30 Works

Data from: Molecular and pollen-based vegetation analysis in lake sediments from central Scandinavia

Laura Parducci, Irina Matetovici, Sonia L. Fontana, Keith D. Bennett, Yoshihisa Suyama, James Haile, Kurt H. Kjær, Nicolaj K. Larsen, Andreas D. Drouzas, Eske Willerslev & Kurt H. Kjaer
Plant and animal biodiversity can be studied by obtaining DNA directly from the environment. This new approach in combination with the use of generic barcoding primers (metabarcoding) has been suggested as complementary or alternative to traditional biodiversity monitoring in ancient soil sediments. However, the extent to which metabarcoding truly reflects plant composition remains unclear, as does its power to identify species with no pollen or macrofossil evidence. Here, we compared pollen-based and metabarcoding approaches to...

The genus Diaphanosoma (Diplostraca: Sididae) in Greece: Morphological and molecular assessment

Rafailia Alexiou, Georgia Stamou, Styliani Minoudi, Filio Tourli, Valentina Tsartsianidou, Alexandros Triantafyllidis & Evangelia Michaloudi
For the genus Diaphanosoma Fischer (Cladocera) the species’ name “D. brachyurum” has been widely used for many decades to identify other species belonging to this genus. To clarify the diversity of the genus in Greek lakes in the present study we morphologically and genetically identified the Diaphanosoma species occurring in eight lakes. Three hundred twenty-nine Diaphanosoma individuals were morphologically examined while for the genetic analyses the mtDNA COI gene was sequenced in 48 individuals. Combining...

Pathogenic and low frequency variants in children with central precocious puberty

Vassos Neocleous, Pavlos Fanis, Meropi Toumba, Barbara Gorka, Ioanna Kousiappa, George Tanteles, Michalis Iasonides, Nicolas Nicolaides, Yiolanda Christou, Kyriaki Michailidou, Stella Nicolaou, Savvas Papacostas, Athanasios Christoforides, Andreas Kyriakou, Dimitrios Vlachakis, Nicos Skordis & Leonidas Phylactou
Background Central precocious puberty (CPP) due to premature activation of GnRH secretion results in early epiphyseal fusion and to a significant compromise in the achieved final adult height. CPP is usually idiopathic and is disproportionally observed in girls compared to boys. Currently, only few genetic determinants of children with CPP have been described and the role they exert on the development of the disorder. In this original study rare variants in MKRN3, DLK1, KISS1, KISS1R...

Data from: Genome-wide SNP data unveils the globalization of domesticated pigs

Bin Yang, Leilei Cui, Miguel Perez-Enciso, Aleksei Traspov, Richard P. M. A. Crooijmans, Natalia Zinovieva, Lawrence B. Schook, Alan Archibald, Kesinee Gatphayak, Christophe Knorr, Alex Triantafyllidis, Panoraia Alexandri, Gono Semiadi, Olivier Hanotte, Deodália Dias, Peter Dovč, Pekka Uimari, Laura Iacolina, Massimo Scandura, Martien A. M. Groenen, Lusheng Huang & Hendrik-Jan Megens
Background: Pigs were domesticated independently in Eastern and Western Eurasia early during the agricultural revolution, and have since been transported and traded across the globe. Here, we present a worldwide survey on 60K genome-wide single nucleotide polymorphism (SNP) data for 2093 pigs, including 1839 domestic pigs representing 122 local and commercial breeds, 215 wild boars, and 39 out-group suids, from Asia, Europe, America, Oceania and Africa. The aim of this study was to infer global...

Data from: The Chlamydiales pangenome revisited: structural stability and functional coherence

Fotis E. Psomopoulos, Victoria I. Siarkou, Nikolas Papanikolaou, Ioannis Iliopoulos, Athanasios S. Tsaftaris, Christos A. Ouzounis & Vasilis J. Promponas
The entire publicly available set of 37 genome sequences from the bacterial order Chlamydiales has been subjected to comparative analysis in order to reveal the salient features of this pangenome and its evolutionary history. Over 2,000 protein families are detected across multiple species, with a distribution consistent to other studied pangenomes. Of these, there are 180 protein families with multiple members, 312 families with exactly 37 members corresponding to core genes, 428 families with peripheral...

Data from: Incorporating alternative interaction modes, forbidden links and trait-based mechanisms increases the minimum trait dimensionality of ecological networks

Diogenis A. Kiziridis, Lynne Boddy, Daniel C. Eastwood, Chenggui Yuan & Mike S. Fowler
Individual-level traits mediate interaction outcomes and community structure. It is important, therefore, to identify the minimum number of traits that characterise ecological networks, i.e. their 'minimum dimensionality'. Existing methods for estimating minimum dimensionality often lack three features associated with increased trait numbers: alternative interaction modes (e.g. feeding strategies such as active vs. sit-and-wait feeding), trait-mediated 'forbidden links' and a mechanistic description of interactions. Omitting these features can underestimate the trait numbers involved, and therefore, minimum...

Kamara Mine Network

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Temporary network for local seismicity monitoring in the Kamara Mine (central Greece) area

Data from: Genomic evidence of demographic fluctuations and lack of genetic structure across flyways in a long distance migrant, the European turtle dove

Luciano Calderón, Leonardo Campagna, Thomas Wilke, Hervé Lormee, Cyril Eraud, Jenny C. Dunn, Gregorio Rocha, Pavel Zehtindjiev, Dimitrios E. Bakaloudis, Benjamin Metzger, Jacopo G. Cecere, Melanie Marx & Petra Quillfeldt
Background: Understanding how past climatic oscillations have affected organismic evolution will help predict the impact that current climate change has on living organisms. The European turtle dove, Streptopelia turtur, is a warm-temperature adapted species and a long distance migrant that uses multiple flyways to move between Europe and Africa. Despite being abundant, it is categorized as vulnerable because of a long-term demographic decline. We studied the demographic history and population genetic structure of the European...

Data from: The diverse fossil chelonians from Milia (Late Pliocene, Grevena, Greece) with a new species of Testudo Linnaeus, 1758 (Testudines: Testudinidae)

Evangelos Vlachos & Evangelia Tsoukala
The late Pliocene (early Villafranchian, MN 16a) locality of Milia (Grevena, Greece) has yielded numerous remains of mammals, such as zygodons, mastodons, rhinocerotids, hipparions, bovids, cervids, suids, carnivorans and tapirs. Several specimens of chelonians have also been discovered and comprise a small testudinid, a geoemydid and a giant tortoise. The presence of a giant tortoise and the presence of a geoemydid with large dimensions are further examples of the trend towards gigantism evidenced by the...

Data from: Morphological and taxonomic demarcation of Brachionus asplanchnoidis Charin within the Brachionus plicatilis cryptic species complex (Rotifera, Monogononta)

Evangelia Michaloudi, Scott Mills, Spiros Papakostas, Claus-Peter Stelzer, Alexander Triantafyllidis, Ilias Kappas, Kalliopi Vasileiadou, Konstantinos Proios & Theodore John Abatzopoulos
Three well-defined groups, consisting of 15 species, have recently been ascribed to organisms historically identified as the Brachionus plicatilis species complex. One of these groups, the Large-clade is composed of two named species (Brachionus plicatilis s.s. and Brachionus manjavacas) and two species identifiers (B. 'Nevada' and B. 'Austria'). B. 'Austria' has been confirmed to be B. asplanchnoidis. As no type specimen exists for this species, and the original taxonomic description is lacking in detail, we...

Data from: Characterization of an intergenic polymorphic site (pp-hC1A_5) in Wolbachia pipientis (wPip)

Michael Petridis & Dimitrios Chatzidimitriou
Wolbachia pipientis (w Pip) is an intracellular bacterium causing cytoplasmic incompatibility in arthropods including mosquitoes of the Culex pipiens complex. Here we present a method useful for genotyping within the w Pip group. Primers were designed using a Tandem Repeat Finder program to amplify an intergenic, polymorphic site (pp-hC1A_5) of w Pip. The polymorphic site is located between genes that code for polynucleotide phosphorylase and a hypothetical protein (C1A_5). Comparison of these w Pip genomic...

Data from: Reverse taxonomy applied to the Brachionus calyciflorus cryptic species complex: morphometric analysis confirms species delimitations revealed by molecular phylogenetic analysis and allows the (re)description of four species

Evangelia Michaloudi, Spiros Papakostas, Georgia Stamou, Vilém Neděla, Eva Tihlaříková, Wei Zhang & Steven A. J. Declerck
The discovery and exploration of cryptic species have been profoundly expedited thanks to developments in molecular biology and phylogenetics. In this study, we apply a reverse taxonomy approach to the Brachionus calyciflorus species complex, a commonly studied freshwater monogonont rotifer. By combining phylogenetic, morphometric and morphological analyses, we confirm the existence of four cryptic species that have been recently suggested by a molecular study. Based on these results and according to an exhaustive review of...

Assessing the effectiveness of cuttlefish traps based on lure prevalence, survival and maturity status

Kostas Ganias
Trap fishing is viewed as a low impact and fuel-efficient capture technique that is drawing increasing attention. However, due to their low capture efficiency fisheries sustainability may only be attained through improving profitability of these gears. The present study attempted to provide the necessary background for the establishment of a cuttlefish trap fishery in Thermaikos gulf (E. Mediterranean), a heavily fished area by gears of questionable sustainability such as the trammel nets. This task required...

Determination of volatile substances in olives and their effect on reproduction of the olive fruit fly

Anastasia Kokkari, Panagiotis Milonas, Eirini Anastasaki, Georgios Floros, Nikos Kouloussis & Dimitrios Koveos
Females of the olive fruit fly Bactrocera oleae lay their eggs on olives mainly using fruit volatile stimuli. Using GC-MS analysis, we determined the chemical composition of the volatile blend emitted from field-collected olive fruit of cv. Megaritiki, at different stages of growth. The identified chemicals were tested in the laboratory with regard to their effect on mating and egg production of the fly. GC-MS analysis demonstrated qualitative and quantitative differences in the headspace blend...

Data from: Delimitation of the Thoracosphaeraceae (Dinophyceae), including the calcareous dinoflagellates, based on large amounts of ribosomal RNA sequence data

Marc Gottschling, Sylvia Soehner, Carmen Zinssmeister, Uwe John, Jörg Plötner, Michael Schweikert, Katerina Aligizaki & Malte Elbrächter
The phylogenetic relationships of the Dinophyceae (Alveolata) are not sufficiently resolved at present. The Thoracosphaeraceae (Peridiniales) are the only group of the Alveolata that include members with calcareous coccoid stages; this trait is considered apomorphic. Although the coccoid stage apparently is not calcareous, Bysmatrum has been assigned to the Thoracosphaeraceae based on thecal morphology. We tested the monophyly of the Thoracosphaeraceae using large sets of ribosomal RNA sequence data of the Alveolata including the Dinophyceae....

Data from: Genetic variation and population structure in the endangered Hermann’s tortoise: the roles of geography and human-mediated processes

Melanie Perez, Barbara Livoreil, Sara Mantovani, Marie-Catherine Boisselier, Barbara Crestanello, Jawad Abdelkrim, Céline Bonillo, Vassilis Goutner, Josie Lambourdière, Massimo Pierpaoli, Bogoljub Sterijovski, Ljiljana Tomovic, Sibelle Vilaca, Stefano Mazzotti & Giorgio Bertorelle
The Hermanni’s tortoise (Testudo hermanni) is an endangered land tortoise distributed in disjoint populations across Mediterranean Europe. We investigated its genetic variation by typing one mitochondrial locus and nine nuclear microsatellites in approximately 300 individuals from 22 localities. Our goal was to understand the relative impact of natural and human-mediated processes in shaping the genetic structure, and to identify the genetic priorities for the conservation of this species. We found that i) all geographic areas...

Data from: Resisting annihilation: relationships between functional trait dissimilarity, assemblage competitive power and allelopathy

Rika M. W. Muhl, Daniel L. Roelke, Tamar Zohary, Maria Moustaka-Gouni, Ulrich Sommer, Gabor Borics, Ursula Gaedke, Frances G. Withrow & Joydeb Bhattacharyya
Allelopathic species can alter biodiversity. Using simulated assemblages that are characterised by neutrality, lumpy coexistence and intransitivity, we explore relationships between within-assemblage competitive dissimilarities and resistance to allelopathic species. An emergent behaviour from our models is that assemblages are more resistant to allelopathy when members strongly compete exploitatively (high competitive power). We found that neutral assemblages were the most vulnerable to allelopathic species, followed by lumpy and then by intransitive assemblages. We find support for...

European Database of Seismogenic Faults (EDSF)

Roberto Basili, Vanja Kastelic, Mine Betül Demircioglu, David Garcia Moreno, Eliza S. Nemser, Patrizio Petricca, Sotiris P. Sboras, Glenda M. Besana-Ostman, João Cabral, Thierry Camelbeeck, Riccardo Caputo, Laurentiu Danciu, Hilal Domaç, João Filipe de Barros Duarte Fonseca, Julián García-Mayordomo, Domenico Giardini, Branislav Glavatovic, Levent Gulen, Yigit Ince, Spyros Pavlides, Karin Sesetyan, Gabriele Tarabusi, Mara Monica Tiberti, Murat Utkucu, Gianluca Valensise … & Jochen Wössner
The European Database of Seismogenic Faults (EDSF) was compiled in the framework of the EU Project SHARE, Work Package 3, Task 3.2. EDSF includes only faults that are deemed to be capable of generating earthquakes of magnitude equal to or larger than 5.5 and aims at ensuring a homogenous input for use in ground-shaking hazard assessment in the Euro-Mediterranean area. Several research institutions participated in this effort with the contribution of many scientists (see the...

Data from: Moderation is best: effects of grazing intensity on plant-flower visitor networks in Mediterranean communities

Amparo Lázaro, Thomas Tscheulin, Jelle Devalez, Georgios Nakas, Anastasia Stefanaki, Effie Hanlidou & Theodora Petanidou
The structure of pollination networks is an important indicator of ecosystem stability and functioning. Livestock grazing is a frequent land use practice that directly affects the abundance and diversity of flowers and pollinators and, therefore, may indirectly affect the structure of pollination networks. Here we studied how grazing intensity affected the structure of plant-flower visitor networks along a wide range of grazing intensities by sheep and goats, using data from 11 Mediterranean plant-flower visitor communities...

Data from: Genetic diversity of the imperiled bath sponge Spongia officinalis Linnaeus, 1759 across the Mediterranean Sea: patterns of population differentiation and implications for taxonomy and conservation

Thanos Dailianis, Costas S Tsigenopoulos, Costas Dounas & Eleni Voultsiadou
The Mediterranean bath sponge Spongia officinalis is an iconic species with high socio-economic value and imperiled present and future status due to unregulated harvesting, mortality incidents and lack of established knowledge regarding its ecology. This study aims to assess genetic diversity and population structure of the species at different geographic sectors and levels of geographic distance along its distribution. For this purpose, 11 locations in the eastern Mediterranean (Aegean Sea), western Mediterranean (Provence coast), and...

Evolutionary rate and genetic load in an emblematic Mediterranean tree following an ancient and prolonged population collapse

Santiago C Gonzalez-Martinez, Juan Jaramillo-Correa, Francesca Bagnoli, Delphine Grivet, Bruno Fady, Filippos Aravanopoulos & Giovanni Vendramin
Severe bottlenecks significantly diminish the amount of genetic diversity and the speed at which it accumulates (i.e. evolutionary rate). They further compromise the efficiency of natural selection to eliminate deleterious variants, which may reach fixation in the surviving populations. Consequently, expanding and adapting to new environments may pose a significant challenge when strong bottlenecks result in genetic pauperization. Herein, we surveyed the patterns of nucleotide diversity, molecular adaptation and genetic load across hundreds of loci...

Dataset for estimation of the biotic and climatic niche breadths and geographic range size of beech (Fagus) species worldwide

Qiong Cai, Erik Welk, Chengjun Ji, Wenjing Fang, Francesco Maria Sabatini, Jianxiao Zhu, Jiangling Zhu, Zhiyao Tang, Fabio Attorre, Juan Antonio Campos, Andraž Čarni, Milan Chytrý, Süleyman Çoban, Jürgen Dengler, Jiri Dolezal, Richard Field, József Pál Frink, Hamid Gholizadeh, Adrian Indreica, Ute Jandt, Dirk Nikolaus Karger, Jonathan Lenoir, Robert K. Peet, Remigiusz Pielech, Michele De Sanctis … & Helge Bruelheide
This dataset could be used to test whether the commonly observed positive range size–niche breadth relationship, as posited by the “niche breadth hypothesis”, exists for Fagus, one of the most dominant and widespread broad‐leaved deciduous tree genera in temperate forests of the Northern Hemisphere. There are many ways to estimate niche breadth. Here, we estimated biotic and climatic niche breadths per species using plot‐based co‐occurrence data and climate data, respectively. The range sizes of the...

Data from: Testing macroecological abundance patterns: the relationship between local abundance and range size, range position and climatic suitability among European vascular plants

Maria Sporbert, Petr Keil, Gunnar Seidler, Helge Bruelheide, Ute Jandt, Svetlana Aćić, Idoia Biurrun, Juan Antonio Campos, Andraž Čarni, Milan Chytrý, Renata Custerevska, Jürgen Dengler, Valentin Golub, Florian Jansen, Anna Kuzemko, Jonathan Lenoir, Corrado Marcenò, Jesper Erenskjold Moeslund, Aaron Pérez-Haase, Solvita Rūsiņa, Urban Šilc, Ioannis Tsiripidis, Vigdis Vandvik, Kiril Vassilev, Risto Virtanen … & Erik Welk
Aim: A fundamental question in macroecology centres around understanding the relationship between species’ local abundance and their distribution in geographic and climatic space (i.e. the multi-dimensional climatic space or climatic niche). Here, we tested three macroecological hypotheses that link local abundance to the following range properties: (1) the abundance-range size relationship, (2) the abundance-range centre relationship, and (3) the abundance-suitability relationship. Location: Europe Taxon: Vascular plants Methods: Distribution range maps were extracted from the Chorological...

An experimental test of the Growth Rate Hypothesis as a predictive framework for microevolutionary adaptation

Kimberley Lemmen, Libin Zhou, Spiros Papakostas & Steven Declerck
The growth rate hypothesis (GRH), a central concept of ecological stoichiometry, posits that the relative body phosphorus content of an organism is positively related to somatic growth rate as protein synthesis, which is necessary for growth, requires P-rich rRNA and has strong support at the interspecific level. Here, we explore the use of the GRH to predict microevolutionary responses in consumer body stoichiometry. For this, we subjected zooplankton populations to selection for fast population growth...

Data from: Genome-wide single nucleotide polymorphism analysis reveals recent genetic introgression from domestic pigs into Northwest European wild boar populations

Daniel J. Goedbloed, Hendrik-Jan Megens, Pim Van Hooft, Juanma M. Herrero-Medrano, Walburga Lutz, Panoraia Alexandri, Richard P. M. A. Crooijmans, Sip E. Van Wieren, Ronald C. Ydenberg, Herbert H. T. Prins & Martien Groenen
Present-day genetic introgression from domestic pigs into European wild boar has been suggested in various studies. However, no hybrids have been identified beyond doubt mainly because available methods were unable to quantify the extent of introgression and rule out natural processes. Genetic introgression from domestic pigs may have far-reaching ecological consequences by altering traits like the reproduction rate or immunology of wild boar. In this study, we demonstrate a novel approach to investigate genetic introgression...

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Resource Types

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Affiliations

  • Aristotle University of Thessaloniki
    29
  • University of the Basque Country
    2
  • University of Crete
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  • Aarhus University
    2
  • University of Nottingham
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  • University of Picardie Jules Verne
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  • Bulgarian Academy of Sciences
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  • Masaryk University
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  • University of Cyprus
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  • Alfred Wegener Institute for Polar and Marine Research
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