Vignette d'image

Lara, Enrique

Nom
Lara, Enrique
Affiliation principale
Identifiants
https://libra.unine.ch/handle/123456789/360

Résultat de la recherche

Filtres

4
4
4
Réinitialiser les filtres

Paramètres

Voici les éléments 1 - 4 sur 4
  • Publication
    Accès libre
    Comparing Potential COI and SSU rDNA Barcodes for Assessing the Diversity and Phylogenetic Relationships of Cyphoderiid Testate Amoebae (Rhizaria: Euglyphida)
    (2011)
    Heger, Thierry J.
    ;
    Pawlowski, Jan
    ;
    Lara, Enrique 
    ;
    Leander, Brian S.
    ;
    Todorov, Milcho
    ;
    Golemansky, Vassil
    ;
    Mitchell, Edward 
    The mitochondrial Cytochrome Oxidase Subunit 1 gene (COI) has been promoted as an ideal “DNA barcode” for animal species and other groups of eukaryotes. However, the utility of the COI marker for species level discrimination and for phylogenetic analyses has yet to be tested within the Rhizaria. Accordingly, we analysed mitochondrial COI gene sequences and nuclear small subunit rDNA (SSU) sequences from several morphospecies of euglyphid testate amoebae (Cercozoa, Rhizaria) in order to evaluate the utility of these DNA markers for species discrimination and phylogenetic reconstructions. Sequences were obtained from eleven populations belonging to six Cyphoderia morphospecies that were isolated from field samples in North America and Europe. Mean inter-population COI sequence dissimilarities were on average 2.9 times greater than in the SSU, while the intra-population sequence dissimilarities were higher in the SSU (0-0.95%) than in the COI (0%); this suggests that the COI fragment is valuable for discriminating Cyphoderiidae isolates. Our study also demonstrated that COI sequences are useful for inferring phylogenetic relationships among Cyphoderiidae isolates. COI and SSU tree topologies were very similar even though the COI fragment used in these analyses (500 bp) was much shorter than the SSU sequences (1600 bp). Altogether, these results demonstrate the utility of the COI as a potential taxonomic DNA barcode for assessing cyphoderiid species diversity and for inferring phylogenetic relationships within the group.
  • Publication
    Accès libre
    COI gene and ecological data suggest size-dependent high dispersal and low intra-specific diversity in free-living terrestrial protists (Euglyphida: Assulina)
    (2010)
    Lara, Enrique 
    ;
    Heger, Thierry J.
    ;
    Scheihing, Rodrigo
    ;
    Mitchell, Edward 
    Aim  Propagule size and ecological requirements are believed to be major factors influencing the passive dispersal of free-living terrestrial protists. We compared the colonization potential of three closely related testate amoeba species (Assulina muscorum, A. seminulum, A. scandinavica, ranging from 40 to 100 μm in length).
    Location  Europe.
    Methods  We collected individual Assulina species cells from Sphagnum peatlands across Europe. We sequenced a 550-bp fragment of the mitochondrial cytochrome c oxidase subunit I gene (COI) to estimate the within-species variability, as a proxy for gene flow. We reviewed existing ecological and palaeoecological data to assess the ecological tolerance of Assulina species and how rapidly they colonized developing peatlands.
    Results  We obtained COI sequences for 30 individuals of A. seminulum from eleven sites, for 39 of A. muscorum from six sites, and for six of A. scandinavica from two sites. We observed three haplotypes for A. seminulum and two for A. muscorum, often co-existing in the same sites. The sequences of A. scandinavica from the two sites were identical. Assulina muscorum and A. seminulum haplotypes varied by only 1–2 nucleotides, resulting in >99.5% similarity. Genetic diversity within A. seminulum was higher than that within A. muscorum. Ecological and palaeoecological records showed that A. muscorum was much more frequent and abundant than A. seminulum, and had a somewhat broader ecological tolerance for pH, moisture and water-table depth. Assulina muscorum always appeared early during the developmental history of peatlands, either before or simultaneously with A. seminulum.
    Main conclusions  The lack of genetic structure observed with a variable marker such as COI suggests high gene flow between the sites and thus rapid transport (at an evolutionary scale) over large distances, in agreement with the palaeoecological records. Thus, geographical distance alone does not seem to prevent the dispersal of testate amoebae, at least within Europe. Nevertheless, genetic diversity was significantly lower within A. muscorum than within A. seminulum, suggesting that its smaller size and abundance and/or broader ecological tolerance influence its effective dispersal capacity. These results are in agreement with the often earlier colonization of peatlands by A. muscorum and its broader ecological tolerance.
  • Publication
    Accès libre
    Ribosomal RNA Genes Challenge the Monophyly of the Hyalospheniidae (Amoebozoa: Arcellinida)
    (2008)
    Lara, Enrique 
    ;
    Heger, Thierry J.
    ;
    Ekelund, Flemming
    ;
    Lamentowicz, Mariucz
    ;
    Mitchell, Edward 
    To date only five partial and two complete SSU rRNA gene sequences are available for the lobose testate amoebae (Arcellinida). Consequently, the phylogenetic relationships among taxa and the definition of species are still largely dependant on morphological characters of uncertain value, which causes confusion in the phylogeny, taxonomy and the debate on cosmopolitanism of free-living protists. Here we present a SSU rRNA-based phylogeny of the Hyalospheniidae including the most common species. Similar to the filose testate amoebae of the order Euglyphida the most basal clades have a terminal aperture; the ventral position of the pseudostome appears to be a derived character. Family Hyalospheniidae appears paraphyletic and is separated into three clades: (1) Heleopera sphagni, (2) Heleopera rosea and Argynnia dentistoma and (3) the rest of the species from genera Apodera, Hyalosphenia, Porosia and Nebela. Our data support the validity of morphological characters used to define species among the Hyalospheniidae and even suggest that taxa described as varieties may deserve the rank of species (e.g. N. penardiana var. minor). Finally our results suggest that the genera Hyalosphenia and Nebela are paraphyletic, and that Porosia bigibbosa branches inside the main Nebela clade.
  • Publication
    Accès libre
    SSU rRNA Reveals a Sequential Increase in Shell Complexity Among the Euglyphid Testate Amoebae (Rhizaria: Euglyphida)
    (2007)
    Lara, Enrique 
    ;
    Heger, Thierry J.
    ;
    Mitchell, Edward 
    ;
    Meisterfeld, Ralf
    ;
    Ekelund, Flemming
    The existing data on the molecular phylogeny of filose testate amoebae from order Euglyphida has revealed contradictions between traditional morphological classification and SSU rRNA phylogeny and, moreover, the position of several important genera remained unknown. We therefore carried out a study aiming to fill several important gaps and better understand the relationships among the main euglyphid testate amoebae and the evolutionary steps that led to the present diversity at a higher level.
    We obtained new SSU rRNA sequences from five genera and seven species. This new phylogeny obtained shows that (1) the clade formed by species of genera Assulina and Placocista branches unambiguously at the base of the subclade of Euglyphida comprising all members of the family Trinematidae and genus Euglypha, (2) family Trinematidae (Trachelocorythion, Trinema, and Corythion) branches as a sister group to genus Euglypha, (3) three newly sequenced Euglypha species (E. cf. ciliata, E. penardi, and E. compressa) form a new clade within the genus.
    Since our results show that Assulina and Placocista do not belong to the Euglyphidae (unless the Trinematidae are also included in this family), we propose the creation of a new family named Assulinidae. Consequently, we give a family status to the genera Euglypha and (tentatively) Scutiglypha, which become the new family Euglyphidae.
    The evolutionary pattern suggested by SSU rRNA phylogeny shows a clear tendency towards increasing morphological complexity of the shell characterised by changes in the symmetry (migration of the aperture to a ventral position and/or compression of the shell) and the appearance of specialised scales at the aperture (in families Trinematidae and Euglyphidae).