebae ISTA9 Talk given at a conference Exploring the phylogeography of hyalospheniid testate amoebae (Amoebozoa) from regional to sub-continental scales. 10.09.2019 Belfast, Great Britain and Northern Ireland Blandenier Quentin; Mitchell Edward; Lara Enrique; Singer David;
VII ECOP-ISOP meeting (Rome) Talk given at a conference Using High Throughput Sequencing DNA metabarcoding to assess diversity patterns of Nebela (Amoebozoa; Arcellinida) along an elevation gradient. 28.07.2019 Roma, Italy Singer David; Mitchell Edward; Lara Enrique; Blandenier Quentin;
VII ECOP-ISOP (Rome) Talk given at a conference «Shallow» (species-level) diversity in Arcellinida, a ground for ecological research. 28.07.2019 Rome, Italy Singer David; Blandenier Quentin; Lara Enrique;
38. Deutsche Gesellschaft für Protozoologie Meeting Talk given at a conference Taxonomic revision of Nebela militaris, based on morphology, molecules…and history! 20.02.2019 Wien, Austria Blandenier Quentin; Lara Enrique; Mitchell Edward; Singer David;
9th biennal meeting of the International Biogeography Society Talk given at a conference Dispersal limitations and historical factors determine the biogeography of terrestrial protists. 08.01.2019 Malaga, Spain Lara Enrique; Singer David; Mitchell Edward; Blandenier Quentin;
International Symposium on Testate Amoebae ISTA9, Belfast, Northern Ireland Talk given at a conference Evaluation of the environmental quality in catchment lakes from the Community of Madrid using metabarcoding and transcriptomic approaches on benthic testate amoebae. 10.09.2018 Belfast, Great Britain and Northern Ireland Lara Enrique; Singer David;
37. Meeting Deutsche Gesellschaft für Protozoologie Talk given at a conference Exploring the phylogeography of hyalospheniid testate amoebae (Amoebozoa) from regional to sub-continental scales. 28.02.2018 Cologne, Germany Blandenier Quentin; Mitchell Edward; Lara Enrique; Singer David;
15th International Congress of Protistology Talk given at a conference A molecular survey of genus Nebela s. str. diversity, ecology and geographical distribution. 30.07.2017 Prague, Czech Republic Mitchell Edward; Lara Enrique; Blandenier Quentin; Singer David;
36. Meeting Deutsche Gesellschaft für Protozoologie Meeting Talk given at a conference Born in the USA; a molecular phylogeography of Hyalosphenia papilio. 21.02.2017 Meissen, Germany Singer David; Lara Enrique; Mitchell Edward; Blandenier Quentin;
International Symposium on Testate Amoebae ISTA8 Talk given at a conference Soil Microorganisms behave like macroscopic organisms: Patterns in the global distributions of soil euglyphid testate amoebae 12.09.2016 Ilhabela (SP), Brazil Lara Enrique;
35. Meeting of the German Society of Protistology Talk given at a conference Environmental diversity of cryptic species from the Nebela collaris complex is strongly correlated with environmental filters. 23.02.2016 Saignelégier, Switzerland Mitchell Edward; Singer David; Lara Enrique;


Communication with the public

Communication Title Media Place Year
Print (books, brochures, leaflets) Amibes pour la vie Western Switzerland 2016
Media relations: radio, television Saignelégier à l'heure scientifique Radio France Jura Western Switzerland 2016

Awards

Title Year
Hutner Prize 2019, Presented annually, to a member of the International Society of Protistologists within 15 years of their PhD (or comparable terminal degree) who has made outstanding contributions in some area(s) of protistology. 2019
Helen Tappan, Early Career Researcher Award 2018 Awarded by the International Society of Testate Amoeba Reseachers - ISTAR to early carreer researchers 2018
Karl Gottlieb Grell Award 2018 Awarded by German Society of Protozoology in recognition of an outstanding PhD in the field of protistological research. 2018
Prix Jean-Luc Crélerot 2018 Given by the University of Neuchâtel to acknowledge an outstanding PhD in the field of "organisms evolution" 2018

Associated projects

Number Title Start Funding scheme
143960 Is everything everywhere? A metabarcoding approach to protist biogeography 01.02.2013 Project funding (Div. I-III)
182531 Biodiversity and biogeography of soil protists in continental and oceanic islands 01.01.2019 Project funding (Div. I-III)
143960 Is everything everywhere? A metabarcoding approach to protist biogeography 01.02.2013 Project funding (Div. I-III)

Abstract

Recent environmental barcoding studies are showing that microbial eukaryotes may represent the largest part of the world’s diversity. We are now aware of the existence of previously unsuspected deep branching and ultradiverse protist phyla, which are regularly inflating our estimations on diversity. However, knowledge of diversity at fine taxonomical level (i.e. species level) is still very uneven among groups. This is a major burden for our understanding of their macroecology and biogeography, as all theories have been developed on macroscopic multicellular organisms (mainly plants and animals) and are based on data set with resolution at the species level. As a consequence, we are unable to understand the patterns that govern protist distribution from the landscape to continental scales. In this project, we propose to study the diversity patterns of three clades of protists from a group for which we have a long standing working experience and which is an ideal model for microbial macroecology and biogeography: the hyalospheniid testate amoebae (Amoebozoa; Arcellinida; Hyalospheniidae). We focus specifically at the species level using molecular methods we developed to target specifically this taxonomic resolution level.Our aim in this project is to test how classical macroecological paradigms apply to the distribution of hyalospheniid testate amoebae from the local to the global scale. We will investigate the molecular species-level diversity of three groups that differ deeply in their lifestyles: (A) the Alocodera-Padaungiella group, which has broad ecological tolerance from wet oligotrophic peatlands to forest litter (B) the Nebela tincta complex, which is mainly restricted to peatlands, and (C) the Hyalosphenia papilio species complex, which is mixotrophic and is restricted to oligotrophic habitats in Sphagnum peatlands. For these three groups, we will (I) evaluate the influence of short-term dynamics on the spatial variation of diversity using different classical ecological hypotheses (Rapoport effect, species-energy, water-energy balance and mid-domain effect) and (II) test historical hypotheses to account for the possible influence of long-term dynamic in shaping patterns of geographic distribution. These hypotheses will be tested on the relevant groups in an altitudinal gradient (at the Swiss scale), a circumboreal extensive sampling and a broad sampling in the Southern Neotropics.
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